Query 002254
Match_columns 947
No_of_seqs 279 out of 1289
Neff 5.0
Searched_HMMs 46136
Date Thu Mar 28 19:58:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002254.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002254hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK14908 glycyl-tRNA synthetas 100.0 0E+00 0E+00 2928.2 89.2 932 1-944 55-1000(1000)
2 COG0751 GlyS Glycyl-tRNA synth 100.0 5E-213 1E-217 1822.9 62.2 682 262-946 2-691 (691)
3 PRK01233 glyS glycyl-tRNA synt 100.0 2E-212 5E-217 1850.8 66.1 676 264-946 2-682 (682)
4 TIGR00211 glyS glycyl-tRNA syn 100.0 3E-212 6E-217 1852.0 66.7 683 263-945 3-691 (691)
5 PF02092 tRNA_synt_2f: Glycyl- 100.0 2E-183 3E-188 1573.3 55.0 543 266-810 1-547 (548)
6 COG0752 GlyQ Glycyl-tRNA synth 100.0 1E-135 3E-140 1045.9 21.0 239 1-239 55-297 (298)
7 TIGR00388 glyQ glycyl-tRNA syn 100.0 1E-135 3E-140 1057.7 21.7 238 1-238 51-292 (293)
8 cd00733 GlyRS_alpha_core Class 100.0 1E-133 3E-138 1037.3 20.3 230 1-230 50-279 (279)
9 PRK09348 glyQ glycyl-tRNA synt 100.0 2E-133 5E-138 1037.2 20.9 230 1-230 54-283 (283)
10 PF02091 tRNA-synt_2e: Glycyl- 100.0 3E-134 6E-139 1049.1 8.2 236 1-236 49-284 (284)
11 cd07956 Anticodon_Ia_Arg Antic 99.4 2.2E-13 4.7E-18 136.0 8.2 111 834-944 35-150 (156)
12 smart00836 DALR_1 DALR anticod 99.3 7.3E-13 1.6E-17 126.2 5.0 101 841-941 4-113 (122)
13 PF05746 DALR_1: DALR anticodo 98.9 3.6E-10 7.8E-15 107.0 2.1 104 838-941 1-110 (119)
14 TIGR00295 conserved hypothetic 96.5 0.021 4.5E-07 58.4 10.7 100 616-719 12-124 (164)
15 PRK12705 hypothetical protein; 96.2 0.028 6E-07 67.0 10.8 100 611-720 316-416 (508)
16 PRK12704 phosphodiesterase; Pr 96.0 0.041 9E-07 65.9 11.1 100 611-720 328-428 (520)
17 cd00768 class_II_aaRS-like_cor 95.5 0.018 3.8E-07 58.8 5.1 107 2-114 80-211 (211)
18 TIGR03319 YmdA_YtgF conserved 95.3 0.094 2E-06 62.8 10.9 105 606-720 317-422 (514)
19 TIGR00488 putative HD superfam 95.1 0.14 3.1E-06 51.7 10.0 100 618-725 9-127 (158)
20 PF01966 HD: HD domain; Inter 95.1 0.067 1.4E-06 49.3 7.1 101 619-720 2-121 (122)
21 PRK07152 nadD putative nicotin 94.9 0.12 2.6E-06 58.6 9.9 95 618-720 197-308 (342)
22 PRK12703 tRNA 2'-O-methylase; 94.8 0.2 4.4E-06 57.1 11.2 96 618-720 188-294 (339)
23 PRK00106 hypothetical protein; 94.8 0.15 3.3E-06 61.3 10.7 105 605-719 337-442 (535)
24 smart00471 HDc Metal dependent 94.8 0.43 9.4E-06 43.2 11.5 105 617-724 4-118 (124)
25 TIGR00456 argS arginyl-tRNA sy 94.7 0.15 3.2E-06 61.7 10.4 109 831-940 442-556 (566)
26 COG0018 ArgS Arginyl-tRNA synt 94.3 0.073 1.6E-06 64.5 6.5 107 833-940 454-567 (577)
27 PRK12451 arginyl-tRNA syntheta 94.2 0.072 1.6E-06 64.4 6.3 103 835-940 447-552 (562)
28 PRK13902 alaS alanyl-tRNA synt 93.0 0.11 2.3E-06 66.1 5.1 196 3-213 122-354 (900)
29 COG1418 Predicted HD superfami 90.7 0.6 1.3E-05 50.3 6.9 117 601-722 20-146 (222)
30 cd00077 HDc Metal dependent ph 90.7 6.1 0.00013 36.2 12.8 108 617-724 2-128 (145)
31 TIGR03683 A-tRNA_syn_arch alan 90.1 0.26 5.5E-06 62.8 4.0 121 3-131 119-263 (902)
32 PRK01584 alanyl-tRNA synthetas 89.5 0.3 6.5E-06 59.4 3.8 77 49-127 145-248 (594)
33 PRK01611 argS arginyl-tRNA syn 89.0 0.55 1.2E-05 56.2 5.5 102 837-940 392-497 (507)
34 TIGR00277 HDIG uncharacterized 89.0 2.3 5E-05 36.6 8.1 75 617-694 4-78 (80)
35 PLN02286 arginine-tRNA ligase 87.5 3.7 7.9E-05 50.2 11.2 103 836-940 459-566 (576)
36 PRK00252 alaS alanyl-tRNA synt 87.2 0.71 1.5E-05 58.8 5.2 102 13-127 113-243 (865)
37 TIGR03401 cyanamide_fam HD dom 86.2 6.2 0.00013 42.9 11.0 100 617-722 55-167 (228)
38 TIGR03671 cca_archaeal CCA-add 83.5 6.9 0.00015 46.0 10.4 118 264-395 280-398 (408)
39 COG0013 AlaS Alanyl-tRNA synth 82.2 2.1 4.6E-05 54.2 6.0 92 39-131 134-251 (879)
40 PRK10119 putative hydrolase; P 81.9 12 0.00026 40.9 10.8 102 614-721 22-132 (231)
41 PLN02900 alanyl-tRNA synthetas 81.8 1.6 3.4E-05 56.1 4.8 104 14-127 132-263 (936)
42 PRK13300 tRNA CCA-pyrophosphor 76.4 17 0.00036 43.5 10.6 115 264-392 283-398 (447)
43 TIGR00344 alaS alanine--tRNA l 75.1 3.7 7.9E-05 52.5 5.2 104 14-130 109-241 (851)
44 COG1713 Predicted HD superfami 74.1 12 0.00026 39.7 7.8 108 618-745 18-146 (187)
45 COG2206 c-di-GMP phosphodieste 72.9 22 0.00048 40.6 10.3 102 619-722 150-273 (344)
46 cd00673 AlaRS_core Alanyl-tRNA 72.4 12 0.00027 40.9 7.6 98 14-121 111-232 (232)
47 COG1011 Predicted hydrolase (H 62.4 6.7 0.00015 40.7 3.2 47 30-82 152-199 (229)
48 PTZ00326 phenylalanyl-tRNA syn 56.7 36 0.00078 41.2 8.2 102 17-127 373-487 (494)
49 TIGR02367 PylS pyrrolysyl-tRNA 56.2 26 0.00057 41.8 6.8 112 2-130 323-442 (453)
50 TIGR01428 HAD_type_II 2-haloal 52.8 8.5 0.00018 39.4 2.0 45 32-83 148-193 (198)
51 COG2024 Phenylalanyl-tRNA synt 51.4 18 0.00038 42.2 4.3 112 15-147 222-359 (536)
52 PRK09449 dUMP phosphatase; Pro 51.4 11 0.00024 39.3 2.6 47 31-82 149-196 (224)
53 COG3437 Response regulator con 50.1 58 0.0012 37.9 8.1 110 612-723 180-311 (360)
54 PRK09456 ?-D-glucose-1-phospha 47.2 11 0.00025 38.8 1.9 41 32-79 141-181 (199)
55 PRK09537 pylS pyrolysyl-tRNA s 45.8 50 0.0011 39.2 7.0 111 2-128 287-404 (417)
56 TIGR02253 CTE7 HAD superfamily 44.1 13 0.00029 38.5 1.8 43 31-79 149-191 (221)
57 PRK04172 pheS phenylalanyl-tRN 43.0 93 0.002 37.5 8.8 99 19-128 368-478 (489)
58 PRK10748 flavin mononucleotide 42.8 17 0.00036 38.9 2.4 46 32-83 163-209 (238)
59 TIGR00459 aspS_bact aspartyl-t 41.9 14 0.00031 45.4 1.9 60 72-131 465-551 (583)
60 PF09113 N-glycanase_C: Peptid 40.8 11 0.00023 38.4 0.5 22 65-86 73-95 (141)
61 PF12917 HD_2: HD containing h 40.2 1.1E+02 0.0023 33.4 7.8 120 611-737 23-156 (215)
62 TIGR01993 Pyr-5-nucltdase pyri 39.9 17 0.00037 36.9 1.8 41 32-79 141-181 (184)
63 PF10847 DUF2656: Protein of u 39.8 36 0.00078 34.2 3.9 23 214-236 55-77 (132)
64 TIGR02252 DREG-2 REG-2-like, H 38.2 19 0.00041 37.0 1.8 42 32-79 160-201 (203)
65 PF00152 tRNA-synt_2: tRNA syn 36.6 23 0.0005 40.1 2.4 57 72-128 245-328 (335)
66 PF10490 CENP-F_C_Rb_bdg: Rb-b 35.8 9 0.0002 32.0 -0.7 18 729-746 27-44 (49)
67 KOG3109 Haloacid dehalogenase- 34.5 41 0.00089 36.8 3.6 57 26-88 154-210 (244)
68 TIGR00094 tRNA_TruD_broad tRNA 33.2 49 0.0011 38.5 4.4 61 360-423 22-89 (387)
69 PRK04173 glycyl-tRNA synthetas 32.8 48 0.0011 39.6 4.3 99 19-117 207-335 (456)
70 cd00670 Gly_His_Pro_Ser_Thr_tR 32.1 1.1E+02 0.0025 32.1 6.6 50 2-52 93-149 (235)
71 COG1639 Predicted signal trans 31.9 3.5E+02 0.0076 30.9 10.5 142 556-717 67-237 (289)
72 COG1746 CCA1 tRNA nucleotidylt 31.6 80 0.0017 37.6 5.6 127 264-409 284-411 (443)
73 KOG1576 Predicted oxidoreducta 31.4 24 0.00052 39.7 1.3 52 12-72 105-162 (342)
74 PF01409 tRNA-synt_2d: tRNA sy 29.5 25 0.00054 38.7 1.1 102 19-128 120-237 (247)
75 PRK13480 3'-5' exoribonuclease 28.7 4.2E+02 0.0091 30.5 10.6 113 610-726 152-284 (314)
76 TIGR00457 asnS asparaginyl-tRN 28.2 25 0.00053 42.0 0.8 20 109-128 423-442 (453)
77 TIGR00470 sepS O-phosphoseryl- 27.6 85 0.0018 38.0 5.0 72 266-337 448-525 (533)
78 TIGR02247 HAD-1A3-hyp Epoxide 26.4 39 0.00086 34.9 1.9 43 31-80 151-193 (211)
79 TIGR00458 aspS_arch aspartyl-t 26.2 34 0.00073 40.5 1.5 23 109-131 398-420 (428)
80 COG2316 Predicted hydrolase (H 25.7 8.4E+02 0.018 26.1 13.7 141 618-811 48-188 (212)
81 KOG3085 Predicted hydrolase (H 23.4 66 0.0014 35.5 2.9 64 30-99 166-229 (237)
82 PF08668 HDOD: HDOD domain; I 23.2 4.7E+02 0.01 26.8 9.1 84 610-696 87-196 (196)
83 TIGR01509 HAD-SF-IA-v3 haloaci 21.9 59 0.0013 32.3 2.1 42 32-80 140-181 (183)
84 cd02552 PseudoU_synth_TruD_lik 21.1 1.6E+02 0.0036 32.2 5.4 49 371-422 28-77 (232)
85 KOG1195 Arginyl-tRNA synthetas 20.9 2.3E+02 0.005 34.6 6.8 79 859-937 473-554 (567)
86 cd00355 Ribosomal_L30_like Rib 20.0 1.5E+02 0.0032 25.0 3.8 35 29-64 2-36 (53)
No 1
>PRK14908 glycyl-tRNA synthetase; Provisional
Probab=100.00 E-value=0 Score=2928.15 Aligned_cols=932 Identities=42% Similarity=0.710 Sum_probs=891.2
Q ss_pred CCCCCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceee
Q 002254 1 MYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIW 80 (947)
Q Consensus 1 ~yv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw 80 (947)
|||||||||+|||||+|||||||||||||||||||+|+|+|||+||++||||+++|||||||||||||||||||||||||
T Consensus 55 ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~q~~yl~sl~~~gi~~~~~dirfved~we~p~lga~glgwevw 134 (1000)
T PRK14908 55 AYVEPSRRPDDGRYGQNPNRLQTYTQFQVILKPVPGNPQELYLESLKAIGIDLRDHDIRFVHDDWENPTIGAWGLGWEVW 134 (1000)
T ss_pred cccCCCCCCCCCCcCCCchhhhhheeeEEEECCCCccHHHHHHHHHHHcCCCccccceeEeecCCCCCcccccccccEEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCeeeeeeehhhhccCcccccceeehhhhHHHHHHHHhCCCccceeeeCCCCceecccccchhhhhccccccCCHHHHH
Q 002254 81 MDGMEITQFTYFQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYADGITYGELFLENEKEMSAYYLEHANVHHLQ 160 (947)
Q Consensus 81 ~~gmeitq~tyfqq~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~~~~~~~~y~~~~~~~e~~~s~~~~~~~~~~~~~ 160 (947)
||||||||||||||+||++|+||++||||||||||||||+|||||||.||+++||||||+|+|+|||+||||+||+++|+
T Consensus 135 ~~gmeitqftyfqq~gg~~~~~~~~eitygler~~m~~q~~~~~~~~~~~~~~~y~~~~~~~e~~~s~~~~~~~~~~~~~ 214 (1000)
T PRK14908 135 LDGMEITQFTYFQQAGGKPLDPISGEITYGIERIAMYLQKVNHFKDIAWNDGLTYGEIFQQAEYEMSRYNFDDANTEMWL 214 (1000)
T ss_pred ECCeeeeeeeeehhcCCeeccccceeeeccHHHHHHHHhCCCeeeeeecCCCCcchhhccccHHHHHHhcccccCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHcCCCcchhhhhhhhhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCC
Q 002254 161 KQFDFFEEESRSLLASGLAIPAYDQLLKTSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRKSLGHPLGIVS 240 (947)
Q Consensus 161 ~~f~~~~~e~~~~~~~~l~~pay~~~~k~sh~fn~ldar~~~~~~er~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (947)
++|++||+||+||++++||+|||||||||||+|||||||||||||||++||+|||+||+.||++|+++|+++||||++..
T Consensus 215 ~~f~~~~~e~~~~~~~~l~~pay~~~~k~sh~fn~ldar~~i~~~er~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~ 294 (1000)
T PRK14908 215 KHFEDYAAEALRLLDAGLPVPAYDFVLKASHAFNILDARGAISVTERTRYIARIRQLARAVADLYVEWREELGFPLLKVP 294 (1000)
T ss_pred HHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHhhhhhhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999766
Q ss_pred CCCCCCCChhhHhhhhcCCCCCchhhhHhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeecc
Q 002254 241 EPVDLPCPKELLEAAVKKLPDDPRLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVES 320 (947)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~~~~m~~~lLlEIGtEELPa~~v~~a~~~l~~~~~~~L~~~~L~~~~i~~~~TPRRLav~v~~ 320 (947)
++. +.+. +...+.++++.+||||||||||||++++++.+||++.+.+.|++++|+|+++++|+|||||||+|++
T Consensus 295 ~~~--~~~~----~~~~~~~~~~~dlLlEIGtEELPA~~~~~a~~ql~~~~~~~L~~~~L~~~~i~~f~TPRRLav~v~~ 368 (1000)
T PRK14908 295 PPP--AAVT----PKKTPDICGPETLLFEIGSEELPATFVPIGIQQLESALRELLADTRLGYEKLEVLGTPRRLALLVED 368 (1000)
T ss_pred CCC--CCCC----CCCCCCCCCccCEEEEcccccCCHHHHHHHHHHHHHHHHHHHHHcCCCcCceEEEecCcEeEEEecC
Confidence 542 1111 2245566788999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCcchhhhhcCCccccccccCCCCcHHHHHHHHHCCCCccCceE---------EeeCCeeEEEEEEEecchhHHHHH
Q 002254 321 LCQKQSENEFEARGPPVSKAFDQQGNPTKAVEGFCQRYAVPIDSLVT---------KAAGKTEYVYARVKETARLALEVL 391 (947)
Q Consensus 321 l~~~q~d~~~e~kGP~v~~Afd~dG~pTkAa~GFak~~Gv~~~~l~~---------~~~~kgeyl~~~~~~~G~~t~eiL 391 (947)
|+++|+|.++++||||+++|||++|+||||++|||||||+++++|.+ ++++||+|+|++++++|++|.++|
T Consensus 369 l~~~q~d~~~e~kGP~~~~AfD~dG~pTkAa~GFars~Gv~~~dL~~~~~~~~~~~~~~kg~eyl~~~k~~~G~~t~elL 448 (1000)
T PRK14908 369 VAPREPDAEREKRGPRLSAAFDADGTPTPAGEGFFRSQGVDISHLSALDQDGAIEIREINGVEYLFLVRPEPGRDAAAIL 448 (1000)
T ss_pred CcccCCCceeeeeCCcHHHhCccCCCcCHHHHHHHHHcCCCHHHHHHhhcccccccccCCCcEEEEEEEEECCeEHHHHH
Confidence 99999999999999999999999999999999999999999999988 544555999999999999999999
Q ss_pred HhHHHHHHhcCCCCccccc-CCCCcccchhhhHHHHcCCceeeeEEeceeeCCcccccccCCCCcEEeCChhHHHHHHHh
Q 002254 392 SEDVPSIISKLSFPKSMRW-NSQVMFSRPIRWIMALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRN 470 (947)
Q Consensus 392 ~eil~~~I~~L~fpK~MRW-~~~~~F~RPIrwIvaL~g~~Vvp~~~~gi~sgn~T~GHRf~~~~~i~I~~a~~Y~~~L~~ 470 (947)
+++++++|++|||||+||| +++++|+|||||||||||++||||+++||+|||+|+||||+++++|+|++|++|.+.|++
T Consensus 449 ~eil~~~I~~L~fpKsMRWg~~~~~FvRPIrWIvaLlg~eVIp~~i~gi~Sg~~T~GHRfl~~~~i~I~~a~~Y~~~L~~ 528 (1000)
T PRK14908 449 ANELPELIQSLRFPKKMRWDDPGLSYARPIRWLVALYGDQIVPISVGTLASGRTTRGHRQLDPPPVEIPSADGYVETLRQ 528 (1000)
T ss_pred HHHHHHHHHcCCCCCcceeCCCCcEEechHHHHHHHcCCceeEEEEecEEecCcccccccCCCCCeEeCCHHHHHHHHHh
Confidence 9999999999999999999 999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeecCHhHHHHHHHHHHHHHHHhcCCeecCCCchHHHhhhcccCCceeecccCccCCCCcHHHHHHHHHhCcceeEEEC
Q 002254 471 AGVKIKIEDRRKTIFDRSNALAKSVNGRIIFEESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTD 550 (947)
Q Consensus 471 ~~VIvd~~eRr~~I~~qi~~lA~~~g~~v~~de~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQRYFpv~d 550 (947)
++||+|+++||++|++|++++|+++|+++..|++||||||+|||||++++|+||++||+||+|||||+|++|||||||+|
T Consensus 529 ~~VIvD~~eRr~~I~~qi~~la~~~g~~v~~de~LLdEVt~LVE~P~al~G~Fde~FL~LP~EVLit~Mk~HQRYFpv~d 608 (1000)
T PRK14908 529 ACVILSPKERREIIVQGLQNLAADVQIDAIAEPRLIDEVTNLVEHPFVILGQFDEKFLELPKELLIAEMVKHQRYFPVRD 608 (1000)
T ss_pred CCEECCHHHHHHHHHHHHHHHHHHcCCeeCCCHHHHHHHHhccCCCeeeEEeeCHHHhCCCHHHHHHHHHHcceEEEEEC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccccEEEEEcCCCCchhhhchhhhhhhhhccccHhHHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHH
Q 002254 551 DKGRLLPYFIAVANGAINEMVVRKGNEAVLRARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVR 630 (947)
Q Consensus 551 ~~G~L~p~FI~VsN~~~~~~~Vi~GNErVLrARL~DA~FF~~~D~K~~L~~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~ 630 (947)
++|+|+|+||+|+|+.++. .|++||||||||||+||+|||++|+|+||++|+++|++||||++||||+|||+||++||.
T Consensus 609 ~~G~Llp~FI~VsN~~~~~-~Vi~GNErVLrARL~DA~FF~~~DlK~~L~~~vekL~~VvFq~kLGS~~dKv~Ri~~La~ 687 (1000)
T PRK14908 609 AQGTLLNHFVIVADGSPDD-EIVRGNEKVLRARLTDGAFLFKADLKTPLETFVEKLKSVTYFEALGSLADKVERIKAHAE 687 (1000)
T ss_pred CCCCccceEEEEECCCCcc-ceeecchhhhHhHHhHHHHHHHHhccCCHHHHHHHhCceEeehhcCCHHHHHHHHHHHHH
Confidence 9999999999999997654 899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCchhHH
Q 002254 631 KLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGT 710 (947)
Q Consensus 631 ~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~GE~~~VA~AI~EhYlPr~agD~LP~s~~G~ 710 (947)
+||+.+|.+.+ ..+.|||.||||||+|+||+||||||||||+|||+++||+++||+||+|||+||++||.||+|++|+
T Consensus 688 ~La~~l~~~~~--~~~~RAA~LsKaDLvT~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~agD~LP~s~~G~ 765 (1000)
T PRK14908 688 ELAALLPLSAR--ETLDRAAELCKFDLVSQMVNEFPELQGIMGRYYAQRAGEPEAVAQALGEHELPRTAGDSLPASTTGA 765 (1000)
T ss_pred HHHHHhCCChh--HHHHHHHHHhhhhcccchhccChHhhHHHHHHHHHHcCCCHHHHHHHHHHhCCCCCCCCCCCchHHH
Confidence 99999988643 2358999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCCCChhhhhHHHHHHHHHHHhCCCCCCHHHHHHHHHhhCC---CCcCccchhhHHHHH
Q 002254 711 VLAVADRLDTLVGLFAAGCQPSSTNDPFGLRRISYGLVQILIEKDKNLDLELALRLAADVQP---ITVDASTINDVHQFV 787 (947)
Q Consensus 711 iLslADKlDtLvG~F~iG~~PTGS~DPfALRRaAlGIirIl~e~~~~l~L~~li~~a~~~~~---~~~~~~~~~~v~~F~ 787 (947)
+||||||||||+|||+||++||||+|||||||+|+||||||+++++++||.+++++|++.+. ...+.++.++|++||
T Consensus 766 ilalADKlDTLvG~FaiG~~PTGSkDPfALRRaAlGIirIl~e~~l~l~L~~ll~~a~~~~~~~~~~~~~~~~~~l~~Fi 845 (1000)
T PRK14908 766 LLSLADRLDNLLGCFALGLKPTSSSDPYALRRQALGVLTLLRATPASLDLEDLLARLARHFPSTTVWVKEAVLDEVLEFV 845 (1000)
T ss_pred HHHHHHHHHHHHHHHhCCCCcCCCCCCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHhhccccccccHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999998873 111335667899999
Q ss_pred HHHHHHHHHhcCCCHHHHHhhhcCCCCCHHhHHHHHHHHHHHhcCCChHHHHHHHhhhhhcccCCCCCCccCCCcccCCC
Q 002254 788 TRRLEQFLVDKGISPEIVRSVLSERANLPCLATKTAYKMEALSKGQLFPKVVEAYSRPTRIVRGKDVDTALEVDETAFET 867 (947)
Q Consensus 788 ~~RL~~~l~d~g~~~dii~AVL~~~~~~~~~~~~r~~aL~~~~~~~~f~~l~~a~kRv~NIlkk~~~~~~~~vd~~lf~~ 867 (947)
.+||+++|.++|+++|+|+|||+.+.+||+++.+|+++|++|.++++|++++++||||+||++|.+. ..+|+++|++
T Consensus 846 ~~Rl~~~l~d~G~~~dvI~AVl~~~~~~~~~~~~r~~aL~~f~~~~~~~~l~~a~kRv~NIl~k~~~---~~vd~~Lf~~ 922 (1000)
T PRK14908 846 WGRLKTQLLDLGFDKDEIAAVLPDACKNPAEADKTAQALQELKSTEIFAEIAAALNRLKRILASLSF---SVTDASLLLE 922 (1000)
T ss_pred HHHHHHHHHhcCCCHHHHHHHHccCCCCHHHHHHHHHHHHHHhcChhHHHHHHHHHHHHHHHhhcCC---CccChhhcCC
Confidence 9999999999999999999999988889999999999999999999999999999999999998641 2699999999
Q ss_pred HHHHHHHHHHHHHhhhcCCC-CChhHHHHHHHhhchHHhhhhccccccCCcHHHHHHHHHHHHHHHHhhhhcccCCCC
Q 002254 868 IEEKALWTVYLSAKNKIHPG-INVDDFIEISSELVQPLEDFFNHVFVMVEEERIRKNRLALLKKIADLPKGIVDLSLL 944 (947)
Q Consensus 868 ~~E~~L~~~~~~~~~~~~~~-~~~~~y~~al~~L~~~Id~FFD~VmVm~eD~~IR~NRLaLL~~i~~lf~~iaDfs~L 944 (947)
++|++||+++.++++.+.+. -++.+++.+|+.|++|||+|||+||||+||++||+|||+||+.|.++|.+|||||+|
T Consensus 923 ~~E~~L~~a~~~~~~~~~~~~~dy~~al~~La~L~~~Id~FFD~VmVm~eD~~iR~NRLaLL~~i~~lf~~vaDfs~L 1000 (1000)
T PRK14908 923 PAELNLKQALDAFREELTELPIDLKDYVAAAAELPQAVNTFFDEVLVMADDEAIRNARLGLLAAIRDLKFGVLDWDAL 1000 (1000)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhhHHHHHhCCCEeeCCCHHHHHHHHHHHHHHHHHHHhhcchhcC
Confidence 99999999999998777643 233344555778999999999999999999999999999999999999999999986
No 2
>COG0751 GlyS Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.5e-213 Score=1822.86 Aligned_cols=682 Identities=39% Similarity=0.625 Sum_probs=654.9
Q ss_pred CchhhhHhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeeccccccCcchhhhhcCCcccccc
Q 002254 262 DPRLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAF 341 (947)
Q Consensus 262 m~~~lLlEIGtEELPa~~v~~a~~~l~~~~~~~L~~~~L~~~~i~~~~TPRRLav~v~~l~~~q~d~~~e~kGP~v~~Af 341 (947)
|+.+||+|||||||||++++++.+||.+.+.+.|++++|+|+++++|+|||||||.|+||+..|+|.++|+||||+++||
T Consensus 2 ~~~~lLlEigtEELPA~~l~~~~~~l~~~~~~~L~~~~l~~~~v~~f~tPRRLal~v~~la~~q~d~~eE~kGP~~~~a~ 81 (691)
T COG0751 2 SMKDLLLEIGTEELPAKALRSAAEQLAKKFTAGLKEAGLSFEGVEVFATPRRLALLVKGLAEAQPDREEEKKGPPVKAAF 81 (691)
T ss_pred chhhHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHcCCcccccEEecCCceeeeeecCccccccchhhhhcCCcccccc
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCcHHHHHHHHHCCCCccCceEEeeCC-e-eEEEEEEEecchhHHHHHHhHHHHHHhcCCCCccccc-CCCCcccc
Q 002254 342 DQQGNPTKAVEGFCQRYAVPIDSLVTKAAGK-T-EYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRW-NSQVMFSR 418 (947)
Q Consensus 342 d~dG~pTkAa~GFak~~Gv~~~~l~~~~~~k-g-eyl~~~~~~~G~~t~eiL~eil~~~I~~L~fpK~MRW-~~~~~F~R 418 (947)
|++|+||||++||+|+||++++++.+..++| | +|+|..++.+|++|.++|+++++++|++|||||+||| +++++|+|
T Consensus 82 d~~g~~TkA~eGF~r~~Gvs~e~~~~~~~~k~G~~y~~~~~~~~g~~t~~iL~~i~~~~i~~l~~pK~MrWg~~~~~fiR 161 (691)
T COG0751 82 DADGKPTKAAEGFARGQGVSVEDLERRKDDKKGEEYVYRVKKEEGQPTEELLPEIVPEAIASLPFPKSMRWGSKDVRFIR 161 (691)
T ss_pred ccCCCcCHHHHHHHHHCCCCHHHhhhhccCCCCcEEEEEEeccCCCcHHHHHHHHHHHHHHcCCCCCceeeCCCCeEEec
Confidence 9999999999999999999999999988865 6 8999999999999999999999999999999999999 99999999
Q ss_pred hhhhHHHHcCCceeeeEEeceeeCCcccccccCCCCcEEeCChhHHHHHHHhCCeecCHhHHHHHHHHHHHHHHHhcCCe
Q 002254 419 PIRWIMALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRKTIFDRSNALAKSVNGR 498 (947)
Q Consensus 419 PIrwIvaL~g~~Vvp~~~~gi~sgn~T~GHRf~~~~~i~I~~a~~Y~~~L~~~~VIvd~~eRr~~I~~qi~~lA~~~g~~ 498 (947)
|||||+||||++|||+++.||+|||+||||||+++.+|+|+|+++|.++|++++||+|+++||++|++|++++|.++|+.
T Consensus 162 Pi~~iv~L~g~evip~~i~gi~s~~~s~GHRfl~~~~i~I~~~~~Y~~~L~~~~VI~d~~eRk~~I~~~i~~~a~~~~~~ 241 (691)
T COG0751 162 PIHWIVALLGDEVIPFEILGIKSGRITRGHRFLGPGEITIDSADDYVEKLREGKVIADPEERKAIILEQIEELASKLGGV 241 (691)
T ss_pred chhhhhhhhCCeeeeeeeeeeeecccccceeccCCCceeeCCHHHHHHHHHhCCEeCCHHHHHHHHHHHHHHHHHHcCCe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCchHHHhhhcccCCceeecccCccCCCCcHHHHHHHHHhCcceeEEECCCCCccccEEEEEcCCC-Cchhhhchhh
Q 002254 499 IIFEESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFIAVANGAI-NEMVVRKGNE 577 (947)
Q Consensus 499 v~~de~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQRYFpv~d~~G~L~p~FI~VsN~~~-~~~~Vi~GNE 577 (947)
+++|++||||||+|||||++++|+||++||+||+|||||+|++|||||||+|++|+|+|+||+|||+.+ +.++|++|||
T Consensus 242 ~~~de~LLeEV~~LvE~P~vl~g~Fee~FL~lP~EvlittMk~hQkYFpv~~~~g~L~p~FI~VsN~~~~d~~~Ii~GNE 321 (691)
T COG0751 242 ADIDEDLLEEVTALVEYPTVLLGKFEEKFLELPEEVLITTMKEHQKYFPVFDQGGKLLPHFIFVSNGEPKDPENIIEGNE 321 (691)
T ss_pred ecCChHHHHHHHhcccCChheeecccHHHHcCCHHHHHHHHHhcceeeEEECCCCCcccceEEEECCCCCChhHhhcccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999975 6899999999
Q ss_pred hhhhhhccccHhHHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhc
Q 002254 578 AVLRARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDL 657 (947)
Q Consensus 578 rVLrARL~DA~FF~~~D~K~~L~~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL 657 (947)
|||||||+||+|||++|+|+||++++++|++||||++|||++|||+||+.||.+||+++|++ .+++.|||.||||||
T Consensus 322 KVlraRLsDA~FF~k~Dlk~~L~~~~~kL~~VtFh~kLGTl~dKv~Ri~~iA~~ia~~l~~d---~~~~~rAa~l~KaDL 398 (691)
T COG0751 322 KVLRARLSDAEFFFKEDLKKPLESRLPKLKTVTFHEKLGTLADKVERIKKIAAYIAPQLGAD---VEDADRAALLAKADL 398 (691)
T ss_pred eeeeeccchHHHHHhhhhcccHHHHHHhhceeeehHhcccHHHHHHHHHHHHHHHHHHhCcc---HHHHHHHHHHHhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999995 467999999999999
Q ss_pred chhhhhcChhhhhHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHhhhcCCCCCCCCCh
Q 002254 658 ATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDP 737 (947)
Q Consensus 658 ~T~MV~EFPELQGiMG~~YA~~~GE~~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtLvG~F~iG~~PTGS~DP 737 (947)
+|+||+||||||||||+|||+++||+++||.||.|||+|||+||.||+|++|++||||||||||+|||+||++||||+||
T Consensus 399 ~T~mV~EFpELQGiMG~~YA~~~Ge~~~VA~Ai~EhY~Pr~~gd~lP~t~~g~~valADKLDTLvg~F~iG~iPtGSkDP 478 (691)
T COG0751 399 VTEMVGEFPELQGIMGEYYALHDGEDEEVALAIEEHYLPRFAGDELPSTPVGAVVALADKLDTLVGFFGIGLIPTGSKDP 478 (691)
T ss_pred hHhhhcCChhhhHHHHHHHHHHcCCCHHHHHHHHHhcCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHhccCCcCCCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHHHHHhCCCCCCHHHHHHHHHhhCCC-CcCccchhhHHHHHHHHHHHHHHhcCCCHHHHHhhhcCCCCCH
Q 002254 738 FGLRRISYGLVQILIEKDKNLDLELALRLAADVQPI-TVDASTINDVHQFVTRRLEQFLVDKGISPEIVRSVLSERANLP 816 (947)
Q Consensus 738 fALRRaAlGIirIl~e~~~~l~L~~li~~a~~~~~~-~~~~~~~~~v~~F~~~RL~~~l~d~g~~~dii~AVL~~~~~~~ 816 (947)
|||||+|+||||||++++|+|||.++++.+...+.. .....+.++|++||.+||+++|+++|+++|+|+|||+.+..+|
T Consensus 479 yALRRaAlGiirIi~~~~l~l~l~~ll~~~~~~~~~~~~~~~~~~~l~~F~~~Rl~~~l~d~g~~~dii~AVL~~~~~~l 558 (691)
T COG0751 479 YALRRAALGILRIILEKNLDLDLEELLDKAVASFKSKLTNAKVLEELLDFFLGRLRTYLQDEGYRKDIIDAVLALNPTDL 558 (691)
T ss_pred HHHHHHHhHHHHHHHHhCCCCCHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHccCCCHHHHHHHHcCCCCCH
Confidence 999999999999999999999999999999865422 2234677899999999999999999999999999999999999
Q ss_pred HhHHHHHHHHHHHhcCCChHHHHHHHhhhhhcccCCCCCCccCCCcccCCCHHHHHHHHHHHHHhhhcCCCCChhHHHHH
Q 002254 817 CLATKTAYKMEALSKGQLFPKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHPGINVDDFIEI 896 (947)
Q Consensus 817 ~~~~~r~~aL~~~~~~~~f~~l~~a~kRv~NIlkk~~~~~~~~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~~~~~y~~a 896 (947)
+++.+|+++|+.|+..++++++++++||++||++|.+......||++||++++|++||+++..+.....+++..++|..+
T Consensus 559 ~~i~~r~~al~~f~~~~~~~~l~~a~kRv~nIl~k~~~~~~~~v~~~Lf~~~~E~~L~~a~~~~~~~~~~a~a~~~y~~a 638 (691)
T COG0751 559 LDIIARAEALQEFLDLPEAKALAAANKRVSNILAKAEKKLSGTVDPSLFEEDAEKALFEALQALKPKVAEALAEKDYQDA 638 (691)
T ss_pred HHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHhcccccCCccChHHhcCHHHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence 99999999999999999999999999999999998753344679999999999999999999999888776666666555
Q ss_pred ---HHhhchHHhhhhccccccCCcHHHHHHHHHHHHHHHHhhhhcccCCCCCC
Q 002254 897 ---SSELVQPLEDFFNHVFVMVEEERIRKNRLALLKKIADLPKGIVDLSLLPG 946 (947)
Q Consensus 897 ---l~~L~~~Id~FFD~VmVm~eD~~IR~NRLaLL~~i~~lf~~iaDfs~L~g 946 (947)
|++|++|||.|||+||||+||++||+|||+||..++++|..|||||+|.+
T Consensus 639 l~~L~~L~~pId~FFd~VmVm~eD~~iR~NRLalL~~l~~~f~~vAd~~~l~~ 691 (691)
T COG0751 639 LAALAELRPPIDEFFDNVMVMAEDEALRNNRLALLSKLRELFLKVADFSLLVK 691 (691)
T ss_pred HHHHHHhhhhHHHHhcCceeeCCCHHHHHHHHHHHHHHHHHHHHHhhHHHhcC
Confidence 67899999999999999999999999999999999999999999998864
No 3
>PRK01233 glyS glycyl-tRNA synthetase subunit beta; Validated
Probab=100.00 E-value=2.3e-212 Score=1850.84 Aligned_cols=676 Identities=41% Similarity=0.667 Sum_probs=653.0
Q ss_pred hhhhHhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeeccccccCcchhhhhcCCcccccccc
Q 002254 264 RLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFDQ 343 (947)
Q Consensus 264 ~~lLlEIGtEELPa~~v~~a~~~l~~~~~~~L~~~~L~~~~i~~~~TPRRLav~v~~l~~~q~d~~~e~kGP~v~~Afd~ 343 (947)
++||||||||||||++++++.+||.+.+.+.|++++|+|+++++|+|||||+|+|++++++|+|.++++||||+++|||+
T Consensus 2 ~~lLlEIGtEElPa~~~~~a~~~l~~~~~~~L~~~~l~~~~i~~f~TPRRLav~v~~l~~~q~d~~~e~kGP~~~~A~d~ 81 (682)
T PRK01233 2 KDLLLEIGTEELPAKALRKAAEQLAERITKELKEAGLSFGSIKVFATPRRLAVLVEGLAEKQPDREEEKKGPAVKIAFDA 81 (682)
T ss_pred CcEEeehhhccCCHHHHHHHHHHHHHHHHHHHHHcCCCcCceEEEEcCcEeeeeecCCcccCCcchheecCccHHHhcCc
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcHHHHHHHHHCCCCccCceEEeeCCeeEEEEEEEecchhHHHHHHhHHHHHHhcCCCCccccc-CCCCcccchhhh
Q 002254 344 QGNPTKAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRW-NSQVMFSRPIRW 422 (947)
Q Consensus 344 dG~pTkAa~GFak~~Gv~~~~l~~~~~~kgeyl~~~~~~~G~~t~eiL~eil~~~I~~L~fpK~MRW-~~~~~F~RPIrw 422 (947)
||+||||++|||||||++++||++++++||+|+|++++++|++|.++|+++++++|++|||||+||| +++++|+|||||
T Consensus 82 ~G~ptkA~~GFar~~gv~~~~l~~~~~~kgey~~~~~~~~g~~~~~lL~~~l~~~i~~l~fpKsMRWg~~~~~F~RPirw 161 (682)
T PRK01233 82 DGNPTKAAEGFARGQGVTVDDLERRETKKGEYLFARKVVKGRPTAELLPEILPEALAKLPFPKSMRWGNGDLRFVRPVHW 161 (682)
T ss_pred CCCcCHHHHHHHHHcCCCHHHheeeecCCccEEEEEEEECCccHHHHHHHHHHHHHHcCCCCCcceeCCCCCEEechHHH
Confidence 9999999999999999999999998879999999999999999999999999999999999999999 999999999999
Q ss_pred HHHHcCCceeeeEEeceeeCCcccccccCCCCcEEeCChhHHHHHHHhCCeecCHhHHHHHHHHHHHHHHHhcCCeecCC
Q 002254 423 IMALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRKTIFDRSNALAKSVNGRIIFE 502 (947)
Q Consensus 423 IvaL~g~~Vvp~~~~gi~sgn~T~GHRf~~~~~i~I~~a~~Y~~~L~~~~VIvd~~eRr~~I~~qi~~lA~~~g~~v~~d 502 (947)
||||||++||||+++||+|||+|+||||+++++|+|++|++|.+.|++++||+|+++||++|++|++++|+++|+++..|
T Consensus 162 ivaLl~~~vi~~~~~gi~s~~~t~GHRf~~~~~i~i~~~~~Y~~~L~~~~VI~d~~~R~~~I~~~i~~~a~~~g~~v~~d 241 (682)
T PRK01233 162 IVALLGDEVVPFEILGIKSGRVTRGHRFLGPGPITIANADDYEEKLREAKVIADPEERKAIILEQIEELAAELGGQVDID 241 (682)
T ss_pred HHHHcCCeeeEEEEeceecCCcccccccCCCCCeEeCCHHHHHHHHhhCCEECCHHHHHHHHHHHHHHHHHHcCCEecCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CchHHHhhhcccCCceeecccCccCCCCcHHHHHHHHHhCcceeEEECCCCCccccEEEEEcCCC-Cchhhhchhhhhhh
Q 002254 503 ESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFIAVANGAI-NEMVVRKGNEAVLR 581 (947)
Q Consensus 503 e~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQRYFpv~d~~G~L~p~FI~VsN~~~-~~~~Vi~GNErVLr 581 (947)
++||||||+|||||++++|+||++||+||+|||||+|++|||||||+|++|+|+|+||+|+|+.. +.++|++|||||||
T Consensus 242 ~~LLeEVt~LvE~P~~l~G~Fd~~fL~LP~Evlit~M~~hQrYFpv~d~~g~L~p~Fi~V~N~~~~~~~~V~~GNErVlr 321 (682)
T PRK01233 242 EDLLEEVTGLVEWPVVLLGSFDEKFLELPEEVLITTMKEHQKYFPVYDADGKLLPNFITVSNIESKDPENIIKGNEKVLR 321 (682)
T ss_pred HHHHHHHHhccCCCeEEEEEeCHHHhCCCHHHHHHHHHHcCeeEEEECCCCCeeeeEEEEECCCCCCchhhhhcchHhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999964 78999999999999
Q ss_pred hhccccHhHHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhh
Q 002254 582 ARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSV 661 (947)
Q Consensus 582 ARL~DA~FF~~~D~K~~L~~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~M 661 (947)
|||+||+|||++|+|+||++|+++|++||||++||||+|||+||++||.+||+.+|++.+ .+.|||.||||||+|+|
T Consensus 322 ARL~DA~FF~~~D~k~~L~~~~~~L~~VvF~~~LGs~~dK~~Ri~~La~~la~~l~~~~~---~~~RAa~L~KaDL~T~m 398 (682)
T PRK01233 322 ARLADAEFFFEEDLKKPLEDRVEKLKNVVFHEKLGTLYDKVERIRALAGYIAEQLGADAA---LAERAALLAKADLVTEM 398 (682)
T ss_pred hHHhHHHHHHHHhccCCHHHHHHhcCceEeecccCCHHHHHHHHHHHHHHHHHHhCCCHH---HHHHHHHHHhhhccchh
Confidence 999999999999999999999999999999999999999999999999999999998753 47999999999999999
Q ss_pred hhcChhhhhHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHhhhcCCCCCCCCChhhhh
Q 002254 662 VMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDPFGLR 741 (947)
Q Consensus 662 V~EFPELQGiMG~~YA~~~GE~~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtLvG~F~iG~~PTGS~DPfALR 741 (947)
|+||||||||||+|||+++||+++||.||+|||+|+++||.||+|++|++||||||||||+|||++|++||||+||||||
T Consensus 399 V~EFpELQGiMG~~YA~~~GE~~~VA~AI~EhY~P~~~~d~lP~t~~g~ilaiADKlDtL~g~F~ig~~PTGS~DPfaLR 478 (682)
T PRK01233 399 VGEFPELQGIMGRYYALHDGEDEEVALAIEEHYLPRFAGDELPSTPVGAAVALADKLDTLVGIFGIGEIPTGSKDPFALR 478 (682)
T ss_pred hccChHhhHHHHHHHHHHCCCCHHHHHHHHHHhCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHhCCCCcCCCCCCHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhCCCCCCHHHHHHHHHhhCCCCcCccchhhHHHHHHHHHHHHHHhcCCCHHHHHhhhcCCCCCHHhHHH
Q 002254 742 RISYGLVQILIEKDKNLDLELALRLAADVQPITVDASTINDVHQFVTRRLEQFLVDKGISPEIVRSVLSERANLPCLATK 821 (947)
Q Consensus 742 RaAlGIirIl~e~~~~l~L~~li~~a~~~~~~~~~~~~~~~v~~F~~~RL~~~l~d~g~~~dii~AVL~~~~~~~~~~~~ 821 (947)
|+|+||||||++++|++||.+++++|++.+. .+..++|.+||.+||+++|.++|+++|+|+||++.+.++|+++..
T Consensus 479 R~A~GIirIi~~~~~~l~L~~li~~a~~~~~----~~~~~~l~~F~~~Rl~~~l~~~g~~~dvi~AVl~~~~~~~~~~~~ 554 (682)
T PRK01233 479 RAALGILRIILEKGLDLDLDELIEKAVSLYN----ANVLDDVLDFFLDRLKALLQDEGIRYDVIDAVLALRPDDLADLDA 554 (682)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh----hhHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHccCCCCHHHHHH
Confidence 9999999999999999999999999998652 244678999999999999999999999999999988889999999
Q ss_pred HHHHHHHHhcCCChHHHHHHHhhhhhcccCCCCCCccCCCcccCCCHHHHHHHHHHHHHhhhcCCCCChhHHHHH---HH
Q 002254 822 TAYKMEALSKGQLFPKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHPGINVDDFIEI---SS 898 (947)
Q Consensus 822 r~~aL~~~~~~~~f~~l~~a~kRv~NIlkk~~~~~~~~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~~~~~y~~a---l~ 898 (947)
|+++|++|.+.++|++++++||||.||++|.+......+|++||++++|++||+++.++++.+..++..++|..+ |.
T Consensus 555 r~~aL~~~~~~~~~~~l~~~~kRv~NIl~k~~~~~~~~v~~~l~~~~~E~~L~~~~~~~~~~~~~~~~~~~y~~~l~~l~ 634 (682)
T PRK01233 555 RVEALSAFRKLPEFKALAAANKRVSNILKKAEGKVSGEVDPALFEEPAEKALYAALEELKPKVEPALAAGDYQAALEALA 634 (682)
T ss_pred HHHHHHHHhcChhHHHHHHHHHHHHHHHhccccccCCccChhHcCCHHHHHHHHHHHHHHHHHHHHhhhccHHHHHHHHH
Confidence 999999999999999999999999999998642223469999999999999999999998888777777788766 57
Q ss_pred hhchHHhhhhccccccCCcHHHHHHHHHHHHHHHHhhhhcccCCCCCC
Q 002254 899 ELVQPLEDFFNHVFVMVEEERIRKNRLALLKKIADLPKGIVDLSLLPG 946 (947)
Q Consensus 899 ~L~~~Id~FFD~VmVm~eD~~IR~NRLaLL~~i~~lf~~iaDfs~L~g 946 (947)
.|++|||+|||+||||+||++||+|||+||+.|.++|..|||||+|.+
T Consensus 635 ~L~~~Id~FFD~VmVm~~d~~iR~NRL~LL~~i~~~f~~iaDfs~l~~ 682 (682)
T PRK01233 635 ALRPPVDAFFDNVMVMAEDEALRANRLALLASLRELFLRVADFSKLAG 682 (682)
T ss_pred hhhhHHHHHhCCCeeeCCCHHHHHHHHHHHHHHHHHHHHhcCHHHhcC
Confidence 899999999999999999999999999999999999999999999864
No 4
>TIGR00211 glyS glycyl-tRNA synthetase, tetrameric type, beta subunit. The glycyl-tRNA synthetases differ even among the eubacteria in oligomeric structure. In Escherichia coli and most others, it is a heterodimer of two alpha chains and two beta chains, encoded by tandem genes. The genes are similar, but fused, in Chlamydia trachomatis. By contrast, the glycyl-tRNA synthetases of Thermus thermophilus and of archaea and eukaryotes differ considerably; they are homodimeric, mutually similar, and not detected by this model.
Probab=100.00 E-value=3e-212 Score=1852.03 Aligned_cols=683 Identities=35% Similarity=0.587 Sum_probs=652.4
Q ss_pred chhhhHhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeeccccccCcchhhhhcCCccccccc
Q 002254 263 PRLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFD 342 (947)
Q Consensus 263 ~~~lLlEIGtEELPa~~v~~a~~~l~~~~~~~L~~~~L~~~~i~~~~TPRRLav~v~~l~~~q~d~~~e~kGP~v~~Afd 342 (947)
+++||||||||||||++++++.+||.+.+.+.|++++|+|+++++|+|||||||+|+|++++|+|.++++||||+++|||
T Consensus 3 ~~~lLlEIGtEElPa~~~~~~~~~l~~~~~~~L~~~~i~~~~i~~f~TPRRLal~i~~l~~~q~d~~~e~kGP~~~~A~d 82 (691)
T TIGR00211 3 SQTFLVEIGTEELPAKALRSLATQFADKLTAELNKAGLEHGNVEIFATPRRLAVLVKDLAELQPDRKEEKKGPAVKIAFD 82 (691)
T ss_pred ccceeeehhhccCCHHHHHHHHHHHHHHHHHHHHHcCCCcCceEEEEcCcEeEEEecCccccCCCceeeeeCCcHHHhcc
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcHHHHHHHHHCCCCccCceEEeeCCeeEEEEEEEecchhHHHHHHhHHHHHHhcCCCCccccc-CCCCcccchhh
Q 002254 343 QQGNPTKAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRW-NSQVMFSRPIR 421 (947)
Q Consensus 343 ~dG~pTkAa~GFak~~Gv~~~~l~~~~~~kgeyl~~~~~~~G~~t~eiL~eil~~~I~~L~fpK~MRW-~~~~~F~RPIr 421 (947)
++|+||||++|||||||++++||.++++.||+|+|++++++|++|.++|+++++++|++|||||+||| +++++|+||||
T Consensus 83 ~~G~pTkAa~GFak~~Gv~~~~l~~~~~~kgey~~~~k~~~g~~t~elL~~il~~~i~~l~fpK~MrWg~~~~~F~RPir 162 (691)
T TIGR00211 83 ADGKPTKAALGFAKGQGINVEDAEIFQTDKGEWLFVRKIHEGQPTKDLLPPLVLEFLAKLPFPKSMRWGNVDVRFIRPIH 162 (691)
T ss_pred cCCCcCHHHHHHHHHcCCCHHHheeeecCCccEEEEEEEECCccHHHHHHHHHHHHHHcCCCCCcceECCCCCEEechHH
Confidence 99999999999999999999999997577889999999999999999999999999999999999999 99999999999
Q ss_pred hHHHHcCCceeeeEEeceeeCCcccccccCCCCcEEeCChhHHHHHHHhCCeecCHhHHHHHHHHHHHHHHHhcCCeecC
Q 002254 422 WIMALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRKTIFDRSNALAKSVNGRIIF 501 (947)
Q Consensus 422 wIvaL~g~~Vvp~~~~gi~sgn~T~GHRf~~~~~i~I~~a~~Y~~~L~~~~VIvd~~eRr~~I~~qi~~lA~~~g~~v~~ 501 (947)
|||||||++||||+++||+|||+|+||||+++++|+|++|++|.+.|++++||+|+++||++|++|++++|+++|+++.+
T Consensus 163 wivaLl~~~vip~~~~gi~s~~~t~GHRf~~~~~i~i~~a~~Y~~~L~~~~Vi~d~~eRk~~I~~qi~~~a~~~g~~v~~ 242 (691)
T TIGR00211 163 WIVVLLGDDVIPIEILNVKSDRTTRGHRFLGEDEVSIESPDAYPEQLKENHVIADPKERKAMILQQIETLAAKLGGIADI 242 (691)
T ss_pred HHHHHcCCceeeEEEeceeecccccccccCCCCCeEeCCHHHHHHHHhhCCEECCHHHHHHHHHHHHHHHHHHcCCeecC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCchHHHhhhcccCCceeecccCccCCCCcHHHHHHHHHhCcceeEEECCCCCccccEEEEEcCC-CCchhhhchhhhhh
Q 002254 502 EESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFIAVANGA-INEMVVRKGNEAVL 580 (947)
Q Consensus 502 de~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQRYFpv~d~~G~L~p~FI~VsN~~-~~~~~Vi~GNErVL 580 (947)
|++||||||+|||||++++|+||++||+||+|||||+|++|||||||+|++|+|+|+||+|+|+. .+.++|++||||||
T Consensus 243 d~~LLeEVt~LVE~P~~l~G~Fd~~fL~lP~Evlit~M~~hQrYFpv~d~~g~L~p~Fi~V~N~~~~~~~~V~~GNEkVl 322 (691)
T TIGR00211 243 DEDLLDEVVSLVEYPTALLGKFEEEFLSLPAEVLVTTMKEHQRYFPVYDKDGKLLPHFITVSNGNSKDPQKIILGNEKVL 322 (691)
T ss_pred CHHHHHHHHhccCCCeEEEEeeCHHHhCCCHHHHHHHHHHcCeeEEEECCCCCeeeeEEEEECCCCCChhhhhhchHHhH
Confidence 99999999999999999999999999999999999999999999999999999999999999996 47899999999999
Q ss_pred hhhccccHhHHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchh
Q 002254 581 RARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATS 660 (947)
Q Consensus 581 rARL~DA~FF~~~D~K~~L~~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~ 660 (947)
||||+||+|||++|+|+||++|+++|++||||++||||+|||+||++||.+||+.++.+.+..+.+.|||.||||||+|+
T Consensus 323 rARL~DA~FF~~~D~k~~L~~~~~kL~~VvF~~kLGsl~dK~~Ri~~La~~ia~~l~~~~~~~~~~~rAa~L~KaDL~T~ 402 (691)
T TIGR00211 323 RARLSDAEFFYKTDLKKPLDDNLPRLETVVFQQELGTLKDKVDRISIIAGYIAQQLGADENMLEHVKRAALLSKADLVTN 402 (691)
T ss_pred HhHHhHHHHHHHHhccCCHHHHHHHhCceEeecccCCHHHHHHHHHHHHHHHHHHhCCChhhhHHHHHHHHHHhhhccch
Confidence 99999999999999999999999999999999999999999999999999999999887543223589999999999999
Q ss_pred hhhcChhhhhHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHhhhcCCCCCCCCChhhh
Q 002254 661 VVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDPFGL 740 (947)
Q Consensus 661 MV~EFPELQGiMG~~YA~~~GE~~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtLvG~F~iG~~PTGS~DPfAL 740 (947)
||+||||||||||+|||+++||+++||.||+|||+||++||.||+|++|++||||||||||+|||++|++||||+|||||
T Consensus 403 mV~EFpELQGiMG~~YA~~~GE~~~VA~AI~EhY~Pr~~~d~lP~t~~g~ivsiADKlDtL~g~F~iG~~PTGS~DPfaL 482 (691)
T TIGR00211 403 MVYEFPELQGIMGEKYARHDGEDEAVAVAVNEQYLPRSAGDDLPSSLVGSVVAMADKLDTLASIFGIGQIPTGSKDPFAL 482 (691)
T ss_pred hhccChHhhHHHHHHHHHHCCCCHHHHHHHHHHhCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHhCCCCcCCCCCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHhCCCCCCHHHHHHHHHhhCCCCc-CccchhhHHHHHHHHHHHHHHhcCCCHHHHHhhhcCCCCCHHhH
Q 002254 741 RRISYGLVQILIEKDKNLDLELALRLAADVQPITV-DASTINDVHQFVTRRLEQFLVDKGISPEIVRSVLSERANLPCLA 819 (947)
Q Consensus 741 RRaAlGIirIl~e~~~~l~L~~li~~a~~~~~~~~-~~~~~~~v~~F~~~RL~~~l~d~g~~~dii~AVL~~~~~~~~~~ 819 (947)
||+|+||||||++++|++||.+++++|+..++... +.++.++|++||.+||+++|.++|+++|+|+|||+.+.+||+++
T Consensus 483 RR~A~GIirIi~~~~~~l~L~~li~~a~~~~~~~~~~~~~~~~l~~F~~~Rl~~~l~~~g~~~dvi~AVl~~~~~~~~~~ 562 (691)
T TIGR00211 483 RRAALGVLRIIVEKNLEIDLEELLTNFVLLQGDKLTNSNVLEDLEDFFLQRFRALLQDEGIDVDVIQAVLARRETDPADF 562 (691)
T ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccchhHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHccCCCCHHHH
Confidence 99999999999999999999999999998874311 22456689999999999999999999999999999888899999
Q ss_pred HHHHHHHHHHhcCCChHHHHHHHhhhhhcccCCCCCCccCCCcccCCCHHHHHHHHHHHHHhhhcCCCCChhHHHHH---
Q 002254 820 TKTAYKMEALSKGQLFPKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHPGINVDDFIEI--- 896 (947)
Q Consensus 820 ~~r~~aL~~~~~~~~f~~l~~a~kRv~NIlkk~~~~~~~~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~~~~~y~~a--- 896 (947)
.+|+++|++|.+.++|++++++||||.||++|.+......||++||++++|++||+++..+++.+...+..++|.++
T Consensus 563 ~~r~~aL~~~~~~~~~~~l~~a~kRv~NIl~k~~~~~~~~v~~~l~~~~~E~~L~~~~~~~~~~~~~~~~~~~y~~~l~~ 642 (691)
T TIGR00211 563 DARAQALSHFRDLPKAEALAAANKRVANILKKGNPVLSSEIQANLFKEPKEKALFEAVLAIKMNAQESFESGDYETALEA 642 (691)
T ss_pred HHHHHHHHHHHcChhHHHHHHHHHHHHHHHhcccccccCccChhHcCCHHHHHHHHHHHHHHHHHHHHhhhccHHHHHHH
Confidence 99999999999999999999999999999998642112369999999999999999999998877766666677665
Q ss_pred HHhhchHHhhhhccccccCCcHHHHHHHHHHHHHHHHhhhhcccCCCCC
Q 002254 897 SSELVQPLEDFFNHVFVMVEEERIRKNRLALLKKIADLPKGIVDLSLLP 945 (947)
Q Consensus 897 l~~L~~~Id~FFD~VmVm~eD~~IR~NRLaLL~~i~~lf~~iaDfs~L~ 945 (947)
|..|+++||+|||+||||+||++||+|||+||+.|.++|..|||||+|+
T Consensus 643 l~~L~~~Id~FFD~VmVm~~d~~iR~NRL~LL~~i~~lf~~iaDfs~l~ 691 (691)
T TIGR00211 643 LAELRAPVDEFFDSVMVMADDIELRQNRLNFLWGLRQLFLEVADISALQ 691 (691)
T ss_pred HHHhhhHHHHHhCCCEeeCCCHHHHHHHHHHHHHHHHHHHHhccHHHcC
Confidence 5789999999999999999999999999999999999999999999884
No 5
>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=100.00 E-value=1.5e-183 Score=1573.28 Aligned_cols=543 Identities=45% Similarity=0.758 Sum_probs=531.9
Q ss_pred hhHhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeeccccccCcchhhhhcCCccccccccCC
Q 002254 266 FVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFDQQG 345 (947)
Q Consensus 266 lLlEIGtEELPa~~v~~a~~~l~~~~~~~L~~~~L~~~~i~~~~TPRRLav~v~~l~~~q~d~~~e~kGP~v~~Afd~dG 345 (947)
||||||||||||++++++.++|++.+.+.|++++|+|++|++|+|||||+++|++|+++|+|.++++||||+++|||++|
T Consensus 1 lLlEIgtEElPa~~l~~~~~~~~~~~~~~l~~~~l~~~~i~~f~TPRRlav~i~~l~~~q~d~~~~~~GP~~~~a~d~~G 80 (548)
T PF02092_consen 1 LLLEIGTEELPARFLKKALEQLKELIEKELKDNRLSFGSIKVFGTPRRLAVLIEGLAEKQPDREEEVKGPPVKIAFDADG 80 (548)
T ss_pred CeEEeccccCCHHHHHHHHHHHHHHHHHHHHHCCCCcCceEEeeccceeeeeecCccccCccchheeeCCcHHHhcCcCC
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcHHHHHHHHHCCCCccCceEEeeCCeeEEEEEEEecchhHHHHHHhHHHHHHhcCCCCccccc-CCCCcccchhhhHH
Q 002254 346 NPTKAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRW-NSQVMFSRPIRWIM 424 (947)
Q Consensus 346 ~pTkAa~GFak~~Gv~~~~l~~~~~~kgeyl~~~~~~~G~~t~eiL~eil~~~I~~L~fpK~MRW-~~~~~F~RPIrwIv 424 (947)
+||+|++|||||||+++++|.+++++||+|+|+++.++|++|.++|+++++++|++|||||+||| +++++|+||||||+
T Consensus 81 ~pt~A~~gFak~~gv~~~~l~~~~~~kg~y~~~~~~~~g~~~~~iL~~il~~~i~~l~~pK~MrWg~~~~~F~RPirwi~ 160 (548)
T PF02092_consen 81 NPTKAAEGFAKSQGVSVEDLEIKETNKGEYLFARKKIKGRPTKEILPEILPQIIKSLPFPKSMRWGDGDFRFIRPIRWIV 160 (548)
T ss_pred CccHHHHHHHHHcCCCHHHhEEEEeCCEeEEEEEEEECCccHHHHHHHHHHHHHHcCCCCCccccCCCCCEEechHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999 99999999999999
Q ss_pred HHcCCceeeeEEeceeeCCcccccccCCCCcEEeCChhHHHHHHHhCCeecCHhHHHHHHHHHHHHHHHhcCCeecCCCc
Q 002254 425 ALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRKTIFDRSNALAKSVNGRIIFEES 504 (947)
Q Consensus 425 aL~g~~Vvp~~~~gi~sgn~T~GHRf~~~~~i~I~~a~~Y~~~L~~~~VIvd~~eRr~~I~~qi~~lA~~~g~~v~~de~ 504 (947)
||||++|||++++|++|||+|+||||+++++|.|++|++|.+.|++++||+|+++||++|++|++++|+++|+++..|++
T Consensus 161 aL~~~~vi~~~~~gi~s~~~t~GhRf~~~~~i~i~~a~~Y~~~L~~~~VIvd~~~Rk~~I~~~i~~~a~~~~~~~~~d~~ 240 (548)
T PF02092_consen 161 ALLGDEVIPFEIFGIKSGNTTRGHRFLSPEPIEINSADDYEEVLKKNFVIVDPEERKEIIREQINKLAKELGGKVIIDED 240 (548)
T ss_pred HHcCCceeEEEEccEeeCceeeccccCCCCCeEeCCHHHHHHHHhhCCEECCHHHHHHHHHHHHHHHHHHcCCEecCCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHhhhcccCCceeecccCccCCCCcHHHHHHHHHhCcceeEEECCCCCccccEEEEEcCCC-Cchhhhchhhhhhhhh
Q 002254 505 LLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFIAVANGAI-NEMVVRKGNEAVLRAR 583 (947)
Q Consensus 505 LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQRYFpv~d~~G~L~p~FI~VsN~~~-~~~~Vi~GNErVLrAR 583 (947)
||||||+|||||++++|+||++||+||+|||+|+|++|||||||+|++|+|+|+||+|||+.+ +.++|++|||||||||
T Consensus 241 LLdEVt~LvE~P~~l~G~Fd~~fL~lP~evlit~M~~hQkyFpv~d~~g~L~p~Fi~VsN~~~~~~~~V~~GnEkVl~AR 320 (548)
T PF02092_consen 241 LLDEVTNLVEWPVALLGSFDEKFLELPKEVLITSMKEHQKYFPVYDKDGKLLPYFIFVSNIESKDPENVIKGNEKVLRAR 320 (548)
T ss_pred HHHHHHHhccCCeEEEEecCHHhhhCCHHHHHHHHHhcceEEEEECCCCCccceEEEEECCCCCCHHHhHhhHHHHHHhH
Confidence 999999999999999999999999999999999999999999999999999999999999976 6799999999999999
Q ss_pred ccccHhHHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhh
Q 002254 584 YEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVM 663 (947)
Q Consensus 584 L~DA~FF~~~D~K~~L~~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~ 663 (947)
|+||+|||++|+|+||++|+++|++||||++||||+|||+||++||.+||++++ ..+.+.+.|||.||||||+|+||+
T Consensus 321 L~DA~FF~~~D~k~~L~~~~~~L~~vvF~~kLGtl~dK~~Ri~~la~~ia~~l~--~~~~~~~~rAa~L~KaDL~T~mV~ 398 (548)
T PF02092_consen 321 LADAEFFYKEDLKKPLEDRVEKLKNVVFHEKLGTLYDKTERIRKLARYIAEQLG--EEDKEDAERAALLCKADLVTNMVG 398 (548)
T ss_pred HhHHHHHHHhhcCCCHHHHHHhcCCeEeecccCCHHHHHHHHHHHHHHHHHHhc--hhhHHHHHHHHHHHHHhhhhcccc
Confidence 999999999999999999999999999999999999999999999999999997 344678999999999999999999
Q ss_pred cChhhhhHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHhhhcCCCCCCCCChhhhhHH
Q 002254 664 EFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDPFGLRRI 743 (947)
Q Consensus 664 EFPELQGiMG~~YA~~~GE~~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtLvG~F~iG~~PTGS~DPfALRRa 743 (947)
||||||||||+|||+++||+++||.||+|||+|+++||+||+|++|++||||||||||+|||++|++||||+|||||||+
T Consensus 399 EFPELQGiMG~~YA~~~GE~~~VA~AI~EhY~P~~~~d~lP~t~~g~ilsiADKlDtl~g~F~ig~~PtGskDPfaLRRa 478 (548)
T PF02092_consen 399 EFPELQGIMGRYYALADGESEEVALAIEEHYLPRFAGDELPSTPIGAILSIADKLDTLVGFFGIGEIPTGSKDPFALRRA 478 (548)
T ss_pred cChHHHHHHHHHHHHHCCCchHHHHHHHHHhCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCcHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCCHHHHHHHHHhhCCCC--cCccchhhHHHHHHHHHHHHHHhcCCCHHHHHhhhc
Q 002254 744 SYGLVQILIEKDKNLDLELALRLAADVQPIT--VDASTINDVHQFVTRRLEQFLVDKGISPEIVRSVLS 810 (947)
Q Consensus 744 AlGIirIl~e~~~~l~L~~li~~a~~~~~~~--~~~~~~~~v~~F~~~RL~~~l~d~g~~~dii~AVL~ 810 (947)
|+||||||++++|++||.+++.+|++.+... ..+++.++|.+||.+||+++|.++|+++|+|+|||+
T Consensus 479 a~GIirIi~e~~~~l~L~~li~~a~~~~~~~~~~~~~~~~~v~~F~~~Rl~~~l~~~g~~~d~i~aVl~ 547 (548)
T PF02092_consen 479 ALGIIRIIIEKKLDLDLKELIEKALELYPKQGKDKEEILEEVLEFFLERLKNYLKEEGYRYDVIEAVLA 547 (548)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHHHHhhhhccChHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHhhc
Confidence 9999999999999999999999999886532 345788999999999999999999999999999996
No 6
>COG0752 GlyQ Glycyl-tRNA synthetase, alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-135 Score=1045.94 Aligned_cols=239 Identities=60% Similarity=1.048 Sum_probs=237.4
Q ss_pred CCCCCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceee
Q 002254 1 MYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIW 80 (947)
Q Consensus 1 ~yv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw 80 (947)
|||||||||+|||||||||||||||||||||||||+|||||||+||++|||||+.|||||||||||||||||||||||||
T Consensus 55 AYVqPSRRP~DGRYGenPNRlq~yyQfQVilKPsP~NiQeLYL~SL~~lGid~~~HDIRFVEDnWE~PTlGawGlGWEVW 134 (298)
T COG0752 55 AYVQPSRRPTDGRYGENPNRLQHYYQFQVIIKPSPDNIQELYLGSLEALGIDPLEHDIRFVEDNWENPTLGAWGLGWEVW 134 (298)
T ss_pred eeeccCCCCCCCCCCCCchhhhhheeEEEEecCCCccHHHHHHHHHHHcCCChhhcceeeeccCCCCCcccccccceeEE
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCeeeeeeehhhhccCcccccceeehhhhHHHHHHHHhCCCccceeeeCCC----CceecccccchhhhhccccccCCH
Q 002254 81 MDGMEITQFTYFQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYADG----ITYGELFLENEKEMSAYYLEHANV 156 (947)
Q Consensus 81 ~~gmeitq~tyfqq~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~~~~~~----~~y~~~~~~~e~~~s~~~~~~~~~ 156 (947)
|||||||||||||||||++|+|||+||||||||||||||+|||||||.||++ +||||||+|+|+|+|+||||+||+
T Consensus 135 ldGMEvTQFTYFQQvGGiec~pV~~EITYGlERlAmYiQ~vdnVydl~W~~~~~~~~tYgdvf~q~E~e~S~ynFE~ad~ 214 (298)
T COG0752 135 LDGMEVTQFTYFQQVGGLECKPVSGEITYGLERLAMYIQGVDNVYDLEWNDGPGGKVTYGDVFLQNEVEQSKYNFEYADV 214 (298)
T ss_pred EcCeeeeeeehhhhhCCeeccceeeeeehhHHHHHHHHhCccceeEEeecCCCCCceehhhhhhhhHHHhhhhccccCCH
Confidence 9999999999999999999999999999999999999999999999999998 999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCCcchhhhhhhhhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 002254 157 HHLQKQFDFFEEESRSLLASGLAIPAYDQLLKTSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRKSLGHPL 236 (947)
Q Consensus 157 ~~~~~~f~~~~~e~~~~~~~~l~~pay~~~~k~sh~fn~ldar~~~~~~er~~~~~~~r~~~~~~~~~~~~~~~~~~~~~ 236 (947)
+||+++|++||+||++|++.||++||||+||||||+|||||||||||||||++||+|||+|||+||++|+++|+++|||+
T Consensus 215 ~~L~~~F~~~e~Ea~~ll~~~L~lPAYd~vlKasH~FNlLDARgaISVtER~~YI~RiR~Lar~~a~~y~e~r~~lgfp~ 294 (298)
T COG0752 215 DMLFRHFDDYEKEAKRLLELGLVLPAYDYVLKASHTFNLLDARGAISVTERQRYILRIRNLARAVAEAYLESREALGFPL 294 (298)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHhhhhhhhhccccceeehHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCC
Q 002254 237 GIV 239 (947)
Q Consensus 237 ~~~ 239 (947)
++.
T Consensus 295 ~~~ 297 (298)
T COG0752 295 LKK 297 (298)
T ss_pred ccC
Confidence 874
No 7
>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=100.00 E-value=1.5e-135 Score=1057.74 Aligned_cols=238 Identities=58% Similarity=1.035 Sum_probs=236.6
Q ss_pred CCCCCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceee
Q 002254 1 MYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIW 80 (947)
Q Consensus 1 ~yv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw 80 (947)
|||||||||+|||||||||||||||||||||||||+|+|+|||+||++||||+++|||||||||||||||||||||||||
T Consensus 51 AYVqPsRRP~DGRYGeNPNRLq~yyQfQVilKPsP~niQelYL~SL~~lGid~~~hDIRFVEDnWEsPTLGAwGlGWEVW 130 (293)
T TIGR00388 51 AYVEPSRRPTDGRYGENPNRLQHYYQFQVVIKPSPDNIQELYLDSLRALGIDPTEHDIRFVEDNWENPTLGAWGLGWEVW 130 (293)
T ss_pred ccccCCCCCCCCCCCCCchhhhheeeeEEEECCCCccHHHHHHHHHHHhCCCccccCeeEeecCCCCCcccccccccEEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCeeeeeeehhhhccCcccccceeehhhhHHHHHHHHhCCCccceeeeCCC----CceecccccchhhhhccccccCCH
Q 002254 81 MDGMEITQFTYFQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYADG----ITYGELFLENEKEMSAYYLEHANV 156 (947)
Q Consensus 81 ~~gmeitq~tyfqq~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~~~~~~----~~y~~~~~~~e~~~s~~~~~~~~~ 156 (947)
||||||||||||||+||++|+|||+||||||||||||||+|||||||.||++ |||||||+|+|+|||+||||+||+
T Consensus 131 ldGMEITQFTYFQQvGGi~~~pv~~EITYGLERiaMylQ~vd~v~dl~w~~~~~~~vtYgdv~~~~E~e~S~ynFe~ad~ 210 (293)
T TIGR00388 131 LDGMEVTQFTYFQQVGGLECKPVSVEITYGLERLAMYIQGVENVYDLEWSDGPLGKTTYGDVFHQNEVEQSTYNFETADV 210 (293)
T ss_pred ECCeeeeeeeeeeeeCCeeccccceeeehhHHHHHHHHhCCCeeeeeeecCCCCcccchhhcccccHHHHhHhccccCCH
Confidence 9999999999999999999999999999999999999999999999999997 999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHcCCCcchhhhhhhhhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 002254 157 HHLQKQFDFFEEESRSLLASGLAIPAYDQLLKTSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRKSLGHPL 236 (947)
Q Consensus 157 ~~~~~~f~~~~~e~~~~~~~~l~~pay~~~~k~sh~fn~ldar~~~~~~er~~~~~~~r~~~~~~~~~~~~~~~~~~~~~ 236 (947)
++|+++|++||+||++|++++||+||||+||||||+|||||||||||||||++||+|||+|||.||++|+++|+++||||
T Consensus 211 ~~l~~~F~~~e~ea~~ll~~~L~lPAYd~~lK~SH~FNlLDARgaIsvtER~~yI~riR~la~~~a~~y~~~r~~~g~pl 290 (293)
T TIGR00388 211 DFLFQLFKQYEKEAQQLLENGLPLPAYEYVLKCSHSFNLLDARKAISVTERQRYILRIRNLAKGVAEAYYEQREALGFPL 290 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHhhHhhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CC
Q 002254 237 GI 238 (947)
Q Consensus 237 ~~ 238 (947)
++
T Consensus 291 ~~ 292 (293)
T TIGR00388 291 CK 292 (293)
T ss_pred cC
Confidence 86
No 8
>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=100.00 E-value=1.4e-133 Score=1037.34 Aligned_cols=230 Identities=62% Similarity=1.062 Sum_probs=228.9
Q ss_pred CCCCCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceee
Q 002254 1 MYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIW 80 (947)
Q Consensus 1 ~yv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw 80 (947)
|||||||||+|||||||||||||||||||||||||+|+|+|||+||++||||+++|||||||||||||||||||||||||
T Consensus 50 AYVqPsrRP~DGRYGeNPNRLq~y~QfQViiKPsP~niQelYL~SL~~lGid~~~hDIRFVEDnWEsPTLGAwGLGWEVW 129 (279)
T cd00733 50 AYVEPSRRPTDGRYGENPNRLQHYYQFQVIIKPSPDNIQELYLESLEALGINPKEHDIRFVEDNWESPTLGAWGLGWEVW 129 (279)
T ss_pred ccccCCCCCCCCCcCCCchhhhhheeeEEEECCCCccHHHHHHHHHHHhCCCccccCeeEeecCCCCCcccccccccEEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCeeeeeeehhhhccCcccccceeehhhhHHHHHHHHhCCCccceeeeCCCCceecccccchhhhhccccccCCHHHHH
Q 002254 81 MDGMEITQFTYFQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYADGITYGELFLENEKEMSAYYLEHANVHHLQ 160 (947)
Q Consensus 81 ~~gmeitq~tyfqq~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~~~~~~~~y~~~~~~~e~~~s~~~~~~~~~~~~~ 160 (947)
||||||||||||||+||++|+||++||||||||||||||+|||||||.||++|||||||+|+|+|||+||||+||+++|+
T Consensus 130 ldGMEITQFTYFQQvGGi~~~pv~~EiTYGLERiamylQ~vd~v~dl~w~~~vtYgdvf~~~E~e~S~ynFe~ad~~~l~ 209 (279)
T cd00733 130 LDGMEVTQFTYFQQVGGIPCKPISVEITYGLERIAMYLQGVDNVYDIEWNKKITYGDVFLQNEIEQSVYNFEYANVDMLF 209 (279)
T ss_pred ECCeeeeeeeeeeeeCCeeccccceeeehhHHHHHHHHhCCCceeccccCCCCchhhhccccHHHHhHhccccCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHcCCCcchhhhhhhhhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 002254 161 KQFDFFEEESRSLLASGLAIPAYDQLLKTSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRK 230 (947)
Q Consensus 161 ~~f~~~~~e~~~~~~~~l~~pay~~~~k~sh~fn~ldar~~~~~~er~~~~~~~r~~~~~~~~~~~~~~~ 230 (947)
++|++||+||+||++++||+||||+||||||+|||||||||||||||++||+|||+|||.||++|+++|+
T Consensus 210 ~~F~~~e~e~~~ll~~~L~lPAYd~~lk~sH~FNlLDARgaIsvteR~~yI~riR~la~~~a~~y~~~r~ 279 (279)
T cd00733 210 QLFEDYEKEAKRLLELGLPLPAYDYVLKCSHTFNLLDARGAISVTERQRYILRIRNLAREIAKLYVEQRE 279 (279)
T ss_pred HHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHHhHhhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999885
No 9
>PRK09348 glyQ glycyl-tRNA synthetase subunit alpha; Validated
Probab=100.00 E-value=2.5e-133 Score=1037.21 Aligned_cols=230 Identities=62% Similarity=1.077 Sum_probs=228.8
Q ss_pred CCCCCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceee
Q 002254 1 MYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIW 80 (947)
Q Consensus 1 ~yv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw 80 (947)
|||||||||+|||||||||||||||||||||||||+|+|+|||+||++||||+++|||||||||||||||||||||||||
T Consensus 54 aYvqPsRRP~DGRYGeNPNRLq~y~QfQVilKPsP~niQelYL~SL~~lGid~~~hDIRFVEDnWEsPTLGAwGlGWEVW 133 (283)
T PRK09348 54 AYVQPSRRPTDGRYGENPNRLQHYYQFQVILKPSPDNIQELYLGSLEALGIDPLEHDIRFVEDNWESPTLGAWGLGWEVW 133 (283)
T ss_pred ccccCCCCCCCCCcCCCchhhhhheeeEEEEcCCCccHHHHHHHHHHHhCCCccccceeEeecCCCCCcccccccceEEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCeeeeeeehhhhccCcccccceeehhhhHHHHHHHHhCCCccceeeeCCCCceecccccchhhhhccccccCCHHHHH
Q 002254 81 MDGMEITQFTYFQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYADGITYGELFLENEKEMSAYYLEHANVHHLQ 160 (947)
Q Consensus 81 ~~gmeitq~tyfqq~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~~~~~~~~y~~~~~~~e~~~s~~~~~~~~~~~~~ 160 (947)
||||||||||||||+||++|+|||+||||||||||||||+|||||||.||+++||||||+++|+|||+||||+||+++|+
T Consensus 134 ldGMEITQFTYFQQvGGi~~~pv~~EITYGLERiamylQ~vd~v~dl~w~~~~tYgdv~~~~E~e~S~ynFe~ad~~~l~ 213 (283)
T PRK09348 134 LDGMEVTQFTYFQQVGGIECKPVTGEITYGLERLAMYLQGVDNVYDLVWNDGVTYGDVFLQNEVEQSKYNFEHADVEMLF 213 (283)
T ss_pred ECCeeeeeeeeeeeeCCeeccccceeeehhHHHHHHHHhCCCceeeeecCCCCceeeeccccHHHHhHhcccccCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHcCCCcchhhhhhhhhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 002254 161 KQFDFFEEESRSLLASGLAIPAYDQLLKTSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRK 230 (947)
Q Consensus 161 ~~f~~~~~e~~~~~~~~l~~pay~~~~k~sh~fn~ldar~~~~~~er~~~~~~~r~~~~~~~~~~~~~~~ 230 (947)
++|++||+||++|++++|++||||+||||||+|||||||||||||||++||+|||+|||.||++|+++|+
T Consensus 214 ~~F~~~e~e~~~ll~~~L~lPAYd~~lK~SH~FNlLDARgaIsvtER~~yI~rvR~la~~~a~~y~~~~~ 283 (283)
T PRK09348 214 KLFDDYEKEAKRLLEKGLPLPAYDYVLKASHTFNLLDARGAISVTERQRYILRIRNLARAVAEAYLESRE 283 (283)
T ss_pred HHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHhHhhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999884
No 10
>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=100.00 E-value=2.7e-134 Score=1049.09 Aligned_cols=236 Identities=64% Similarity=1.116 Sum_probs=208.6
Q ss_pred CCCCCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceee
Q 002254 1 MYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIW 80 (947)
Q Consensus 1 ~yv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw 80 (947)
|||||||||+|||||||||||||||||||||||||+|+|+|||+||++||||+++|||||||||||||||||||||||||
T Consensus 49 aYVqPsrRP~DGRYGeNPNRLq~y~QfQVilKPsP~niq~lYL~SL~~lGId~~~hDIRFVEDnWEsPtLGAwGlGWEVW 128 (284)
T PF02091_consen 49 AYVQPSRRPTDGRYGENPNRLQHYYQFQVILKPSPDNIQELYLESLEALGIDPKEHDIRFVEDNWESPTLGAWGLGWEVW 128 (284)
T ss_dssp EEEEEEE-GGG--TTTSSS--SEEEEEEEEEES--TTHHHHHHHHHHHCT--CCCS-EEEEEE-EEETTTTEEEEEEEEE
T ss_pred cccccCCCCCCCccCCCchHhhhhheeEEEEcCCCccHHHHHHHHHHHhCCCccccceeEeecCCCCCcccccccccEEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCeeeeeeehhhhccCcccccceeehhhhHHHHHHHHhCCCccceeeeCCCCceecccccchhhhhccccccCCHHHHH
Q 002254 81 MDGMEITQFTYFQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYADGITYGELFLENEKEMSAYYLEHANVHHLQ 160 (947)
Q Consensus 81 ~~gmeitq~tyfqq~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~~~~~~~~y~~~~~~~e~~~s~~~~~~~~~~~~~ 160 (947)
||||||||||||||+||++|+|||+||||||||||||||+|||||||.||++|||||||+++|+|+|+||||+||+++|+
T Consensus 129 ldGMEITQfTYFQQvGGi~~~pv~~EITYGLERiamylQ~vdnv~dl~w~~~vtYgdif~~~E~e~S~ynFe~ad~~~l~ 208 (284)
T PF02091_consen 129 LDGMEITQFTYFQQVGGIDCKPVSVEITYGLERIAMYLQGVDNVYDLIWNDGVTYGDIFLQNEVEFSKYNFEHADVDMLF 208 (284)
T ss_dssp ETTCEEEEEEEEEEETTEE-SS--EEEEEEHHHHHHHHCT-SSGGGSEEEEEEEHHHHHHHHHHHHHHHHHHTS-HHHHH
T ss_pred ECCEEEEEeeeeeeeCCccccccceehhhhHHHHHHHHhCCCeeEeeeecCCcchhhhcchhHHHHHhhcchhcCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHcCCCcchhhhhhhhhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 002254 161 KQFDFFEEESRSLLASGLAIPAYDQLLKTSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRKSLGHPL 236 (947)
Q Consensus 161 ~~f~~~~~e~~~~~~~~l~~pay~~~~k~sh~fn~ldar~~~~~~er~~~~~~~r~~~~~~~~~~~~~~~~~~~~~ 236 (947)
++|+.||+||++|++++|++||||+||||||+|||||||||||||||++||+|||+|||+||++|+++|++|||||
T Consensus 209 ~~F~~~e~E~~~li~~~L~lpaYd~~lK~sH~FNlLDARgaisvtER~~yi~riR~la~~~a~~y~~~re~lgfPL 284 (284)
T PF02091_consen 209 KLFDDYEKEAKRLIELGLPLPAYDYVLKCSHTFNLLDARGAISVTERQNYIGRIRNLAKACAEAYLEQREELGFPL 284 (284)
T ss_dssp HHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHHHHHHHHHHHHHHHH-------
T ss_pred HHHHHHHHHHHHHhccCCCccHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999997
No 11
>cd07956 Anticodon_Ia_Arg Anticodon-binding domain of arginyl tRNA synthetases. This domain is found in arginyl tRNA synthetases (ArgRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. ArgRS catalyzes the transfer of arginine to the 3'-end of its tRNA.
Probab=99.43 E-value=2.2e-13 Score=135.98 Aligned_cols=111 Identities=19% Similarity=0.210 Sum_probs=90.8
Q ss_pred ChHHHHHHHhhhhhcccCCCC--CCccCCCcccCCCHHHHHHHHHHHHHhhhcCCCCChhHH---HHHHHhhchHHhhhh
Q 002254 834 LFPKVVEAYSRPTRIVRGKDV--DTALEVDETAFETIEEKALWTVYLSAKNKIHPGINVDDF---IEISSELVQPLEDFF 908 (947)
Q Consensus 834 ~f~~l~~a~kRv~NIlkk~~~--~~~~~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~~~~~y---~~al~~L~~~Id~FF 908 (947)
...-+..+|+|+.||++|.+. .....+|+++|.+++|++|+.++....+.+..+....+| ...+..|+++++.||
T Consensus 35 ~~~yi~ya~aRi~nIl~k~~~~~~~~~~~~~~ll~~~~E~~L~~~l~~~~~~i~~~~~~~~~~~l~~~l~~L~~~~~~ff 114 (156)
T cd07956 35 TGPYLQYAHARLCSILRKAGETIEAEADADLSLLPEPDERDLILLLAKFPEVVKNAAETLEPHTIATYLFDLAHAFSKFY 114 (156)
T ss_pred CchhHHHHHHHHHHHHHhCCCcCccccccchhhcCCHHHHHHHHHHHHhHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHH
Confidence 555789999999999998642 111258999999999999999999886665543333344 445678999999999
Q ss_pred ccccccCCcHHHHHHHHHHHHHHHHhhhhcccCCCC
Q 002254 909 NHVFVMVEEERIRKNRLALLKKIADLPKGIVDLSLL 944 (947)
Q Consensus 909 D~VmVm~eD~~IR~NRLaLL~~i~~lf~~iaDfs~L 944 (947)
|+||||++|+++|+|||+||+.+.+.+....++--|
T Consensus 115 d~v~V~~~~~~i~~nRL~Ll~~v~~vl~~~l~llgi 150 (156)
T cd07956 115 NACPVLGAEEELRNARLALVAAARQVLANGLDLLGI 150 (156)
T ss_pred hcCcccCCCHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 999999999999999999999999999998887544
No 12
>smart00836 DALR_1 DALR anticodon binding domain. This all alpha helical domain is the anticodon binding domain of Arginyl tRNA synthetase. This domain is known as the DALR domain after characteristic conserved amino acids PUBMED:10447505.
Probab=99.34 E-value=7.3e-13 Score=126.20 Aligned_cols=101 Identities=23% Similarity=0.281 Sum_probs=82.6
Q ss_pred HHhhhhhcccCCCCC---Cc--cCCCcccCCCHHHHHHHHHHHHHhhhcCCCC---ChhHHHHHHHhhchHHhhhhcccc
Q 002254 841 AYSRPTRIVRGKDVD---TA--LEVDETAFETIEEKALWTVYLSAKNKIHPGI---NVDDFIEISSELVQPLEDFFNHVF 912 (947)
Q Consensus 841 a~kRv~NIlkk~~~~---~~--~~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~---~~~~y~~al~~L~~~Id~FFD~Vm 912 (947)
+|+|+.||++|.+.. .. ..+|.++|.+++|++|+..+....+.+.... ........+..|.++++.|||+|+
T Consensus 4 ~~~Ri~nIl~k~~~~~~~~~~~~~~~~~l~~~~~E~~L~~~i~~~~~~i~~~~~~~~~~~l~~~l~~L~~~~~~fy~~v~ 83 (122)
T smart00836 4 AHARICSILRKAGEAGLTLPDIADADLSLLTEPEELALLRLLARFPEVLEAAAETLEPHRLANYLYDLASAFHSFYNKCR 83 (122)
T ss_pred HHHHHHHHHHHHHhcCCCccccccchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHHHHHHHccCc
Confidence 799999999985421 11 2478899999999999999988866554333 233445557889999999999999
Q ss_pred ccCCc-HHHHHHHHHHHHHHHHhhhhcccC
Q 002254 913 VMVEE-ERIRKNRLALLKKIADLPKGIVDL 941 (947)
Q Consensus 913 Vm~eD-~~IR~NRLaLL~~i~~lf~~iaDf 941 (947)
||++| +++|+|||+|+..+.+.+..++++
T Consensus 84 V~~~~~~~~~~~RL~Ll~~~~~~l~~~~~l 113 (122)
T smart00836 84 VLGEENPELRAARLALLKAVRQVLANGLRL 113 (122)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99998 999999999999999999999985
No 13
>PF05746 DALR_1: DALR anticodon binding domain; InterPro: IPR008909 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 all alpha helical domain is the anticodon binding domain of Arginyl tRNA synthetase. This domain is known as the DALR domain after characteristic conserved amino acids [].; GO: 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1F7V_A 1F7U_A 1BS2_A 1IQ0_A.
Probab=98.92 E-value=3.6e-10 Score=107.01 Aligned_cols=104 Identities=30% Similarity=0.414 Sum_probs=77.7
Q ss_pred HHHHHhhhhhcccCCCCCCc-cCCCccc-CCCHHHHHHHHHHHHHhhhcCCCC---ChhHHHHHHHhhchHHhhhhcccc
Q 002254 838 VVEAYSRPTRIVRGKDVDTA-LEVDETA-FETIEEKALWTVYLSAKNKIHPGI---NVDDFIEISSELVQPLEDFFNHVF 912 (947)
Q Consensus 838 l~~a~kRv~NIlkk~~~~~~-~~vd~~l-f~~~~E~~L~~~~~~~~~~~~~~~---~~~~y~~al~~L~~~Id~FFD~Vm 912 (947)
+.-+|+|+.||++|.+.... ...++.. +++++|++|+..+......+..+. +.......|.+|.++++.|||+|+
T Consensus 1 v~Ya~aRi~sIl~k~~~~~~~~~~~~~~~~~~~~e~~L~~~l~~~~~~l~~a~~~~~p~~l~~yL~~La~~f~~fy~~~~ 80 (119)
T PF05746_consen 1 VQYAYARISSILRKAEESGINDEYDDDFLLEEEEERELLKQLARFPDVLEKAAKDLEPHKLCDYLYELAQAFNSFYDNVR 80 (119)
T ss_dssp HHHHHHHHHHHHHHCTCTTCCCCHCCHHHS-SHHHHHHHHHHCTHHHHHHHHHHHT-CHHHHHHHHHHHHHHHHHHHHS-
T ss_pred ChHHHHHHHHHHHcCCCcCCccccchhhhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 35689999999998653211 1223333 589999999999977766554433 233444556789999999999999
Q ss_pred ccCCcHHHH-HHHHHHHHHHHHhhhhcccC
Q 002254 913 VMVEEERIR-KNRLALLKKIADLPKGIVDL 941 (947)
Q Consensus 913 Vm~eD~~IR-~NRLaLL~~i~~lf~~iaDf 941 (947)
||++|+.+| +|||+|+..+...+....|+
T Consensus 81 I~~~~~~~~~~~RL~Ll~~v~~vl~~~l~l 110 (119)
T PF05746_consen 81 ILDEDEEIRKNNRLALLKAVRQVLKNGLDL 110 (119)
T ss_dssp STTSTTCHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999 99999999999999887764
No 14
>TIGR00295 conserved hypothetical protein TIGR00295. This set of orthologs is narrowly defined, comprising proteins found in three Archaea but not in Pyrococcus horikoshii. The closest homologs are other archaeal proteins that appear to be represent distinct orthologous clusters.
Probab=96.48 E-value=0.021 Score=58.36 Aligned_cols=100 Identities=16% Similarity=0.112 Sum_probs=77.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHhCCC--hhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhCCCCHHHHHHHHhh
Q 002254 616 GTMLDKTMRVQNMVRKLSLDLGIN--EDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEI 693 (947)
Q Consensus 616 GSl~DK~~Ri~~La~~La~~l~~~--~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~GE~~~VA~AI~Eh 693 (947)
.+++.-+.|+..+|..||..++.+ ..+.+.+..||.|.-.. .-.. .....+.+|..+.+..|-+++++.+|.-|
T Consensus 12 ~~~~~Hs~~Va~~A~~ia~~~~~~~~~~d~~~l~~aaLLHDIG--K~~~--~~~~H~~~G~~iL~~~g~~~~i~~iI~~H 87 (164)
T TIGR00295 12 ESVRRHCLAVARVAMELAENIRKKGHEVDMDLVLKGALLHDIG--RART--HGFEHFVKGAEILRKEGVDEKIVRIAERH 87 (164)
T ss_pred ccHHHHHHHHHHHHHHHHHHhccccccCCHHHHHHHHHHhcCC--cccC--CCCCHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 457889999999999999998732 12345688899886443 2222 22468999999999999999999999988
Q ss_pred cCCCCC-----------CCCCCCchhHHHHHHHHHHH
Q 002254 694 NLPRFS-----------GDVLPKTDVGTVLAVADRLD 719 (947)
Q Consensus 694 YlPr~a-----------gD~LP~s~~G~iLslADKlD 719 (947)
.-+..+ ++..|.|..+.+|++||++-
T Consensus 88 ~~~g~p~~~~~~~~l~~~~~~p~t~ea~IV~~AD~l~ 124 (164)
T TIGR00295 88 FGAGINAEEASKLGLPPKDYMPETLEEKIVAHADNLI 124 (164)
T ss_pred hCCCCchhhHhhcCCCcccCCCCCHHHHHHHHHHHhc
Confidence 865432 35568999999999999984
No 15
>PRK12705 hypothetical protein; Provisional
Probab=96.15 E-value=0.028 Score=66.96 Aligned_cols=100 Identities=16% Similarity=0.261 Sum_probs=79.3
Q ss_pred cccCCC-CHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhCCCCHHHHHH
Q 002254 611 FHEKLG-TMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEA 689 (947)
Q Consensus 611 F~~kLG-Sl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~GE~~~VA~A 689 (947)
|...-| ++++.+.++..+|..||..+|++.+ .+.+||.|-- +.-.+-.|...-...+|...++.-|+++.|+.+
T Consensus 316 ~R~sygqnvl~HSl~VA~lA~~LA~~lGld~d---~a~~AGLLHD--IGK~ie~e~~~~H~~iGaeLlkk~~~p~~Vv~a 390 (508)
T PRK12705 316 FRTSYGQNVLSHSLEVAHLAGIIAAEIGLDPA---LAKRAGLLHD--IGKSIDRESDGNHVEIGAELARKFNEPDEVINA 390 (508)
T ss_pred hcccCCchHHHHHHHHHHHHHHHHHHcCcCHH---HHHHHHHHHH--cCCcchhhhcccHHHHHHHHHHhcCCCHHHHHH
Confidence 444444 3899999999999999999999854 4678988863 333333455556789999999999999999999
Q ss_pred HHhhcCCCCCCCCCCCchhHHHHHHHHHHHH
Q 002254 690 LLEINLPRFSGDVLPKTDVGTVLAVADRLDT 720 (947)
Q Consensus 690 I~EhYlPr~agD~LP~s~~G~iLslADKlDt 720 (947)
|..|.-|.. |++..+.++++||.++.
T Consensus 391 I~~HHe~~~-----~~~~~a~IVaiADaLSa 416 (508)
T PRK12705 391 IASHHNKVN-----PETVYSVLVQIADALSA 416 (508)
T ss_pred HHHhCCCCC-----CCCHHHHHHHHHHHHcC
Confidence 999997753 45789999999996543
No 16
>PRK12704 phosphodiesterase; Provisional
Probab=95.95 E-value=0.041 Score=65.89 Aligned_cols=100 Identities=15% Similarity=0.190 Sum_probs=82.8
Q ss_pred cccCC-CCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhCCCCHHHHHH
Q 002254 611 FHEKL-GTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEA 689 (947)
Q Consensus 611 F~~kL-GSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~GE~~~VA~A 689 (947)
|.... +++++.+.|+..+|..||..+|++.+ .+.+||.|.-...... .|++.-..++|...++..|+++.|+.+
T Consensus 328 ~R~~~~qn~l~Hs~~Va~lA~~lA~~lgld~~---~a~~AgLLHDIGK~~~--~e~~~~H~~iGa~il~~~~~~~~v~~a 402 (520)
T PRK12704 328 YRTSYGQNVLQHSIEVAHLAGLMAAELGLDVK---LAKRAGLLHDIGKALD--HEVEGSHVEIGAELAKKYKESPVVINA 402 (520)
T ss_pred ccCcCCCcHhHHHHHHHHHHHHHHHHhCcCHH---HHHHHHHHHccCcCcc--ccccCCHHHHHHHHHHHcCCCHHHHHH
Confidence 34444 34899999999999999999999754 4789999987666543 467778999999999999999999999
Q ss_pred HHhhcCCCCCCCCCCCchhHHHHHHHHHHHH
Q 002254 690 LLEINLPRFSGDVLPKTDVGTVLAVADRLDT 720 (947)
Q Consensus 690 I~EhYlPr~agD~LP~s~~G~iLslADKlDt 720 (947)
|.-|--+ .-|.+..+.+|.+||.|+.
T Consensus 403 I~~HHe~-----~~~~~~~a~IV~~ADaLsa 428 (520)
T PRK12704 403 IAAHHGD-----EEPTSIEAVLVAAADAISA 428 (520)
T ss_pred HHHcCCC-----CCCCCHHHHHHHHHHHHhC
Confidence 9999853 4578899999999997664
No 17
>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=95.52 E-value=0.018 Score=58.82 Aligned_cols=107 Identities=32% Similarity=0.404 Sum_probs=75.3
Q ss_pred CCCCCCCCCCCCCCCCCccccceeeeEEEEcCCC-------cchHHHHHHHHHhcCCCCCCCceeeecCCCCCccc-ccc
Q 002254 2 YVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDP-------GNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVL-GAW 73 (947)
Q Consensus 2 yv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p-------~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~l-ga~ 73 (947)
|+.++.|+.++..+ +.|++.+.|.-+.+--.+ .++..++-..|+.+|+ .++++|+...+.+ -. +.+
T Consensus 80 eig~vfr~e~~~~~--~~~~~ef~~l~~~~~g~~~~~~~~~~~~~~~~~~~l~~lg~---~~~~~~~~~~~~~-~~~~~~ 153 (211)
T cd00768 80 EIGPAFRNEGGRRG--LRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRALGI---KLDIVFVEKTPGE-FSPGGA 153 (211)
T ss_pred EEcceeecCCCccc--cccceeEEEcCEEEEcCCchhHHHHHHHHHHHHHHHHHcCC---CcceEEEecCchh-hccccC
Confidence 56788888765333 578888888777776554 4577788899999998 3467888665432 23 589
Q ss_pred cccceeeec-----Ceeeeeeehhhhcc------------CcccccceeehhhhHHHH
Q 002254 74 GLGWEIWMD-----GMEITQFTYFQQAG------------SLQLSPVSVEITYGLERI 114 (947)
Q Consensus 74 g~gwevw~~-----gmeitq~tyfqq~g------------g~~~~~~~~e~tygler~ 114 (947)
|..++|+++ |.||..+....+.. +..-.|++...|.|+||+
T Consensus 154 g~~~~i~~~~~~~~~~eig~~g~~~~~~~~~~~l~~~~~~~~~~~p~~~~~~~~~~R~ 211 (211)
T cd00768 154 GPGFEIEVDHPEGRGLEIGSGGYRQDEQARAADLYFLDEALEYRYPPTIGFGLGLERL 211 (211)
T ss_pred CceEEEEEEccCCCeEEEeeceeecCchhHhhhhheecccccccCceeecCccCccCC
Confidence 999999999 99988766554322 222347777777777774
No 18
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=95.32 E-value=0.094 Score=62.82 Aligned_cols=105 Identities=19% Similarity=0.221 Sum_probs=82.8
Q ss_pred ccCcccccCCCC-HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhCCCCH
Q 002254 606 LKGILFHEKLGT-MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQ 684 (947)
Q Consensus 606 Lk~VvF~~kLGS-l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~GE~~ 684 (947)
|..+-|....|. ++..+.++..+|..||..+|++.+ .+.+||.|.-.--+ +-.|...-..++|..+++.-|+++
T Consensus 317 l~~l~~r~~~~~~~l~Hs~~VA~lA~~LA~~lgld~~---~a~~AGLLHDIGK~--~~~e~~~~H~~~Ga~ll~~~~~~~ 391 (514)
T TIGR03319 317 LGRLKFRTSYGQNVLQHSIEVAHLAGIMAAELGEDVK---LAKRAGLLHDIGKA--VDHEVEGSHVEIGAELAKKYKESP 391 (514)
T ss_pred HHHhhccccCCccHHHHHHHHHHHHHHHHHHhCcCHH---HHHHHHHHHhcCcc--cchhhcccHHHHHHHHHHHcCCCH
Confidence 333445555553 789999999999999999998754 56789988755433 223444567899999999999999
Q ss_pred HHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHH
Q 002254 685 QIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDT 720 (947)
Q Consensus 685 ~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDt 720 (947)
.|+.+|.-|--|. -|.+..+.+|.+||.|+.
T Consensus 392 ~V~~aI~~HH~~~-----~~~~~~a~IV~~AD~lsa 422 (514)
T TIGR03319 392 EVVNAIAAHHGDV-----EPTSIEAVLVAAADALSA 422 (514)
T ss_pred HHHHHHHHhCCCC-----CCCCHHHHHHHHHHHhcC
Confidence 9999999998753 578999999999999764
No 19
>TIGR00488 putative HD superfamily hydrolase of NAD metabolism. The function of this protein family is unknown. Members of this family of uncharacterized proteins from the Mycoplasmas are longer at the amino end, fused to a region of nicotinamide nucleotide adenylyltransferase, an NAD salvage biosynthesis enzyme. Members are putative metal-dependent phosphohydrolases for NAD metabolism.
Probab=95.11 E-value=0.14 Score=51.71 Aligned_cols=100 Identities=13% Similarity=0.079 Sum_probs=72.9
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcc-h----------------hhhhcChhhhhHHHHHHHHhC
Q 002254 618 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLA-T----------------SVVMEFTSLAGVMACHYALRD 680 (947)
Q Consensus 618 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~-T----------------~MV~EFPELQGiMG~~YA~~~ 680 (947)
-+..+.++..+|..||..++.+.+ .+..|+.|--.... + .-..||.-+.+.+|.+++.+-
T Consensus 9 r~~Hsl~Va~~a~~lA~~~~~d~e---~a~~AGLLHDIGk~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~vGa~ll~~w 85 (158)
T TIGR00488 9 RYQHCLGVGQTAKQLAEANKLDSK---KAEIAGAYHDLAKFLPKEQLKQIAKREKMPAHLLYPSPKLLHAYVGAYILKRE 85 (158)
T ss_pred HHHHHHHHHHHHHHHHHHhCcCHH---HHHHHHHHHHHhccCCHHHHHHHHHHcCCCchhhcccccccHHHHHHHHHHHH
Confidence 456788999999999999887643 35566655432210 0 111235557999999999874
Q ss_pred -CC-CHHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHhh
Q 002254 681 -GY-SQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLF 725 (947)
Q Consensus 681 -GE-~~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtLvG~F 725 (947)
|. +++|..||.-|-.|. -+.+..+.+|.+||+++...|.+
T Consensus 86 ~~~~~~~i~~aI~~H~~~~-----~~~~~l~~iV~lAD~i~~~~~~~ 127 (158)
T TIGR00488 86 FGVQDEDILDAIRNHTSGP-----PGMSLLDMIIYVADKLEPNRGAG 127 (158)
T ss_pred hCCCcHHHHHHHHHhCCCC-----CCCCHHHHHHHhHHHHhhccccc
Confidence 66 889999999999883 23467899999999999887743
No 20
>PF01966 HD: HD domain; InterPro: IPR006674 This domain is found in a superfamily of enzymes with a predicted or known phosphohydrolase activity []. These enzymes appear to be involved in the nucleic acid metabolism, signal transduction and possibly other functions in bacteria, archaea and eukaryotes. The fact that all the highly conserved residues in the HD superfamily are histidines or aspartates suggests that coordination of divalent cations is essential for the activity of these proteins [].; GO: 0008081 phosphoric diester hydrolase activity, 0046872 metal ion binding; PDB: 2CQZ_A 2Q14_C 3CCG_A 2PAU_A 2PAQ_B 2PAR_B 3BG2_A 3NQW_A 2QGS_B 2DQB_D ....
Probab=95.10 E-value=0.067 Score=49.28 Aligned_cols=101 Identities=21% Similarity=0.181 Sum_probs=76.7
Q ss_pred HHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhh-hc-----Ch--hhhhHHHHHHHHhCCCCH-----H
Q 002254 619 LDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVV-ME-----FT--SLAGVMACHYALRDGYSQ-----Q 685 (947)
Q Consensus 619 ~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV-~E-----FP--ELQGiMG~~YA~~~GE~~-----~ 685 (947)
++-+.|+..++..|+..++. +.+...+..||.|=-.-...... .| +. ...+.+|...++..+... .
T Consensus 2 ~~Hs~~V~~~a~~l~~~~~~-~~~~~~l~~aaLlHDiGk~~~~~~~~~~~~~~~~~~~H~~~g~~~~~~~~~~~~~~~~~ 80 (122)
T PF01966_consen 2 FEHSLRVAELAERLADRLGL-EEDRELLRIAALLHDIGKIPTPDFIEKKPEERGKFYRHEEIGAEILKEFLKELGLPIEI 80 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHTH-HHHHHHHHHHHHHTTTTHHSTHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHCHHH
T ss_pred hhHHHHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhcCCCCCchHHHHhHhhhchhhhhHHHHHHHHHHhhhhcchHHHH
Confidence 67889999999999998875 44456677888775333322221 11 11 356889999988888877 9
Q ss_pred HHHHHHhhcCCCC------CCCCCCCchhHHHHHHHHHHHH
Q 002254 686 IAEALLEINLPRF------SGDVLPKTDVGTVLAVADRLDT 720 (947)
Q Consensus 686 VA~AI~EhYlPr~------agD~LP~s~~G~iLslADKlDt 720 (947)
|+.+|..|-.|.. ....-|.+..+.+|.+||++|.
T Consensus 81 i~~~i~~H~~~~~~~~~~~~~~~~~~~~~~~iv~~aD~l~a 121 (122)
T PF01966_consen 81 IANAIRYHHGPWNGEGKPKEEDYEPISLEARIVKLADRLDA 121 (122)
T ss_dssp HHHHHHHTTTHHTSHHCHHCHSCSTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHhcccccccccccccCCCCCCHHHHHHHHHHHHhC
Confidence 9999999998877 3577889999999999999996
No 21
>PRK07152 nadD putative nicotinate-nucleotide adenylyltransferase; Validated
Probab=94.94 E-value=0.12 Score=58.63 Aligned_cols=95 Identities=12% Similarity=0.127 Sum_probs=71.8
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcc---------------hhhhhcChhhhhHHHHHHHHhC-C
Q 002254 618 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLA---------------TSVVMEFTSLAGVMACHYALRD-G 681 (947)
Q Consensus 618 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~---------------T~MV~EFPELQGiMG~~YA~~~-G 681 (947)
.+..+.|+..+|..||..+|.+. +.+..||.|--.--. +.--.++....+..|.++++.. |
T Consensus 197 ~~~HSl~VA~~A~~LA~~~g~d~---~~a~~AGLLHDIGK~~~~~~~~~~~~~~~~~~~~~~~~~~H~~~Ga~ll~~~~~ 273 (342)
T PRK07152 197 RYKHCLRVAQLAAELAKKNNLDP---KKAYYAGLYHDITKEWDEEKHRKFLKKYLKDVKNLPWYVLHQYVGALWLKHVYG 273 (342)
T ss_pred HHHHHHHHHHHHHHHHHHhCcCH---HHHHHHHHHHHhhccCCHHHHHHHHHhcCCchhhcchHHHhHHHHHHHHHHHcC
Confidence 67789999999999999999875 356677766432221 1111223345899999999876 8
Q ss_pred CC-HHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHH
Q 002254 682 YS-QQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDT 720 (947)
Q Consensus 682 E~-~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDt 720 (947)
.+ ++|+.||..|..|.. +.+..+.+|.+||+++.
T Consensus 274 ~p~~~i~~aI~~Hh~~~~-----~~~~l~~iV~lAD~l~~ 308 (342)
T PRK07152 274 IDDEEILNAIRNHTSLAE-----EMSTLDKIVYVADKIEP 308 (342)
T ss_pred CCcHHHHHHHHhccCCCC-----CcCHHHHHHHhhhhccc
Confidence 86 799999999998754 45789999999999885
No 22
>PRK12703 tRNA 2'-O-methylase; Reviewed
Probab=94.83 E-value=0.2 Score=57.08 Aligned_cols=96 Identities=13% Similarity=0.111 Sum_probs=74.4
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhCCCCHHHHHHHHhhc---
Q 002254 618 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEIN--- 694 (947)
Q Consensus 618 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~GE~~~VA~AI~EhY--- 694 (947)
+++-+.|+..+|..||..++++. ..+..||.|--.+-.- ....-.++.|..+++..|.+++++.+|+.|=
T Consensus 188 l~~Hs~rVa~lA~~LA~~~~~D~---~ll~aAALLHDIGK~k----~~~~~H~~~Ga~iL~e~G~~e~i~~iIe~H~g~G 260 (339)
T PRK12703 188 LIRHVKTVYKLAMRIADCINADR---RLVAAGALLHDIGRTK----TNGIDHAVAGAEILRKENIDDRVVSIVERHIGAG 260 (339)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCH---HHHHHHHHHHhccccc----ccCCCHHHHHHHHHHHCCCCHHHHHHHHHHhccC
Confidence 68899999999999999998874 3567788886554332 1222488899999999999999999998876
Q ss_pred CCCC--------CCCCCCCchhHHHHHHHHHHHH
Q 002254 695 LPRF--------SGDVLPKTDVGTVLAVADRLDT 720 (947)
Q Consensus 695 lPr~--------agD~LP~s~~G~iLslADKlDt 720 (947)
.|.. ..+..|.|..+.+|+.|||++.
T Consensus 261 ~~~~~~~~~gL~~~~~~P~TLEakIV~dADrL~~ 294 (339)
T PRK12703 261 ITSEEAQKLGLPVKDYVPETIEEMIVAHADNLFA 294 (339)
T ss_pred CCcchhhccCCccccCCCCCHHHHHHHHHHHHhc
Confidence 2321 1245789999999999999953
No 23
>PRK00106 hypothetical protein; Provisional
Probab=94.81 E-value=0.15 Score=61.26 Aligned_cols=105 Identities=17% Similarity=0.207 Sum_probs=84.4
Q ss_pred cccCcccccCCC-CHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhCCCC
Q 002254 605 QLKGILFHEKLG-TMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYS 683 (947)
Q Consensus 605 kLk~VvF~~kLG-Sl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~GE~ 683 (947)
-|..+-|....| .+++.+-.+..+|..||..+|++. ..+.+|+.|.--.-+ +-.|...-.+.+|..++++-|++
T Consensus 337 ~lg~l~~r~sy~qnl~~HSv~VA~lA~~lA~~lgld~---e~a~~AGLLHDIGK~--v~~e~~g~Ha~iGa~ll~~~~~~ 411 (535)
T PRK00106 337 IMGRLQFRTSYGQNVLRHSVEVGKLAGILAGELGENV---ALARRAGFLHDMGKA--IDREVEGSHVEIGMEFARKYKEH 411 (535)
T ss_pred HHHHHhhhccCCCcHHHHHHHHHHHHHHHHHHhCCCH---HHHHHHHHHHhccCc--cCccccCChHHHHHHHHHHcCCC
Confidence 344455555555 489999999999999999999863 468899998755444 33566667999999999999999
Q ss_pred HHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHH
Q 002254 684 QQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLD 719 (947)
Q Consensus 684 ~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlD 719 (947)
+.|+.||..|--|.. |.|..+.+|.+||.|+
T Consensus 412 ~~v~~aI~~HH~~~~-----~~s~~a~IV~~AD~ls 442 (535)
T PRK00106 412 PVVVNTIASHHGDVE-----PESVIAVIVAAADALS 442 (535)
T ss_pred HHHHHHHHHhCCCCC-----CCChHHHHHHHHHHhc
Confidence 999999999987653 5689999999999764
No 24
>smart00471 HDc Metal dependent phosphohydrolases with conserved 'HD' motif. Includes eukaryotic cyclic nucleotide phosphodiesterases (PDEc). This profile/HMM does not detect HD homologues in bacterial glycine aminoacyl-tRNA synthetases (beta subunit).
Probab=94.81 E-value=0.43 Score=43.19 Aligned_cols=105 Identities=20% Similarity=0.204 Sum_probs=76.1
Q ss_pred CHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhh---hhhcchhhhhc---ChhhhhHHHHHHHHhCCCCHHHHHH-
Q 002254 617 TMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLA---MSDLATSVVME---FTSLAGVMACHYALRDGYSQQIAEA- 689 (947)
Q Consensus 617 Sl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~---KaDL~T~MV~E---FPELQGiMG~~YA~~~GE~~~VA~A- 689 (947)
+.++-+.++..++..++...+. .+...+.-||.|. |......+ .. .+.-++.+|..+++..+.++.++..
T Consensus 4 ~~~~H~~~v~~~~~~l~~~~~~--~~~~~~~~a~LlHDig~~~~~~~~-~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~~ 80 (124)
T smart00471 4 HVFEHSLRVAQLAAALAEELGL--LDIELLLLAALLHDIGKPGTPDSF-LVKTSVLEDHHFIGAEILLEEEEPRILEEIL 80 (124)
T ss_pred hHHHHHHHHHHHHHHHHHHcCh--HHHHHHHHHHHHHcccCccCCHHH-hcCccHHHHhHHHHHHHHHhCCCCHHHHHHH
Confidence 5788899999999999998765 1233456666653 22222111 11 2467889999999998999999987
Q ss_pred ---HHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHh
Q 002254 690 ---LLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGL 724 (947)
Q Consensus 690 ---I~EhYlPr~agD~LP~s~~G~iLslADKlDtLvG~ 724 (947)
|..|..+......-+.+..+.++.+||++|.....
T Consensus 81 ~~~i~~h~~~~~~~~~~~~~~~~~il~~aD~~~~~~~~ 118 (124)
T smart00471 81 ATAILSHHERPDGLRGEPITLEARIVKVADRLDALRRD 118 (124)
T ss_pred hhHHHHhccccCCCCCCcCCHHHHHHHHHHHHHHHhcC
Confidence 88888776644445667899999999999997643
No 25
>TIGR00456 argS arginyl-tRNA synthetase. This model recognizes arginyl-tRNA synthetase in every completed genome to date. An interesting feature of the alignment of all arginyl-tRNA synthetases is a fairly deep split between two families. One family includes archaeal, eukaryotic and organellar, spirochete, E. coli, and Synechocystis sp. The second, sharing a deletion of about 25 residues in the central region relative to the first, includes Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and Mycobacteria, and the Gram-negative bacterium Helicobacter pylori.
Probab=94.68 E-value=0.15 Score=61.74 Aligned_cols=109 Identities=23% Similarity=0.257 Sum_probs=78.3
Q ss_pred cCCChHHHHHHHhhhhhcccCCCCCCcc--CCCcccCCCHHHHHHHHHHHHHhhhcCCCCCh---hHHHHHHHhhchHHh
Q 002254 831 KGQLFPKVVEAYSRPTRIVRGKDVDTAL--EVDETAFETIEEKALWTVYLSAKNKIHPGINV---DDFIEISSELVQPLE 905 (947)
Q Consensus 831 ~~~~f~~l~~a~kRv~NIlkk~~~~~~~--~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~~~---~~y~~al~~L~~~Id 905 (947)
+.....-+.-++.|+..|++|....... ..+.. +.++.|+.|...+......+..++.. ......+-.|....|
T Consensus 442 ~~n~~~yiqYa~aR~~SIlrK~~~~~~~~~~~~~~-~~~~~e~~Ll~~l~~~~~~v~~a~~~~~p~~~~~~l~~La~~~N 520 (566)
T TIGR00456 442 EGNTAPYIQYAHARICSILRKADIDGEKLIADDFS-LLEEKEKELLKLLLQFPDVLEEAAEELEPHVLTNYLYELASLFS 520 (566)
T ss_pred CCCCchhHHHHHHHHHHHHHhcccccccccccccC-CCCHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHH
Confidence 4445567888999999999986421110 11223 34888999998887776666554433 333444567899999
Q ss_pred hhhccccccCC-cHHHHHHHHHHHHHHHHhhhhccc
Q 002254 906 DFFNHVFVMVE-EERIRKNRLALLKKIADLPKGIVD 940 (947)
Q Consensus 906 ~FFD~VmVm~e-D~~IR~NRLaLL~~i~~lf~~iaD 940 (947)
.|+++.-|..+ |+++++.||.|...++..+....+
T Consensus 521 ~yy~~~~Vl~~~~~~~~~~RL~L~~a~~~vl~~gL~ 556 (566)
T TIGR00456 521 SFYKACPVLDAENENLAAARLALLKATRQTLKNGLQ 556 (566)
T ss_pred HHHhcCccCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999888874 688999999999999988776554
No 26
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=94.30 E-value=0.073 Score=64.52 Aligned_cols=107 Identities=23% Similarity=0.308 Sum_probs=77.3
Q ss_pred CChHHHHHHHhhhhhcccCCCCCCccCCCc---ccCCCHHHHHHHHHHHHHhhhcCCCC---ChhHHHHHHHhhchHHhh
Q 002254 833 QLFPKVVEAYSRPTRIVRGKDVDTALEVDE---TAFETIEEKALWTVYLSAKNKIHPGI---NVDDFIEISSELVQPLED 906 (947)
Q Consensus 833 ~~f~~l~~a~kRv~NIlkk~~~~~~~~vd~---~lf~~~~E~~L~~~~~~~~~~~~~~~---~~~~y~~al~~L~~~Id~ 906 (947)
....=+.=||.|+..|++|.+.. ...... ..+.++.|.+|...+......+..+. .......-|-+|....+.
T Consensus 454 Nt~pYvQYA~ARi~SIlrka~e~-~~~~~~~~~~~l~~~~E~~L~~~L~~fp~vl~~aa~~~~Ph~la~YL~~LA~~Fn~ 532 (577)
T COG0018 454 NTAPYVQYAHARICSILRKAGED-ELDLSTEADALLTELEERELVKKLLEFPEVLEEAAEELEPHRLANYLYDLAGSFNS 532 (577)
T ss_pred CCchhHHHHHHHHHHHHHhcccc-ccccccccchhccChHHHHHHHHHHHhHHHHHHHHHhcCchHHHHHHHHHHHHHHH
Confidence 44455777999999999987532 111221 47899999999988877655544332 222233335678889999
Q ss_pred hhccccccCCcHH-HHHHHHHHHHHHHHhhhhccc
Q 002254 907 FFNHVFVMVEEER-IRKNRLALLKKIADLPKGIVD 940 (947)
Q Consensus 907 FFD~VmVm~eD~~-IR~NRLaLL~~i~~lf~~iaD 940 (947)
|++++-|+..+.. +|..||+|...++..+..-.+
T Consensus 533 fY~~~~Vl~~~~~~~~~aRL~L~~a~~~vL~ngL~ 567 (577)
T COG0018 533 FYNACPVLGAENEELRAARLALVKATRQVLKNGLD 567 (577)
T ss_pred HHhhCCcCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999987555 999999999999988876554
No 27
>PRK12451 arginyl-tRNA synthetase; Reviewed
Probab=94.23 E-value=0.072 Score=64.41 Aligned_cols=103 Identities=16% Similarity=0.167 Sum_probs=74.3
Q ss_pred hHHHHHHHhhhhhcccCCCCCCccCCCcccCCCHHHHHHHHHHHHHhhhcCCCCChh---HHHHHHHhhchHHhhhhccc
Q 002254 835 FPKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHPGINVD---DFIEISSELVQPLEDFFNHV 911 (947)
Q Consensus 835 f~~l~~a~kRv~NIlkk~~~~~~~~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~~~~---~y~~al~~L~~~Id~FFD~V 911 (947)
..-+.=||-|+..|++|.+... ...+.. |.++.|.+|-..+......+..++..- .....+-.|....|.||+..
T Consensus 447 ~pYiQYa~AR~~SIlrka~~~~-~~~~~~-l~~~~E~~Ll~~L~~~~~~v~~a~e~~ep~~~~~yl~~LA~~fN~fy~~~ 524 (562)
T PRK12451 447 GPYVQYTHARACSILRKESVEF-ETCTFA-LKDDYSWSVVKLLNKFPQVIEAAFNKNEPSVISKYVLDVAQSFNKYYGNV 524 (562)
T ss_pred cHHHHHHHHHHHHHHHhcCCCc-cccccC-CCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHhC
Confidence 3456668889999998864211 112323 679999999998888777665544333 33444567889999999998
Q ss_pred cccCCcHHHHHHHHHHHHHHHHhhhhccc
Q 002254 912 FVMVEEERIRKNRLALLKKIADLPKGIVD 940 (947)
Q Consensus 912 mVm~eD~~IR~NRLaLL~~i~~lf~~iaD 940 (947)
-|+. ++++|+.||+|...++..+....+
T Consensus 525 ~Vl~-~~~~~~~RL~L~~a~~~vL~~gL~ 552 (562)
T PRK12451 525 RILE-ESAEKDSRLALVYAVTVVLKEGLR 552 (562)
T ss_pred CCCC-CHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8885 567899999999999888776554
No 28
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=93.01 E-value=0.11 Score=66.14 Aligned_cols=196 Identities=23% Similarity=0.396 Sum_probs=109.8
Q ss_pred CCCCCCCCCCCCCCCCccc-cceeeeEEEEcCCCc----------chHHHHHHHHHh-cCCCCCCCceeeecCCCCCccc
Q 002254 3 VEPSIRPDDSRYGENPNRL-QRHTQFQVILKPDPG----------NSQDLFIRSLSA-LGIDVTEHDIRFVEDNWESPVL 70 (947)
Q Consensus 3 v~p~~rp~d~ryg~npnrl-~~~~q~qvi~kp~p~----------~~~~~yl~sl~~-~g~~~~~~dirfved~we~p~l 70 (947)
.|||-|=.|= ||==|= .||+=|-.+=-=|-+ ...+.=-+=|.. ||||+ +.|.|.|+=|+-=
T Consensus 122 sQ~CiR~nDl---dnVG~t~rH~T~FEMlGn~sFg~~~~~~YfK~eaI~~a~e~lt~~lgi~~--~~I~~~enfW~~G-- 194 (900)
T PRK13902 122 SQPCIRLNDI---DNVGRTGRHLTSFEMMAHHAFNYPDKEVYWKDETVEYCFEFFTKELGIDP--EEITFKESWWEGG-- 194 (900)
T ss_pred cccccchhhh---hhccccCCchhhhhhccceeeCCCCcccccHHHHHHHHHHHHHhhcCCCH--HHeeecccccCCC--
Confidence 5888887662 222221 455555544333322 122232333433 99998 6799966666544
Q ss_pred ccccccceeeecCeeeeeeehh--hhccCcccccc---eeehhhhHHHHHHHHhCCCccceeeeCC---------CCcee
Q 002254 71 GAWGLGWEIWMDGMEITQFTYF--QQAGSLQLSPV---SVEITYGLERILMLLQGVDHFKKIQYAD---------GITYG 136 (947)
Q Consensus 71 ga~g~gwevw~~gmeitq~tyf--qq~gg~~~~~~---~~e~tygler~~~~~q~~~~~~~~~~~~---------~~~y~ 136 (947)
|--|==-||-..|+||-=.-+. .+-+| .+.|. ++---|||||||+.+||+.++||..+.+ ++.|+
T Consensus 195 GpcGPcsEi~~~glEiwnlVFmqy~~~~g-~~~~Lp~k~VDTG~GLER~~~v~qg~~t~ydt~f~~ii~~i~~~~g~~~~ 273 (900)
T PRK13902 195 GNAGPCFEVLVRGLELATLVFMQYKKDGN-RYVEMPLKIVDTGYGLERIAWASQGTPTAYDAIFGELVDKLKENAGVEEP 273 (900)
T ss_pred CCCCCceeeeeCCEEeeeeeeeEEEcCCC-eeeeCCCCeeeCCcCHHHHHHHHcCCCchHHHHHHHHHHHHHHHhCCCcc
Confidence 8888888999999998432222 22244 34444 4555699999999999999999997776 67776
Q ss_pred c--ccccchhhhhccccccCCHHHHHHHHHHH-------HHHHHHHHHcCCCcchhhhhhhhhhc--cccccccCCcchh
Q 002254 137 E--LFLENEKEMSAYYLEHANVHHLQKQFDFF-------EEESRSLLASGLAIPAYDQLLKTSHA--FNILDSRGFVGVT 205 (947)
Q Consensus 137 ~--~~~~~e~~~s~~~~~~~~~~~~~~~f~~~-------~~e~~~~~~~~l~~pay~~~~k~sh~--fn~ldar~~~~~~ 205 (947)
+ +..++-.-....+. .+.+.+..+++.- .+|-.++++.. -++ -.=|-|+ .-.+=|-|++--+
T Consensus 274 ~~~~~~~~~~~~g~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~--~vIaDH~R~~~f~i~DGv~PsN 346 (900)
T PRK13902 274 DEEILAEAARLAGLMDI--EEIEDLRSLRQKVAKKLGIDVEELEELLEPL---EAI--YAIADHTRTLAFMLGDGIVPSN 346 (900)
T ss_pred cchhhhhhhhhcccCCc--ccchhHHHHHHHHHhhcccchhhhhhhcccc---ceE--EEEecHHHHHHHHHhCCCcCCC
Confidence 4 44433332222222 2333333333321 12333333221 111 1112221 1134466999999
Q ss_pred hhhhHHHH
Q 002254 206 ERARYFGR 213 (947)
Q Consensus 206 er~~~~~~ 213 (947)
+-..|+.|
T Consensus 347 ~grGYvlR 354 (900)
T PRK13902 347 VGEGYLAR 354 (900)
T ss_pred CCcchHHH
Confidence 99999876
No 29
>COG1418 Predicted HD superfamily hydrolase [General function prediction only]
Probab=90.68 E-value=0.6 Score=50.32 Aligned_cols=117 Identities=20% Similarity=0.227 Sum_probs=90.5
Q ss_pred HHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhC
Q 002254 601 DFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRD 680 (947)
Q Consensus 601 ~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~ 680 (947)
.....+....|+.-=++.++-+.|+..||..||...|.+. ..+.+||.|- |+......+--.=+-+.|..-|+.-
T Consensus 20 ~~~~~~~~~~~~~~~~~~l~H~~~Va~lA~~Ia~~~g~D~---~l~~~aaLLH--DIg~~~~~~~~~~h~~~gae~a~~~ 94 (222)
T COG1418 20 DLVKLLGRLKFRTYGQHVLEHSLRVAYLAYRIAEEEGVDP---DLALRAALLH--DIGKAIDHEPGGSHAEIGAEIARKF 94 (222)
T ss_pred HHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHcCCCH---HHHHHHHHHH--hhccccccCCccchHHHHHHHHHHH
Confidence 3344455556666446899999999999999999999874 4689999984 6666555553222788999999999
Q ss_pred CCC----------HHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHH
Q 002254 681 GYS----------QQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLV 722 (947)
Q Consensus 681 GE~----------~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtLv 722 (947)
+++ +.|+.+|..|--=....|.+|.+..|..+.=||++|.+.
T Consensus 95 ~~~~~~~~~~~~~~~~~~~i~~~s~~~~~~d~~~a~~~g~~~~dad~l~~~~ 146 (222)
T COG1418 95 LEDPVVINAIEAHHGVEEIISRHSFLVAAADALSAARPGARLQDADRLDARG 146 (222)
T ss_pred cccccccchHHHhccccchhhHHHHHhhhhhcccccCCccccccHHHHHHHH
Confidence 999 667888887776666667999999999999999888765
No 30
>cd00077 HDc Metal dependent phosphohydrolases with conserved 'HD' motif
Probab=90.66 E-value=6.1 Score=36.24 Aligned_cols=108 Identities=18% Similarity=0.143 Sum_probs=73.6
Q ss_pred CHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchh------hhhcChhhhhHHHHHHHH------hCCCCH
Q 002254 617 TMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATS------VVMEFTSLAGVMACHYAL------RDGYSQ 684 (947)
Q Consensus 617 Sl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~------MV~EFPELQGiMG~~YA~------~~GE~~ 684 (947)
+.+..+.++..++..++...+.+..+...+..||.|.-.-.... .-.-+..-....|..+++ ..+...
T Consensus 2 ~~~~Hs~~v~~~~~~~~~~~~~~~~~~~~l~~aaLlHDig~~~~~~~~~~~~~~~~~~h~~~g~~~~~~~~~~~~~~~~~ 81 (145)
T cd00077 2 HRFEHSLRVAQLARRLAEELGLSEEDIELLRLAALLHDIGKPGTPDAITEEESELEKDHAIVGAEILRELLLEEVIKLID 81 (145)
T ss_pred chHHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHhcCCccCccccCHHHHHHHHhhHHHHHHHHHHhhhcccccccH
Confidence 56788899999999999887654444556777887764433211 011135566677777784 677788
Q ss_pred HHHHHHH-hhcCCCCCCC------CCCCchhHHHHHHHHHHHHHHHh
Q 002254 685 QIAEALL-EINLPRFSGD------VLPKTDVGTVLAVADRLDTLVGL 724 (947)
Q Consensus 685 ~VA~AI~-EhYlPr~agD------~LP~s~~G~iLslADKlDtLvG~ 724 (947)
+++.++. -|+.+..... ..|.+..+.+|.+||++|+....
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~~~~~~~~ 128 (145)
T cd00077 82 ELILAVDASHHERLDGLGYPDGLKGEEITLEARIVKLADRLDALRRD 128 (145)
T ss_pred HHHHHHHHHcccCCCCCCCCCCCCcccCCHHHHHHHHHHHHHHHhcC
Confidence 8888887 5553322221 22568999999999999999875
No 31
>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=90.06 E-value=0.26 Score=62.83 Aligned_cols=121 Identities=27% Similarity=0.485 Sum_probs=79.7
Q ss_pred CCCCCCCCCCCCCCCCccc-cceeeeEEEEcCCCcc----------hHHHHHHHHHhcCCCCCCCceeeecCCCCCcccc
Q 002254 3 VEPSIRPDDSRYGENPNRL-QRHTQFQVILKPDPGN----------SQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLG 71 (947)
Q Consensus 3 v~p~~rp~d~ryg~npnrl-~~~~q~qvi~kp~p~~----------~~~~yl~sl~~~g~~~~~~dirfved~we~p~lg 71 (947)
.|||-|=.|= ||==|= .||+=|..+=-=|-+. ..+.=-+=|+.|||+ .+.|.|.|+=|+-= |
T Consensus 119 sQkCiR~nDl---dnVG~t~rH~TfFEMlGn~sFg~~~~~dYfK~EaI~~a~e~l~~lgi~--~~~i~~~enfW~~G--G 191 (902)
T TIGR03683 119 SQPCIRLNDI---DNVGRTGRHLTCFEMMAHHAFNYPDKEIYWKDETVEYCFEFLEELGID--PEEITYKESPWEGG--G 191 (902)
T ss_pred cccccccccc---ccccCCCCcchhhhhccceeeCCCCcccCcHHHHHHHHHHHHHHcCCC--HHHeeecCCccCCC--C
Confidence 5888888763 222222 4666665554434331 222223345668984 45688866556544 8
Q ss_pred cccccceeeecCeeeeeeehhhhc----------cCccccc---ceeehhhhHHHHHHHHhCCCccceeeeCC
Q 002254 72 AWGLGWEIWMDGMEITQFTYFQQA----------GSLQLSP---VSVEITYGLERILMLLQGVDHFKKIQYAD 131 (947)
Q Consensus 72 a~g~gwevw~~gmeitq~tyfqq~----------gg~~~~~---~~~e~tygler~~~~~q~~~~~~~~~~~~ 131 (947)
--|==-||-..|+||-=.-+.|-- +| .+.| -++---||||||++.+||+.++||..+.+
T Consensus 192 pcGPcsEi~~~glEiwnlVFmq~~~~~~~~~~~~~g-~~~~Lp~k~VDTG~GLER~~~v~qg~~t~ydt~f~~ 263 (902)
T TIGR03683 192 NAGPCFEVIVGGLELATLVFMQYEEDKEGEIEIKGG-RYSEMPLKIVDTGYGLERFVWASQGTPTAYDAIFPE 263 (902)
T ss_pred CCCCceeeeeCcEeeeeeeeeeeccccccccccCCC-eeeeCCCCceecCCCHHHHHHHHcCCCchHHHHHHH
Confidence 888889999999999766666532 33 2333 44556699999999999999999997765
No 32
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=89.47 E-value=0.3 Score=59.44 Aligned_cols=77 Identities=30% Similarity=0.451 Sum_probs=48.2
Q ss_pred cCCCCCCCceeee--cCCCCC--cccccccccceeeec------------------Ceeeeeeehhh---hccC--cccc
Q 002254 49 LGIDVTEHDIRFV--EDNWES--PVLGAWGLGWEIWMD------------------GMEITQFTYFQ---QAGS--LQLS 101 (947)
Q Consensus 49 ~g~~~~~~dirfv--ed~we~--p~lga~g~gwevw~~------------------gmeitq~tyfq---q~gg--~~~~ 101 (947)
+|++.. | |-+. +|||=. =--|--|==-|+-.| ++||-=.-+.| ..+| .++.
T Consensus 145 ~g~~~~-r-I~~~~~~dNfW~~~G~~GPCGPcsEI~~d~g~~~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp 222 (594)
T PRK01584 145 LGIPKD-R-IFYLSREHNWWGPVGETGPCGPDTEIFVDTGKPKCSVNCRPTCSCGKYFEIWNNVFMQYNKDEDGNYEELK 222 (594)
T ss_pred cCCCHH-H-eeeCCCCCCcccccCCCcCCCCceEEEEecCCcccccccCCCCCCCceEEEeeeeeeeeeecCCCccccCC
Confidence 777543 3 4444 678641 112444433777777 37764433333 2344 3444
Q ss_pred cceeehhhhHHHHHHHHhCCCcccee
Q 002254 102 PVSVEITYGLERILMLLQGVDHFKKI 127 (947)
Q Consensus 102 ~~~~e~tygler~~~~~q~~~~~~~~ 127 (947)
--++---+|||||++.|||+.|+||.
T Consensus 223 ~k~IDTGmGLERl~~vlqg~~s~ydt 248 (594)
T PRK01584 223 RKCVDTGMGIERTIAFLQGKSSVYDT 248 (594)
T ss_pred CCceeCCcCHHHHHHHHcCCCCccch
Confidence 44566679999999999999999998
No 33
>PRK01611 argS arginyl-tRNA synthetase; Reviewed
Probab=89.00 E-value=0.55 Score=56.18 Aligned_cols=102 Identities=25% Similarity=0.298 Sum_probs=70.8
Q ss_pred HHHHHHhhhhhcccCCCCCCccCCCcccCCCHHHHHHHHHHHHHhhhcCCCCCh---hHHHHHHHhhchHHhhhhccccc
Q 002254 837 KVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHPGINV---DDFIEISSELVQPLEDFFNHVFV 913 (947)
Q Consensus 837 ~l~~a~kRv~NIlkk~~~~~~~~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~~~---~~y~~al~~L~~~Id~FFD~VmV 913 (947)
-+.=++.|+..|+++.+. .........+.++.|+.|...+......+..+++. ......+-+|....+.|+++..
T Consensus 392 yvqYa~aR~~sil~k~~~-~~~~~~~~~l~~~~e~~Ll~~L~~~~~~v~~a~~~~~p~~l~~yl~~la~~f~~fY~~~~- 469 (507)
T PRK01611 392 YVQYAHARICSILRKAAE-AGIDLLLALLTEEEEKELIKKLAEFPEVVESAAEELEPHRIANYLYELAGAFHSFYNRVL- 469 (507)
T ss_pred HHHHHHHHHHHHHHhhhc-cCccccccccCCHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHCC-
Confidence 445577799999987431 11111113477899999998887776666544322 2233345678899999999877
Q ss_pred cCCcHH-HHHHHHHHHHHHHHhhhhccc
Q 002254 914 MVEEER-IRKNRLALLKKIADLPKGIVD 940 (947)
Q Consensus 914 m~eD~~-IR~NRLaLL~~i~~lf~~iaD 940 (947)
..+|++ +++.||+|...++..+....+
T Consensus 470 l~~~~~~~~~~Rl~L~~a~~~vl~~~l~ 497 (507)
T PRK01611 470 LKDEEEELRNARLALVKATAQVLKNGLD 497 (507)
T ss_pred CCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 656766 999999999999988876554
No 34
>TIGR00277 HDIG uncharacterized domain HDIG. This domain is found in a few known nucleotidyltransferes and in a large number of uncharacterized proteins. It contains four widely separated His residues, the second of which is part of an invariant dipeptide His-Asp in a region matched approximately by the motif HDIG.
Probab=88.95 E-value=2.3 Score=36.59 Aligned_cols=75 Identities=15% Similarity=0.225 Sum_probs=56.4
Q ss_pred CHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhCCCCHHHHHHHHhhc
Q 002254 617 TMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEIN 694 (947)
Q Consensus 617 Sl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~GE~~~VA~AI~EhY 694 (947)
.+++-+.|+..++..||...+++.+ .+.-||.|.-......--....--+..+|...++..|.+++|+.+|..|-
T Consensus 4 ~~~~H~~~v~~~a~~la~~~~~~~~---~l~~AalLHDiG~~~~~~~~~~~~H~~~g~~~l~~~~~~~~~~~~I~~Hh 78 (80)
T TIGR00277 4 NVLQHSLEVAKLAEALARELGLDVE---LARRGALLHDIGKPITREGVIFESHAVVGAEIARKYGEPLEVIDIIAEHH 78 (80)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCCHH---HHHHHHHHHccCCcccchHHHHHchHHHHHHHHHHcCCCHHHHHHHHHHc
Confidence 5688899999999999999988743 46678888765433211000123477889999999999999999999884
No 35
>PLN02286 arginine-tRNA ligase
Probab=87.46 E-value=3.7 Score=50.23 Aligned_cols=103 Identities=18% Similarity=0.186 Sum_probs=70.0
Q ss_pred HHHHHHHhhhhhcccCCCCCC-c-cCCCcccCCCHHHHHHHHHHHHHhhhcCCCC---ChhHHHHHHHhhchHHhhhhcc
Q 002254 836 PKVVEAYSRPTRIVRGKDVDT-A-LEVDETAFETIEEKALWTVYLSAKNKIHPGI---NVDDFIEISSELVQPLEDFFNH 910 (947)
Q Consensus 836 ~~l~~a~kRv~NIlkk~~~~~-~-~~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~---~~~~y~~al~~L~~~Id~FFD~ 910 (947)
.=|.=||.|+..|++|.+... . ...++..+.++.|++|-..+......+..+. .......-|-.|....+.|+++
T Consensus 459 pYlQYahAR~~SIlrKa~~~~~~~~~~~~~~l~~~~E~~L~~~l~~fp~vv~~a~~~~~P~~l~~Yl~~LA~~F~~fY~~ 538 (576)
T PLN02286 459 VYLLYAHARICSIIRKSGKDIDELKKTGKIVLDHPDERALGLHLLQFPEVVEEACTDLLPNRLCEYLYNLSEKFTKFYSN 538 (576)
T ss_pred HHHHHHHHHHHHHHHhccCccccccccccccCCCHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHhc
Confidence 357779999999999864211 0 0012234789999999888876655444321 2222333356788899999988
Q ss_pred ccccCCcHHHHHHHHHHHHHHHHhhhhccc
Q 002254 911 VFVMVEEERIRKNRLALLKKIADLPKGIVD 940 (947)
Q Consensus 911 VmVm~eD~~IR~NRLaLL~~i~~lf~~iaD 940 (947)
.-|..+++. +.||.|...++..+..-.+
T Consensus 539 ~~Vl~~~~~--~aRL~L~~a~~~vL~~gL~ 566 (576)
T PLN02286 539 CKVNGSEEE--TSRLLLCEATAIVMRKCFH 566 (576)
T ss_pred CccCCCCch--hHHHHHHHHHHHHHHHHHH
Confidence 888875444 8899999999888776554
No 36
>PRK00252 alaS alanyl-tRNA synthetase; Reviewed
Probab=87.23 E-value=0.71 Score=58.80 Aligned_cols=102 Identities=26% Similarity=0.299 Sum_probs=67.1
Q ss_pred CCCCCCcccc-ceeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceee-ecCCCCC-cccccccccceeeec-------
Q 002254 13 RYGENPNRLQ-RHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRF-VEDNWES-PVLGAWGLGWEIWMD------- 82 (947)
Q Consensus 13 ryg~npnrl~-~~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirf-ved~we~-p~lga~g~gwevw~~------- 82 (947)
.||-+|+||+ .|| + +| +|-|===++.+|+++. |=|+| .+|||-+ =-.|--|==-|+-.|
T Consensus 113 ~~~i~~~~l~vt~~-------~--~D-~e~~~iW~~~~g~~~~-~i~~~~~~dNfW~~G~~GpcGPcsEi~~d~g~~~~~ 181 (865)
T PRK00252 113 VLGLPKEKLYVTVY-------E--DD-DEAYDIWKKEIGVPPE-RIIRIGKKDNFWSMGDTGPCGPCSEIFYDRGEEYWG 181 (865)
T ss_pred HhCCCHHHEEEEEc-------C--CC-HHHHHHHHhccCCCHH-HeecCCccCCccccCCCcCCCCCeEEEEecCcccCC
Confidence 3899999998 454 2 22 2444444556788664 44776 6777543 223666666777776
Q ss_pred ------------Ceee-----eeeehhhhccC--cccccceeehhhhHHHHHHHHhCCCcccee
Q 002254 83 ------------GMEI-----TQFTYFQQAGS--LQLSPVSVEITYGLERILMLLQGVDHFKKI 127 (947)
Q Consensus 83 ------------gmei-----tq~tyfqq~gg--~~~~~~~~e~tygler~~~~~q~~~~~~~~ 127 (947)
+.|| +||.+- .+| .+|.--++---+|||||++.|||+.+.||.
T Consensus 182 ~~~~~~~~~~~~~lEiwNlVF~q~~~~--~~g~~~~Lp~~~iDTG~GlER~~~ilq~~~snydt 243 (865)
T PRK00252 182 GPPGSPEEDGDRYIEIWNLVFMQFNRD--EDGNLTPLPKKNIDTGMGLERIAAVLQGVHSNYET 243 (865)
T ss_pred CCCCCCcCCCCcEEEEeeeeeEeeeec--CCCceeeCCCCeeecCcCHHHHHHHHcCCCCcchh
Confidence 3555 565542 344 344445566779999999999999999997
No 37
>TIGR03401 cyanamide_fam HD domain protein, cyanamide hydratase family. Members of this protein family are known, so far, in the Ascomycota, a branch of the Fungi, and contain an HD domain (pfam01966), found typically in various metal-dependent phosphohydrolases. The only characterized member of this family, from the soil fungus Myrothecium verrucaria, is cyanamide hydratase (EC 4.2.1.69), a zinc-containing homohexamer that adds water to the fertilizer cyanamide (NCNH2), a nitrile compound, to produce urea (NH2-CO-NH2). Homologs are likely to be nitrile hydratases.
Probab=86.21 E-value=6.2 Score=42.87 Aligned_cols=100 Identities=18% Similarity=0.195 Sum_probs=68.4
Q ss_pred CHHHHHHHHHHHHHHHHHH----hCCChhHHHHHHHHHHhhhhhcchhhhh----cChhhhhHHHHHHHHhC-CCCH---
Q 002254 617 TMLDKTMRVQNMVRKLSLD----LGINEDMLQIVQEAASLAMSDLATSVVM----EFTSLAGVMACHYALRD-GYSQ--- 684 (947)
Q Consensus 617 Sl~DK~~Ri~~La~~La~~----l~~~~~~~~~~~RAA~L~KaDL~T~MV~----EFPELQGiMG~~YA~~~-GE~~--- 684 (947)
-.++-+.|+-.+|..|+.. .+++. +.+.-||.|--.-++-.-.. -|-+.-+...+...+.. |-++
T Consensus 55 ~~~~Hs~RV~~~a~~ia~~e~~~~~~D~---evl~lAALLHDIG~~~~~~~~~~~~fe~~ga~~A~~~L~~~~G~~~~~~ 131 (228)
T TIGR03401 55 ETYNHSLRVYYYGLAIARDQFPEWDLSD---ETWFLTCLLHDIGTTDENMTATKMSFEFYGGILALDVLKEQTGANQDQA 131 (228)
T ss_pred hhhHHHHHHHHHHHHHHHHhccccCCCH---HHHHHHHHHHhhccccccCCcccCCHHHHHHHHHHHHHHHCCCCCHHHH
Confidence 6788999999999999974 25553 45677887764433211111 23344455666666666 7665
Q ss_pred -HHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHH
Q 002254 685 -QIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLV 722 (947)
Q Consensus 685 -~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtLv 722 (947)
.|+.||.-|=.| |..-+.++.|.+|..||++|.+-
T Consensus 132 ~~V~~aI~~H~~~---~~~~~~~~e~~lvq~Ad~lDa~G 167 (228)
T TIGR03401 132 EAVAEAIIRHQDL---GVDGTITTLGQLLQLATIFDNVG 167 (228)
T ss_pred HHHHHHHHHHhCC---CCCCCcCHHHHHHHHHHHHhHcc
Confidence 577899999554 44445688999999999999763
No 38
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=83.54 E-value=6.9 Score=46.02 Aligned_cols=118 Identities=13% Similarity=0.165 Sum_probs=83.5
Q ss_pred hhhhHhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeeccccccCcchhhhhcCCcccccccc
Q 002254 264 RLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFDQ 343 (947)
Q Consensus 264 ~~lLlEIGtEELPa~~v~~a~~~l~~~~~~~L~~~~L~~~~i~~~~TPRRLav~v~~l~~~q~d~~~e~kGP~v~~Afd~ 343 (947)
.-+.+++-.+++|.-.+-+-++-..+.+.+.|+.++...=...+++.-.. +.++-.+...+-...+...|||+-
T Consensus 280 ~~~~~~f~~p~~v~Dil~pQl~r~~~~i~~~L~~~gF~v~r~~~~~~~~~-~~l~~el~~~~lp~~~~h~GPpv~----- 353 (408)
T TIGR03671 280 TLLAIVFRTPDVVDDILYPQLERSGRSLVKLLEREGFEVLRYGVWADENT-CYLLLELESAELPRVKLHVGPPVW----- 353 (408)
T ss_pred EEEEEEeCCCCCCccchhHHHHHHHHHHHHHHHHCCCEEEEeeeecCCCe-EEEEEEeeccccCCceeeeCCCcc-----
Confidence 34677777899999999999999999999999999986656666776666 455545666666688889999993
Q ss_pred CCCCc-HHHHHHHHHCCCCccCceEEeeCCeeEEEEEEEecchhHHHHHHhHH
Q 002254 344 QGNPT-KAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDV 395 (947)
Q Consensus 344 dG~pT-kAa~GFak~~Gv~~~~l~~~~~~kgeyl~~~~~~~G~~t~eiL~eil 395 (947)
+ ..+++|.+++.-...--.+ ++ .-+++.+..+-..+.++|.+.+
T Consensus 354 ----~~~~a~~F~~k~~~~~~gp~I---~~-~r~~~~~~R~~~~~~~~l~~~~ 398 (408)
T TIGR03671 354 ----VRDHAEKFIEKYEDVDYGPFI---EG-DRLYVEKERKYTTAEDLLRDEL 398 (408)
T ss_pred ----chhHHHHHHHHhccCCCCCEe---eC-CEEEEEEeeecccHHHHHHHHh
Confidence 3 6789999998321110121 22 3455555566677777777644
No 39
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=82.16 E-value=2.1 Score=54.23 Aligned_cols=92 Identities=28% Similarity=0.359 Sum_probs=67.2
Q ss_pred HHHHHHHHHhcCCCCCCCceee-ecCCCCCcccccccccceeeecC-------------------eeeeeeehhh--hc-
Q 002254 39 QDLFIRSLSALGIDVTEHDIRF-VEDNWESPVLGAWGLGWEIWMDG-------------------MEITQFTYFQ--QA- 95 (947)
Q Consensus 39 ~~~yl~sl~~~g~~~~~~dirf-ved~we~p~lga~g~gwevw~~g-------------------meitq~tyfq--q~- 95 (947)
.|-|=.+.+.+||++ +|=||+ -+|||-+.-.|--|==-||..|+ +||-=.-+.| +.
T Consensus 134 dea~~~W~~~~gip~-~rIir~~~~dNfW~~G~GPcGPcsEI~yD~G~~~~~~~~~~~~~d~dR~lEiwNLVFmQfnr~~ 212 (879)
T COG0013 134 DEAYNEWEKIIGIPP-ERIIRIGASDNFWEMGDGPCGPCSEIFYDRGEEIGGGPPGSPDEDGDRYLEIWNLVFMQYNRDP 212 (879)
T ss_pred hHHHHHHHhhcCCCH-HHeeecCcCCCCCCCCCcCCCCceEEEEcCCcccCCCCCCCcCCCCCceEEEeeeeehhhccCC
Confidence 355667778888754 455666 57888777767778889999999 9986554444 33
Q ss_pred cCc---ccccceeehhhhHHHHHHHHhCCCccceeeeCC
Q 002254 96 GSL---QLSPVSVEITYGLERILMLLQGVDHFKKIQYAD 131 (947)
Q Consensus 96 gg~---~~~~~~~e~tygler~~~~~q~~~~~~~~~~~~ 131 (947)
|+- +|.--++-=-||||||+-.||++.++||+..=.
T Consensus 213 ~~g~~~~Lp~k~IDTGmGLERi~~vlQ~~~tnyd~dlf~ 251 (879)
T COG0013 213 GDGNYTPLPKKNIDTGMGLERIAAVLQGVPTNYDTDLFR 251 (879)
T ss_pred CCCCcccCCCCCcccCccHHHHHHHHcCCCcchhhhhhH
Confidence 443 444455666799999999999999999986543
No 40
>PRK10119 putative hydrolase; Provisional
Probab=81.91 E-value=12 Score=40.91 Aligned_cols=102 Identities=18% Similarity=0.154 Sum_probs=63.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcC---hhhhhHHHHHHHHh--CCCCHH---
Q 002254 614 KLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEF---TSLAGVMACHYALR--DGYSQQ--- 685 (947)
Q Consensus 614 kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EF---PELQGiMG~~YA~~--~GE~~~--- 685 (947)
.-|-=++-++|+.++|..||..-+.+ ...+.-||.|--..-...-..+- ++..--+..-+-+. .|-+++
T Consensus 22 ~~~HD~~Hi~RV~~lA~~Ia~~e~~D---~~vv~lAAlLHDv~d~~k~~~~~~~~~~~~a~~a~~~L~~~~~g~~~~~i~ 98 (231)
T PRK10119 22 DAAHDICHFRRVWATAQKLAADDDVD---MLVVLTACYFHDIVSLAKNHPQRHRSSILAAEETRRILREDFPDFPAEKIE 98 (231)
T ss_pred CCccChHHHHHHHHHHHHHHHhcCCC---HHHHHHHHHHhhcchhhhcCccccchhhHHHHHHHHHHHHcccCcCHHHHH
Confidence 44445889999999999999886665 34567788876541100000010 11111222222233 577765
Q ss_pred -HHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHH
Q 002254 686 -IAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTL 721 (947)
Q Consensus 686 -VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtL 721 (947)
|..+|..|=. ++..-|.|..|.||.=|||||.|
T Consensus 99 ~V~~iI~~~sf---s~~~~p~tlE~kIVQDADRLDAi 132 (231)
T PRK10119 99 AVCHAIEAHSF---SAQIAPLTLEAKIVQDADRLEAL 132 (231)
T ss_pred HHHHHHHHcCC---CCCCCCCCHHHhhhhhHHHHHhc
Confidence 5556666644 44445899999999999999986
No 41
>PLN02900 alanyl-tRNA synthetase
Probab=81.79 E-value=1.6 Score=56.15 Aligned_cols=104 Identities=26% Similarity=0.313 Sum_probs=61.0
Q ss_pred CCCCCcccc-cee-eeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceee-ecCCCCC-cccccccccceeeec-------
Q 002254 14 YGENPNRLQ-RHT-QFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRF-VEDNWES-PVLGAWGLGWEIWMD------- 82 (947)
Q Consensus 14 yg~npnrl~-~~~-q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirf-ved~we~-p~lga~g~gwevw~~------- 82 (947)
||-+|+||+ .|| -=+.+ |.-...-++.++- | +.+|=+|| -+|||-+ =-.|--|==-|+-.|
T Consensus 132 l~i~~~~l~vTv~~~D~~~--~~d~Ea~~iW~~~-----~-~~~rI~~~~~~dNfW~~G~tGpcGPcsEi~yD~g~~~~~ 203 (936)
T PLN02900 132 YGLPADRLYATYFGGDEKQ--APDDEARAIWLDY-----L-PEERVLPFGCKDNFWEMGDTGPCGPCSEIHYDRIGERDA 203 (936)
T ss_pred cCCCHHHEEEEEeCCCCCc--CCCHHHHHHHHHh-----C-CHHHeecCCcccCCccCCCCcCCCCCeEEEEecCCccCc
Confidence 677788876 444 10111 2222334455443 2 23344555 3577543 224666666777776
Q ss_pred ----------Ceee-----eeeehhhhccC-c-ccccceeehhhhHHHHHHHHhCCCcccee
Q 002254 83 ----------GMEI-----TQFTYFQQAGS-L-QLSPVSVEITYGLERILMLLQGVDHFKKI 127 (947)
Q Consensus 83 ----------gmei-----tq~tyfqq~gg-~-~~~~~~~e~tygler~~~~~q~~~~~~~~ 127 (947)
++|| +||.+ ...| + +|.--++---+||||||+.|||+.|.||.
T Consensus 204 ~~~~~~~~~r~lEiwNlVFmq~~~--~~~g~~~~Lp~~~IDTGmGLERl~~vlqg~~snydt 263 (936)
T PLN02900 204 ADLVNNDDPRFIEIWNLVFIQFNR--EADGSLKPLPAKHVDTGMGLERLASILQNKPSNYDT 263 (936)
T ss_pred cccCCCCCCCEEEEeeeeeeeeee--cCCCceeeCCCCeeecCcCHHHHHHHHcCCCCcchh
Confidence 5777 45543 2233 2 24444566679999999999999999997
No 42
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=76.39 E-value=17 Score=43.45 Aligned_cols=115 Identities=17% Similarity=0.228 Sum_probs=82.7
Q ss_pred hhhhHhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeeccccccCcchhhhhcCCcccccccc
Q 002254 264 RLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFDQ 343 (947)
Q Consensus 264 ~~lLlEIGtEELPa~~v~~a~~~l~~~~~~~L~~~~L~~~~i~~~~TPRRLav~v~~l~~~q~d~~~e~kGP~v~~Afd~ 343 (947)
.-+.+++..+++|+-.+-+-++-..+.+.+.|+.++...=...+++.--+-+++++ +...+-...+...|||+-
T Consensus 283 ~~~~v~f~~p~~v~Dil~pQl~r~~~~i~~~L~~~gF~v~~~~~~~d~~~~~l~~e-l~~~~lp~~~~h~GPpv~----- 356 (447)
T PRK13300 283 TVLALEFPRPDIVEDILYPQLERSLRSIVKLLEREGFEVLRSGAWADEDRAYLLLE-LEVAELPNVKLHIGPPVW----- 356 (447)
T ss_pred eEEEEEeCCCCCCccchhHHHHHHHHHHHHHHHHCCCEEEEeeeecCCCeEEEEEE-eecccCCCeeeeeCCCcC-----
Confidence 45788888999999999999999999999999999987655666776566666555 555555577889999993
Q ss_pred CCCCcHH-HHHHHHHCCCCccCceEEeeCCeeEEEEEEEecchhHHHHHH
Q 002254 344 QGNPTKA-VEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLS 392 (947)
Q Consensus 344 dG~pTkA-a~GFak~~Gv~~~~l~~~~~~kgeyl~~~~~~~G~~t~eiL~ 392 (947)
++. ++.|.+++.-++.-.. .+++ -+++.+..+-..+.++|.
T Consensus 357 ----~~~~a~~F~~k~~~~~~g~~---I~~~-r~~~~~~R~~~~~~~~l~ 398 (447)
T PRK13300 357 ----VREHAENFIEKYEDSVYGPF---IEGD-RLYVERERKYTTAEELLE 398 (447)
T ss_pred ----chhhHHHHHHHhccCCCCeE---EeCC-EEEEEEeeccCcHHHHHh
Confidence 333 8999999844311122 2233 455555555667778777
No 43
>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=75.12 E-value=3.7 Score=52.46 Aligned_cols=104 Identities=28% Similarity=0.413 Sum_probs=65.1
Q ss_pred CCCCCccccc-eeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceeee-cCC-CCCcccccccccceeeec------C-
Q 002254 14 YGENPNRLQR-HTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFV-EDN-WESPVLGAWGLGWEIWMD------G- 83 (947)
Q Consensus 14 yg~npnrl~~-~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirfv-ed~-we~p~lga~g~gwevw~~------g- 83 (947)
||-+|+||+- || +.- +|-|===++ +||+. +|=+||= +|| |+-=- |--|==-|+-.| |
T Consensus 109 ~~i~~~rl~vTv~-------~~D---~ea~~iW~~-~g~~~-~~i~~~~~~dNfW~~G~-GpcGPcsEi~yD~g~~~~~~ 175 (851)
T TIGR00344 109 LGLDKERLYVTVY-------EDD---EEAYEIWEK-HGIPA-ERIIRCGDKDNFWDMGD-GPCGPCTEIYYDRGEFVGGK 175 (851)
T ss_pred cCCChHHEEEEEc-------CCC---HHHHHHHHh-cCCCH-HHcccCCccCCcCCCCC-cCCccCeEEEEecCcccCCC
Confidence 8899999985 33 222 344444445 88854 4556762 355 54333 666666777754 2
Q ss_pred -------------eeeeeeehhh---hccC--cccccceeehhhhHHHHHHHHhCCCcccee-eeC
Q 002254 84 -------------MEITQFTYFQ---QAGS--LQLSPVSVEITYGLERILMLLQGVDHFKKI-QYA 130 (947)
Q Consensus 84 -------------meitq~tyfq---q~gg--~~~~~~~~e~tygler~~~~~q~~~~~~~~-~~~ 130 (947)
+||==.-+.| .-+| .+|.--++---+||||||+.|||+.|.||. .+.
T Consensus 176 ~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp~~~IDTGmGLERl~~vlqg~~snydtD~f~ 241 (851)
T TIGR00344 176 PGEPEFFEENDRYVEVWNLVFMQFNRDPDGNYTPLPKKNIDTGMGLERFVAVLQGVPTNYDTDIFL 241 (851)
T ss_pred CCcccccCCCCcEEEEeeeeeEeeeecCCCceeeCCCCeeecCcCHHHHHHHHcCCCCcchhhhHH
Confidence 5654333322 3344 344445666779999999999999999998 444
No 44
>COG1713 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]
Probab=74.13 E-value=12 Score=39.68 Aligned_cols=108 Identities=19% Similarity=0.197 Sum_probs=78.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH---hhhhhcchh-------------hhhcChh-hhhHHHHHHHHh-
Q 002254 618 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAAS---LAMSDLATS-------------VVMEFTS-LAGVMACHYALR- 679 (947)
Q Consensus 618 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~---L~KaDL~T~-------------MV~EFPE-LQGiMG~~YA~~- 679 (947)
-++.+.|+.+.|..||+..+.+.+. +.-||. +||..=-.. .-.++|+ |.|-.|.|++++
T Consensus 18 R~~H~l~V~~~A~~LA~~y~~d~~k---A~~AgilHD~aK~~p~~~~~~~~~~~~~~~~~~~~~~~llH~~vgay~~~~~ 94 (187)
T COG1713 18 RFEHCLGVAETAIELAEAYGLDPEK---AYLAGILHDIAKELPEQKLLKIAKKYGLELDLERESPLLLHGKVGAYLLKEE 94 (187)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCHHH---HHHHHHHHHHHhhCCHHHHHHHHHHhCCCchhhccChHHHHHHHHHHHHHHH
Confidence 3677999999999999999998643 444443 355432222 3345555 689999999998
Q ss_pred CCC-CHHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHhhhcCCCCCCCCCh--hhhhHHHH
Q 002254 680 DGY-SQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDP--FGLRRISY 745 (947)
Q Consensus 680 ~GE-~~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtLvG~F~iG~~PTGS~DP--fALRRaAl 745 (947)
-|- +++|=.||+-|=-|+..- |..+.+|=+||||. | |-..| --+|+.|+
T Consensus 95 fGi~De~VL~AI~~HTtg~~~m-----t~ldkIiyiAD~iE-----------p-~R~~pgv~~~R~~a~ 146 (187)
T COG1713 95 FGIKDEEVLSAIEYHTTGRKQM-----TLLDKILYVADKIE-----------P-GRGFPGVDKIRQIAL 146 (187)
T ss_pred hCCCcHHHHHHHHHhccCCCcc-----chhhheeeeecccc-----------C-CCCCCCchhHHHHHH
Confidence 564 889999999999888544 67799999999985 3 44455 55666554
No 45
>COG2206 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]
Probab=72.94 E-value=22 Score=40.64 Aligned_cols=102 Identities=22% Similarity=0.271 Sum_probs=74.4
Q ss_pred HHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcc---hhhh--------hcC--hhhhhHHHHHHHHhCC-CCH
Q 002254 619 LDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLA---TSVV--------MEF--TSLAGVMACHYALRDG-YSQ 684 (947)
Q Consensus 619 ~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~---T~MV--------~EF--PELQGiMG~~YA~~~G-E~~ 684 (947)
+--+.|+..++..||.++|+++++...+..||.|-...-+ +.+. .|| -....++|..++..-+ .++
T Consensus 150 ~~Hs~~va~~a~~ia~~lgl~~~~i~~l~~aalLHDIGKi~ip~~IL~K~g~Lt~eE~~~ik~H~~~g~~iL~~~~~~~~ 229 (344)
T COG2206 150 YGHSVRVAELAEAIAKKLGLSEEKIEELALAGLLHDIGKIGIPDSILNKPGKLTEEEFEIIKKHPIYGYDILKDLPEFLE 229 (344)
T ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhcccccCCHHHhCCCCCCCHHHHHHHHhchHHHHHHHHhcccccH
Confidence 3468999999999999999998888788888887654321 1111 233 3445789999999888 444
Q ss_pred H-HHHHHHhhc------CCCC-CCCCCCCchhHHHHHHHHHHHHHH
Q 002254 685 Q-IAEALLEIN------LPRF-SGDVLPKTDVGTVLAVADRLDTLV 722 (947)
Q Consensus 685 ~-VA~AI~EhY------lPr~-agD~LP~s~~G~iLslADKlDtLv 722 (947)
. .+.|+.-|. .|++ .|+++ +..+.|+|+||=.|.++
T Consensus 230 ~~~~~~l~HHEr~DGtGYP~GL~GeeI--~l~aRIiAVADvydAlt 273 (344)
T COG2206 230 SVRAVALRHHERWDGTGYPRGLKGEEI--PLEARIIAVADVYDALT 273 (344)
T ss_pred HHHHHHHHhhhccCCCCCCCCCCcccC--ChHhHHHHHhhHHHHHh
Confidence 4 444555444 5766 46777 57899999999999998
No 46
>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=72.44 E-value=12 Score=40.86 Aligned_cols=98 Identities=28% Similarity=0.329 Sum_probs=61.9
Q ss_pred CCCCCccccceeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceee-ecCCCCCc-ccccccccceeeecC--------
Q 002254 14 YGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRF-VEDNWESP-VLGAWGLGWEIWMDG-------- 83 (947)
Q Consensus 14 yg~npnrl~~~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirf-ved~we~p-~lga~g~gwevw~~g-------- 83 (947)
||-.|+||+-=+ | + +-.|.|-.=.+.+||+ ..|=+|+ -+|||=+. --|-=|===|+-.|+
T Consensus 111 l~l~~~rl~vTv-~-----~---~dde~~~~w~~~~g~~-~~~i~~~~~~dNfW~~G~~GPCGPcsEI~yd~g~~~~~~~ 180 (232)
T cd00673 111 LGLPKDRLYVSV-F-----E---GDDEEEAIWWWKIGLP-GIRIERIGFKDNFWEMGGNGPCGPCSEIFYDRGEERDAAS 180 (232)
T ss_pred cCCCccceEEEE-e-----C---CCHHHHHHHHHhhCCC-HHHeeeCCccCCCCCCCCCcCCCCCEEEEEccCCCcCccc
Confidence 788899986322 1 1 1356776677788984 3444554 25775433 234455567888887
Q ss_pred ---------eeeeeeehhh---hccC--cccccceeehhhhHHHHHHHHhCC
Q 002254 84 ---------MEITQFTYFQ---QAGS--LQLSPVSVEITYGLERILMLLQGV 121 (947)
Q Consensus 84 ---------meitq~tyfq---q~gg--~~~~~~~~e~tygler~~~~~q~~ 121 (947)
+||=-.-+.| ...| .+|.--++---+||||||+.|||+
T Consensus 181 ~~~~~~~r~lEIWNlVFmqy~r~~~g~l~pLp~k~IDTGmGlERla~vlQg~ 232 (232)
T cd00673 181 LPNEDDDRYLEIWNLVFMQYNRDADGTYRPLPKKIVDTGMGLERLVWVLQGV 232 (232)
T ss_pred cccCCCCCEEEEeeeeeeeeeccCCCCCccCCCCeeeCCcCHHHHHHHHcCC
Confidence 7775444444 3333 244445577779999999999986
No 47
>COG1011 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=62.41 E-value=6.7 Score=40.68 Aligned_cols=47 Identities=38% Similarity=0.827 Sum_probs=41.1
Q ss_pred EEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccce-eeec
Q 002254 30 ILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWE-IWMD 82 (947)
Q Consensus 30 i~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwe-vw~~ 82 (947)
+.||+| ++|...++.+|++ ..++-||.|+.+|=..||--+||. ||++
T Consensus 152 ~~KP~~----~~f~~~~~~~g~~--p~~~l~VgD~~~~di~gA~~~G~~~vwi~ 199 (229)
T COG1011 152 VAKPDP----EIFEYALEKLGVP--PEEALFVGDSLENDILGARALGMKTVWIN 199 (229)
T ss_pred cCCCCc----HHHHHHHHHcCCC--cceEEEECCChhhhhHHHHhcCcEEEEEC
Confidence 358887 6888999999998 456999999999999999999998 5876
No 48
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=56.66 E-value=36 Score=41.18 Aligned_cols=102 Identities=15% Similarity=0.238 Sum_probs=61.5
Q ss_pred CCccccceeeeEEEEcC---CCcchHHHHHHHHHhcCCCCCCCceeeecCC--CCCcccccccccceeeec--C--eeee
Q 002254 17 NPNRLQRHTQFQVILKP---DPGNSQDLFIRSLSALGIDVTEHDIRFVEDN--WESPVLGAWGLGWEIWMD--G--MEIT 87 (947)
Q Consensus 17 npnrl~~~~q~qvi~kp---~p~~~~~~yl~sl~~~g~~~~~~dirfved~--we~p~lga~g~gwevw~~--g--meit 87 (947)
..-|+-.|||.=+++-- +-.++..+--+.++++|+ .++||.-.= +--|++=. +||+. | +||-
T Consensus 373 DatH~~eFhQ~Eg~vi~~~~s~~~L~~~l~~f~~~lG~----~~~RfrP~yfPfTEPS~Ev-----~v~~~~~gkWIEIg 443 (494)
T PTZ00326 373 DATHLAEFHQVEGFVIDRNLTLGDLIGTIREFFRRIGI----TKLRFKPAFNPYTEPSMEI-----FGYHPGLKKWVEVG 443 (494)
T ss_pred CCCcCceeEEEEEEEEeCCCCHHHHHHHHHHHHHhcCC----CceEEecCCCCCCCCeeEE-----EEEecCCCcEEEEe
Confidence 45788899999865533 224555556678889997 689997210 11122111 12221 2 5555
Q ss_pred eeehhh----hccCcccccceeehhhhHHHHHHHHhCCCcccee
Q 002254 88 QFTYFQ----QAGSLQLSPVSVEITYGLERILMLLQGVDHFKKI 127 (947)
Q Consensus 88 q~tyfq----q~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~ 127 (947)
..-.|+ ...|++.+....=.--||||+||..=|++++-|+
T Consensus 444 g~Gm~rpevL~~~Gi~~~~~~~A~GlGleRlaMi~ygi~DIR~l 487 (494)
T PTZ00326 444 NSGIFRPEMLRPMGFPEDVTVIAWGLSLERPTMIKYGIKNIRDL 487 (494)
T ss_pred CcCccCHHHHHhcCCCCcceEEEEEecHHHHHHHHhCCcHHHHH
Confidence 555555 2345654332244457899999999999988776
No 49
>TIGR02367 PylS pyrrolysyl-tRNA synthetase. PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, such as trimethylamine methyltransferase.
Probab=56.16 E-value=26 Score=41.76 Aligned_cols=112 Identities=17% Similarity=0.207 Sum_probs=62.4
Q ss_pred CCCCCCCCCCCCCCCCCccccceeeeEEEE---cCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccce
Q 002254 2 YVEPSIRPDDSRYGENPNRLQRHTQFQVIL---KPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWE 78 (947)
Q Consensus 2 yv~p~~rp~d~ryg~npnrl~~~~q~qvi~---kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwe 78 (947)
|+.++-|...+ ...|+..++|.=+.+ ..+-.++..+--+.|+.||| |.+|.|+.|.=|--+| +
T Consensus 323 EIGkVFR~E~~----~~thlREF~QL~~eIaG~~atfaDlealL~e~Lr~LGI-----dfeitE~s~FI~GR~A-----~ 388 (453)
T TIGR02367 323 EIGPCYRKESD----GKEHLEEFTMLNFCQMGSGCTRENLEAIIKDFLDHLEI-----DFEIVGDSCMVYGDTL-----D 388 (453)
T ss_pred EEcCeEecCCC----CCCCcCeEEEEEEEEECCCCCHHHHHHHHHHHHHHCCC-----ceEEeCCCceEeccee-----e
Confidence 44556555433 225778888887655 33334555555678899998 4888766442222222 1
Q ss_pred eeecCeeeeeeehhhh-----ccCcccccceeehhhhHHHHHHHHhCCCccceeeeC
Q 002254 79 IWMDGMEITQFTYFQQ-----AGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYA 130 (947)
Q Consensus 79 vw~~gmeitq~tyfqq-----~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~~~~ 130 (947)
|-.++.||. .-+|=- -=|++..-+..|| |||||+|...|.+||-|+.-+
T Consensus 389 I~~G~~Ev~-~GvfGEihpL~~fGIe~PVvAfEI--~LeRLam~~~g~~dir~~~~~ 442 (453)
T TIGR02367 389 IMHGDLELS-SAVVGPIPLDREWGIDKPWIGAGF--GLERLLKVKHDFKNIKRAARS 442 (453)
T ss_pred eecCCEEEe-eEEEeecccccccCCCCccEEEEe--ehhHHHHHHhCcHHHHHHHhh
Confidence 211112220 001100 1134444445554 789999999999999988543
No 50
>TIGR01428 HAD_type_II 2-haloalkanoic acid dehalogenase, type II. Note that the Type I HAD enzymes have not yet been fully characterized, but clearly utilize a substantially different catalytic mechanism and are thus unlikely to be related.
Probab=52.78 E-value=8.5 Score=39.45 Aligned_cols=45 Identities=31% Similarity=0.606 Sum_probs=38.3
Q ss_pred cCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccce-eeecC
Q 002254 32 KPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWE-IWMDG 83 (947)
Q Consensus 32 kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwe-vw~~g 83 (947)
||+| +.|...++.+|++| .++-||+|.+ +=..||-..||. ||++-
T Consensus 148 KP~~----~~~~~~~~~~~~~p--~~~~~vgD~~-~Di~~A~~~G~~~i~v~r 193 (198)
T TIGR01428 148 KPAP----QVYQLALEALGVPP--DEVLFVASNP-WDLGGAKKFGFKTAWVNR 193 (198)
T ss_pred CCCH----HHHHHHHHHhCCCh--hhEEEEeCCH-HHHHHHHHCCCcEEEecC
Confidence 8876 68999999999976 5689999999 788999999998 67763
No 51
>COG2024 Phenylalanyl-tRNA synthetase alpha subunit (archaeal type) [Translation, ribosomal structure and biogenesis]
Probab=51.41 E-value=18 Score=42.18 Aligned_cols=112 Identities=22% Similarity=0.469 Sum_probs=70.1
Q ss_pred CCCCccccceeeeEEEEcC---CCcchHHHHHHHHHhcCCCCCCCceeeecCCCCC---------------cccc----c
Q 002254 15 GENPNRLQRHTQFQVILKP---DPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWES---------------PVLG----A 72 (947)
Q Consensus 15 g~npnrl~~~~q~qvi~kp---~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~---------------p~lg----a 72 (947)
+|+-.||..||-=--++=- +-++=.-.==+-|+.+|. .+.||+-|+=.| |-|+ -
T Consensus 222 ~ED~shLmtYhSASCVvvde~vtvD~GKaVAEglL~qfGF----e~F~FrpDEK~SKYYvP~TQTEVyAyHPkL~gs~~k 297 (536)
T COG2024 222 REDASHLMTYHSASCVVVDEDVTVDDGKAVAEGLLRQFGF----EKFRFRPDEKKSKYYVPGTQTEVYAYHPKLVGSIEK 297 (536)
T ss_pred hcchhhhhhhccceEEEEcCcccccccHHHHHHHHHHhCc----cceeeccccccccccCCCccceEEEecccccccccc
Confidence 3445566666643322211 111222222345788897 789999998776 5555 4
Q ss_pred ccccceeeecCeeeeeeehhhhcc----CcccccceeehhhhHHHHHHHHhCCCccceeeeCCCCceecccccchhhhh
Q 002254 73 WGLGWEIWMDGMEITQFTYFQQAG----SLQLSPVSVEITYGLERILMLLQGVDHFKKIQYADGITYGELFLENEKEMS 147 (947)
Q Consensus 73 ~g~gwevw~~gmeitq~tyfqq~g----g~~~~~~~~e~tygler~~~~~q~~~~~~~~~~~~~~~y~~~~~~~e~~~s 147 (947)
+|=|| .||.-|-.+--.. ||+|. ..-+--|.||+||.|-+.+.|-.+. |-+++ |++.|
T Consensus 298 ysdgW------iEiATFGlYSP~ALaeY~Id~p--VMNLGlGVERlaMIl~g~~DVR~mv------Ypqi~---ew~lS 359 (536)
T COG2024 298 YSDGW------IEIATFGLYSPIALAEYGIDYP--VMNLGLGVERLAMILHGADDVRSMV------YPQIY---EWRLS 359 (536)
T ss_pred cCCCc------EEEEeecccChHHHHHcCCCCc--eeecchhHHHHHHHHhCchHHhhhh------ccccc---ccccc
Confidence 56677 5888887765443 55553 3456789999999999999887554 54554 65555
No 52
>PRK09449 dUMP phosphatase; Provisional
Probab=51.39 E-value=11 Score=39.34 Aligned_cols=47 Identities=30% Similarity=0.538 Sum_probs=39.8
Q ss_pred EcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccce-eeec
Q 002254 31 LKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWE-IWMD 82 (947)
Q Consensus 31 ~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwe-vw~~ 82 (947)
.||+| ++|..-++.+|+.+. .++-||+|+.++=..||--.||- ||++
T Consensus 149 ~KP~p----~~~~~~~~~~~~~~~-~~~~~vgD~~~~Di~~A~~aG~~~i~~~ 196 (224)
T PRK09449 149 AKPDV----AIFDYALEQMGNPDR-SRVLMVGDNLHSDILGGINAGIDTCWLN 196 (224)
T ss_pred CCCCH----HHHHHHHHHcCCCCc-ccEEEEcCCcHHHHHHHHHCCCcEEEEC
Confidence 48887 789999999998653 56999999998888999999997 7876
No 53
>COG3437 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]
Probab=50.09 E-value=58 Score=37.90 Aligned_cols=110 Identities=24% Similarity=0.236 Sum_probs=71.5
Q ss_pred ccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhh-------------cchhhhhcChhhhhHHHHHHHH
Q 002254 612 HEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSD-------------LATSVVMEFTSLAGVMACHYAL 678 (947)
Q Consensus 612 ~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaD-------------L~T~MV~EFPELQGiMG~~YA~ 678 (947)
..+=+...+.++|+..+++.||+.+|+++.+.+.+.-||.|---= ..|.==.|-....=+.|..--.
T Consensus 180 E~R~~etg~H~~Rv~~~~~~lAe~lgLse~~v~~i~~AapLHDIGKvaiPD~ILlKpg~Lt~ee~~imk~H~~~G~~il~ 259 (360)
T COG3437 180 EVRDYETGDHLERVAQYSELLAELLGLSEEEVDLIKKAAPLHDIGKVAIPDSILLKPGKLTSEEFEIMKGHPILGAEILK 259 (360)
T ss_pred HhcccchhhHHHHHHHHHHHHHHHhCCCHHHHHHHHhccchhhcccccCChHHhcCCCCCCHHHHHHHhcchHHHHHHHH
Confidence 555677789999999999999999999998888888887764321 2222222222333345554322
Q ss_pred hCCC----CHHHHHHHHhhc----CCCC-CCCCCCCchhHHHHHHHHHHHHHHH
Q 002254 679 RDGY----SQQIAEALLEIN----LPRF-SGDVLPKTDVGTVLAVADRLDTLVG 723 (947)
Q Consensus 679 ~~GE----~~~VA~AI~EhY----lPr~-agD~LP~s~~G~iLslADKlDtLvG 723 (947)
...- -.++|.-=.|+| .|.+ .||++|- .|.+++|||-+|-|++
T Consensus 260 ~s~~~mq~a~eIa~~HHErwDGsGYPdgLkGd~IPl--~arI~aiADvfDAL~s 311 (360)
T COG3437 260 SSERLMQVAAEIARHHHERWDGSGYPDGLKGDEIPL--SARIVAIADVFDALVS 311 (360)
T ss_pred HHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccch--hHHHHHHHHHHHHHhc
Confidence 2111 123444445555 4544 6788876 4899999999999974
No 54
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=47.15 E-value=11 Score=38.81 Aligned_cols=41 Identities=29% Similarity=0.469 Sum_probs=35.4
Q ss_pred cCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCccccccccccee
Q 002254 32 KPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEI 79 (947)
Q Consensus 32 kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwev 79 (947)
||+| ++|+.-++.+|++| .++-||+|...+ ..+|--.||-+
T Consensus 141 KP~p----~~~~~~~~~~~~~p--~~~l~vgD~~~d-i~aA~~aG~~~ 181 (199)
T PRK09456 141 KPEA----RIYQHVLQAEGFSA--ADAVFFDDNADN-IEAANALGITS 181 (199)
T ss_pred CCCH----HHHHHHHHHcCCCh--hHeEEeCCCHHH-HHHHHHcCCEE
Confidence 8887 57889999999876 568999999887 99999999975
No 55
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=45.84 E-value=50 Score=39.19 Aligned_cols=111 Identities=21% Similarity=0.326 Sum_probs=67.4
Q ss_pred CCCCCCCCCCCCCCCCCccccceeeeEEEEcCCC---cchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccce
Q 002254 2 YVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDP---GNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWE 78 (947)
Q Consensus 2 yv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p---~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwe 78 (947)
|+-++-|+... | ..++..++|+-+.+==+. .++..+--+.|+.|||+ .+.+++++.- +|=+=+
T Consensus 287 EIG~VFR~E~~--g--~~hlrEf~Ql~~~iiGs~~~f~dL~~lleeLL~~LGI~-----f~i~s~~~fi-----~GR~ad 352 (417)
T PRK09537 287 EIGPCYRKESD--G--KEHLEEFTMVNFCQMGSGCTRENLENIIDDFLKHLGID-----YEIIGDNCMV-----YGDTID 352 (417)
T ss_pred EEeceEecCCC--C--CCCcceEEEEEEEEeCCchHHHHHHHHHHHHHHHCCCC-----cEEecCCcce-----ecCeEE
Confidence 34566676542 3 247889999988764332 25666677789999984 5556555443 333334
Q ss_pred eeecCeee--eeeeh--hhhccCcccccceeehhhhHHHHHHHHhCCCccceee
Q 002254 79 IWMDGMEI--TQFTY--FQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQ 128 (947)
Q Consensus 79 vw~~gmei--tq~ty--fqq~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~~ 128 (947)
|+++|.|| -=|-- -..-=|++..-+..|| |||||+|...|.+||.+..
T Consensus 353 I~~g~~el~~G~fGEi~VLe~fGI~~PVva~EI--dLerL~~~~~g~~~ir~~~ 404 (417)
T PRK09537 353 IMHGDLELSSAVVGPIPLDREWGIDKPWIGAGF--GLERLLKVKHGYKNIKRAS 404 (417)
T ss_pred EEeCCEEEeeEEEEEEehhhhcCCCCceEEEEE--eHHHHHHHHhCcHHHHHhh
Confidence 44444444 21111 1222355555556665 7899999999999887653
No 56
>TIGR02253 CTE7 HAD superfamily (subfamily IA) hydrolase, TIGR02253. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549).
Probab=44.10 E-value=13 Score=38.53 Aligned_cols=43 Identities=30% Similarity=0.531 Sum_probs=36.7
Q ss_pred EcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCccccccccccee
Q 002254 31 LKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEI 79 (947)
Q Consensus 31 ~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwev 79 (947)
.||+|. .|+..++.+|+++ .++-+|+|.+++=..||--.||-+
T Consensus 149 ~KP~~~----~~~~~~~~~~~~~--~~~~~igDs~~~di~~A~~aG~~~ 191 (221)
T TIGR02253 149 EKPHPK----IFYAALKRLGVKP--EEAVMVGDRLDKDIKGAKNLGMKT 191 (221)
T ss_pred CCCCHH----HHHHHHHHcCCCh--hhEEEECCChHHHHHHHHHCCCEE
Confidence 388775 6889999999876 579999999999899999999874
No 57
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=42.97 E-value=93 Score=37.50 Aligned_cols=99 Identities=19% Similarity=0.411 Sum_probs=59.2
Q ss_pred ccccceeeeEEEEcCCCcchHH---HHHHHHHhcCCCCCCCceeeecCCCC--CcccccccccceeeecC---eeeeeee
Q 002254 19 NRLQRHTQFQVILKPDPGNSQD---LFIRSLSALGIDVTEHDIRFVEDNWE--SPVLGAWGLGWEIWMDG---MEITQFT 90 (947)
Q Consensus 19 nrl~~~~q~qvi~kp~p~~~~~---~yl~sl~~~g~~~~~~dirfved~we--~p~lga~g~gwevw~~g---meitq~t 90 (947)
.|+..++|.=+++=-.+.++-+ +--.-|+++|+. +++|...... .|..-| +|+++| .||--+-
T Consensus 368 ~~l~Ef~ql~~~i~G~~~~f~elkg~l~~ll~~lGi~----~~~~~~~~~p~~~P~~~~-----~i~~~g~~w~eiG~~G 438 (489)
T PRK04172 368 THLPEFYQLEGIVMGEDVSFRDLLGILKEFYKRLGFE----EVKFRPAYFPFTEPSVEV-----EVYHEGLGWVELGGAG 438 (489)
T ss_pred ccCCchheEEEEEEeCCCCHHHHHHHHHHHHHHhCCc----eEEEcCCcCCCCCCeEEE-----EEEECCCCeEEEEecc
Confidence 4567888887777555444433 344456888983 6888654332 455444 344444 4444332
Q ss_pred hh----hhccCcccccceeehhhhHHHHHHHHhCCCccceee
Q 002254 91 YF----QQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQ 128 (947)
Q Consensus 91 yf----qq~gg~~~~~~~~e~tygler~~~~~q~~~~~~~~~ 128 (947)
-| .+--|++...+..|| |+|||+|..=|++++-|+-
T Consensus 439 ~l~Pevl~~~gi~~~v~~~el--~le~l~m~~~~~~dir~l~ 478 (489)
T PRK04172 439 IFRPEVLEPLGIDVPVLAWGL--GIERLAMLRLGLDDIRDLY 478 (489)
T ss_pred ccCHHHHHHCCCCCceEEEEE--cHHHHHHHHhCCcHHHHHH
Confidence 22 122345544445554 8999999999999887763
No 58
>PRK10748 flavin mononucleotide phosphatase; Provisional
Probab=42.79 E-value=17 Score=38.94 Aligned_cols=46 Identities=26% Similarity=0.489 Sum_probs=39.0
Q ss_pred cCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccce-eeecC
Q 002254 32 KPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWE-IWMDG 83 (947)
Q Consensus 32 kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwe-vw~~g 83 (947)
||.| +.|+..++.+|+++ +++-+|.|++.+=..||--.||- ||++.
T Consensus 163 KP~p----~~~~~a~~~~~~~~--~~~~~VGD~~~~Di~~A~~aG~~~i~v~~ 209 (238)
T PRK10748 163 KPFS----DMYHLAAEKLNVPI--GEILHVGDDLTTDVAGAIRCGMQACWINP 209 (238)
T ss_pred CCcH----HHHHHHHHHcCCCh--hHEEEEcCCcHHHHHHHHHCCCeEEEEcC
Confidence 7766 57888899999865 77999999999999999999997 67765
No 59
>TIGR00459 aspS_bact aspartyl-tRNA synthetase, bacterial 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_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences.
Probab=41.88 E-value=14 Score=45.38 Aligned_cols=60 Identities=25% Similarity=0.467 Sum_probs=49.4
Q ss_pred cccccceeeecCeeee-----------eeehhhhccCccc----------------ccceeehhhhHHHHHHHHhCCCcc
Q 002254 72 AWGLGWEIWMDGMEIT-----------QFTYFQQAGSLQL----------------SPVSVEITYGLERILMLLQGVDHF 124 (947)
Q Consensus 72 a~g~gwevw~~gmeit-----------q~tyfqq~gg~~~----------------~~~~~e~tygler~~~~~q~~~~~ 124 (947)
+.+--|+..|||+||- |-.-|.|.|=-+- -|+.+=|..|++||.|.|-|.+|+
T Consensus 465 ~~~~~yDLvlnG~ElggGs~rihd~~~Q~~~f~~l~~~~ee~~~~f~~ll~Al~yG~PPhgG~alG~DRlvmlLt~~~sI 544 (583)
T TIGR00459 465 ALAEAYDLVLNGVELGGGSIRIHDPEVQKKVFEILGIDPEEAREKFGFLLEAFKYGTPPHAGFALGLDRLMMLLTGTDNI 544 (583)
T ss_pred hhhheeeEEEeceEecceeEEeCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCCCcCceeccHHHHHHHHcCCCch
Confidence 6788899999999985 7788888773222 278888999999999999999999
Q ss_pred ceeeeCC
Q 002254 125 KKIQYAD 131 (947)
Q Consensus 125 ~~~~~~~ 131 (947)
-|+.-=+
T Consensus 545 RDVIaFP 551 (583)
T TIGR00459 545 RDVIAFP 551 (583)
T ss_pred hheeecC
Confidence 9985433
No 60
>PF09113 N-glycanase_C: Peptide-N-glycosidase F, C terminal; InterPro: IPR015197 This domain adopts an eight-stranded antiparallel beta jelly roll configuration, with the beta strands arranged into two sheets. It is similar in topology to many viral capsid proteins, as well as lectins and several glucanases. This domain allows the protein to bind sugars and catalyses the complete removal of N-linked oligosaccharide chains from glycoproteins []. ; PDB: 1PNF_A 1PNG_A 1PGS_A 3KS7_D 3PMS_A.
Probab=40.83 E-value=11 Score=38.38 Aligned_cols=22 Identities=27% Similarity=0.622 Sum_probs=15.2
Q ss_pred CCCcc-cccccccceeeecCeee
Q 002254 65 WESPV-LGAWGLGWEIWMDGMEI 86 (947)
Q Consensus 65 we~p~-lga~g~gwevw~~gmei 86 (947)
.++|+ -|.|.+|+.=||+||.|
T Consensus 73 ~~n~~p~G~w~~~Rs~WCPG~~v 95 (141)
T PF09113_consen 73 LYNPAPSGTWLYSRSNWCPGMVV 95 (141)
T ss_dssp GG-TTT-SCESS-BSS--TTEEE
T ss_pred ccCccccceEecCCCCCCCCCCC
Confidence 35777 69999999999999998
No 61
>PF12917 HD_2: HD containing hydrolase-like enzyme ; PDB: 3MZO_B.
Probab=40.24 E-value=1.1e+02 Score=33.41 Aligned_cols=120 Identities=18% Similarity=0.220 Sum_probs=67.0
Q ss_pred cccCCCCHHHHHHHHHHHHHHHHH---HhCCChhHHHHHHHHH-----HhhhhhcchhhhhcChhhhhHHHHHHHHh---
Q 002254 611 FHEKLGTMLDKTMRVQNMVRKLSL---DLGINEDMLQIVQEAA-----SLAMSDLATSVVMEFTSLAGVMACHYALR--- 679 (947)
Q Consensus 611 F~~kLGSl~DK~~Ri~~La~~La~---~l~~~~~~~~~~~RAA-----~L~KaDL~T~MV~EFPELQGiMG~~YA~~--- 679 (947)
|.-.==|+...+-++..+|..|+. +.|.+-+-....++|. ..---|.-|-+=+-=|+|.-..+.+=...
T Consensus 23 fk~~~~nVA~HSf~Va~iA~~Lg~iee~~G~~vd~~~lyekAL~HD~~E~FtGDI~TPVKy~tPelr~~~~~VE~~m~~~ 102 (215)
T PF12917_consen 23 FKFQEHNVAEHSFKVAMIAQFLGDIEEQFGNEVDWKELYEKALNHDYPEIFTGDIKTPVKYATPELREMLAQVEEEMTEN 102 (215)
T ss_dssp --SS--BHHHHHHHHHHHHHHHHHHHHHTT----HHHHHHHHHHTTGGGGTS----S-SSSS-HHHHHHHHHHHHHHHHH
T ss_pred cCcchhhHHHHHHHHHHHHHHHHHHHHHhCCccCHHHHHHHHhccccHHHHcCCCCCcccccCHHHHHHHHHHHHHHHHH
Confidence 444556899999999999999986 4444322112233332 23345777777778888887766653321
Q ss_pred ---CCCCHHHHHHHHhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHhhhcCCCCCCCCCh
Q 002254 680 ---DGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDP 737 (947)
Q Consensus 680 ---~GE~~~VA~AI~EhYlPr~agD~LP~s~~G~iLslADKlDtLvG~F~iG~~PTGS~DP 737 (947)
+.-|++ ..+.|.|+-..+. -.|..|.+|++|||||.+.=|| |++=+|..+|
T Consensus 103 ~i~~~iP~e----~q~~Y~~~l~E~K-Ddt~EG~Iv~~ADkidal~e~~--~Ei~~GN~E~ 156 (215)
T PF12917_consen 103 FIKKEIPEE----FQEAYRRRLKEGK-DDTLEGQIVKAADKIDALYECF--GEIQKGNPEK 156 (215)
T ss_dssp HHHHHS-GG----GHHHHHHHHS----SSSHHHHHHHHHHHHHHHHHHH--HHHHTT-S-T
T ss_pred HHHhhCCHH----HHHHHHHHhhcCC-cccHHHHHHHHHHHHHHHHHHH--HHHHcCCCcH
Confidence 111221 3344555544322 2478999999999999999998 6777788876
No 62
>TIGR01993 Pyr-5-nucltdase pyrimidine 5'-nucleotidase. These enzymes are members of the haloacid dehalogenase (HAD) superfamily of hydrolases, specifically the IA subfamily (variant 3, TIGR01509).
Probab=39.88 E-value=17 Score=36.87 Aligned_cols=41 Identities=27% Similarity=0.505 Sum_probs=33.8
Q ss_pred cCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCccccccccccee
Q 002254 32 KPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEI 79 (947)
Q Consensus 32 kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwev 79 (947)
||+| +.|+.-++.+|+++ +++-||+|...+ ..+|.-.|+.+
T Consensus 141 KP~p----~~~~~~~~~~~~~~--~~~l~vgD~~~d-i~aA~~~G~~~ 181 (184)
T TIGR01993 141 KPSP----QAYEKALREAGVDP--ERAIFFDDSARN-IAAAKALGMKT 181 (184)
T ss_pred CCCH----HHHHHHHHHhCCCc--cceEEEeCCHHH-HHHHHHcCCEE
Confidence 8877 67888899999877 568899999765 78888888864
No 63
>PF10847 DUF2656: Protein of unknown function (DUF2656); InterPro: IPR020325 This entry contains uncharacterised proteins from the cpeY 3'-region. They have no known function, but are found in the phycobilisome.
Probab=39.78 E-value=36 Score=34.23 Aligned_cols=23 Identities=30% Similarity=0.622 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCC
Q 002254 214 MRSLARQCAQLWLKTRKSLGHPL 236 (947)
Q Consensus 214 ~r~~~~~~~~~~~~~~~~~~~~~ 236 (947)
-++||+.|+++|.+.|..+|+.+
T Consensus 55 p~~~~~~~v~aw~~~R~~~g~~~ 77 (132)
T PF10847_consen 55 PDEMAEELVRAWKQYRNSLGHSM 77 (132)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCc
Confidence 46789999999999999998865
No 64
>TIGR02252 DREG-2 REG-2-like, HAD superfamily (subfamily IA) hydrolase. Most likely, these sequences, like the vast majority of HAD sequences, represent phosphatase enzymes.
Probab=38.16 E-value=19 Score=37.00 Aligned_cols=42 Identities=31% Similarity=0.611 Sum_probs=36.6
Q ss_pred cCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCccccccccccee
Q 002254 32 KPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEI 79 (947)
Q Consensus 32 kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwev 79 (947)
||+| ++|..-++.+|+++ .++-+|+|++++=..+|--.||-+
T Consensus 160 KP~~----~~~~~~~~~~~~~~--~~~~~IgD~~~~Di~~A~~aG~~~ 201 (203)
T TIGR02252 160 KPDP----KIFQEALERAGISP--EEALHIGDSLRNDYQGARAAGWRA 201 (203)
T ss_pred CCCH----HHHHHHHHHcCCCh--hHEEEECCCchHHHHHHHHcCCee
Confidence 9988 78999999999876 569999999988899999888864
No 65
>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=36.58 E-value=23 Score=40.06 Aligned_cols=57 Identities=25% Similarity=0.449 Sum_probs=42.8
Q ss_pred cccccceeeecCeeee-----------eeehhhhccCc--c-------------c-ccceeehhhhHHHHHHHHhCCCcc
Q 002254 72 AWGLGWEIWMDGMEIT-----------QFTYFQQAGSL--Q-------------L-SPVSVEITYGLERILMLLQGVDHF 124 (947)
Q Consensus 72 a~g~gwevw~~gmeit-----------q~tyfqq~gg~--~-------------~-~~~~~e~tygler~~~~~q~~~~~ 124 (947)
.+.-.||+-++|+||. |-.-|+..|=. + . -|.++=+.-|+|||.|++=|.+||
T Consensus 245 ~~~~~fdl~~~g~Ei~~G~~r~~d~~~l~~r~~~~~~~~~~~~~~~~~yl~~~~~G~pp~~G~glG~eRLvm~l~g~~~I 324 (335)
T PF00152_consen 245 GVAERFDLYIPGGEIANGSQREHDPEELRERFEEQGIDPEEEMPIDEWYLEALKYGMPPHGGFGLGLERLVMLLLGLKNI 324 (335)
T ss_dssp TBBSEEEEEETTEEEEEEEEB--SHHHHHHHHHHTTHHGGGSHHHGHHHHHHHHTT--SEEEEEEEHHHHHHHHHT-SSG
T ss_pred ccccceeEEEeCEEEehHHhhhhHHHHHHHHhhhcccccccccchhHhHHHhhhccCcccCcceehHHHHHHHHcCCCcH
Confidence 5788899999999997 55566655421 1 1 467777889999999999999999
Q ss_pred ceee
Q 002254 125 KKIQ 128 (947)
Q Consensus 125 ~~~~ 128 (947)
.|+.
T Consensus 325 rdv~ 328 (335)
T PF00152_consen 325 RDVI 328 (335)
T ss_dssp GGGS
T ss_pred Hhee
Confidence 9874
No 66
>PF10490 CENP-F_C_Rb_bdg: Rb-binding domain of kinetochore protein Cenp-F/LEK1; InterPro: IPR018302 This entry represents the Rb protein-binding domain from the centromere protein Cenp-F. Cenp-F is a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, that is involved in chromosome segregation during mitosis and is essential for the full functioning of the mitotic checkpoint pathway [, ]. Cenp-F interacts with retinoblastoma protein (RB), CENP-E and BUBR1. This domain is at the very C terminus of the C-terminal coiled-coil region, and binds to the Rb family of tumour suppressors [].
Probab=35.82 E-value=9 Score=31.96 Aligned_cols=18 Identities=28% Similarity=0.528 Sum_probs=15.9
Q ss_pred CCCCCCCChhhhhHHHHH
Q 002254 729 CQPSSTNDPFGLRRISYG 746 (947)
Q Consensus 729 ~~PTGS~DPfALRRaAlG 746 (947)
-+|||-.-||-|||..++
T Consensus 27 DIPtgk~sPyilRRtt~~ 44 (49)
T PF10490_consen 27 DIPTGKTSPYILRRTTLA 44 (49)
T ss_pred cCCCCCCCceEEEeeccc
Confidence 579999999999998764
No 67
>KOG3109 consensus Haloacid dehalogenase-like hydrolase [General function prediction only]
Probab=34.47 E-value=41 Score=36.84 Aligned_cols=57 Identities=23% Similarity=0.340 Sum_probs=44.9
Q ss_pred eeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceeeecCeeeee
Q 002254 26 QFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQ 88 (947)
Q Consensus 26 q~qvi~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw~~gmeitq 88 (947)
-.+||+||+|. -|=...+..||+-- +..-|++|+-.| ..+|--+||--|+=|.|--|
T Consensus 154 ~~~~vcKP~~~----afE~a~k~agi~~p-~~t~FfDDS~~N-I~~ak~vGl~tvlv~~~~~~ 210 (244)
T KOG3109|consen 154 EKTVVCKPSEE----AFEKAMKVAGIDSP-RNTYFFDDSERN-IQTAKEVGLKTVLVGREHKI 210 (244)
T ss_pred CCceeecCCHH----HHHHHHHHhCCCCc-CceEEEcCchhh-HHHHHhccceeEEEEeeecc
Confidence 47899999985 55667788899833 347788887554 77889999999999998764
No 68
>TIGR00094 tRNA_TruD_broad tRNA pseudouridine synthase, TruD family. MJ11364 is a strong partial match from 50 to 230 aa.
Probab=33.19 E-value=49 Score=38.50 Aligned_cols=61 Identities=15% Similarity=0.290 Sum_probs=44.0
Q ss_pred CCccCceEEee------CCeeEEEEEEEecchhHHHHHHhHHHHHHhcCCCCccccc-CCCCcccchhhhH
Q 002254 360 VPIDSLVTKAA------GKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRW-NSQVMFSRPIRWI 423 (947)
Q Consensus 360 v~~~~l~~~~~------~kgeyl~~~~~~~G~~t~eiL~eil~~~I~~L~fpK~MRW-~~~~~F~RPIrwI 423 (947)
-+++|..+.|. ++|+|+++...+.|.+|.+++..|-..+ ++| +|.+.| +.+.+.+-=.+|+
T Consensus 22 ~~peDF~V~E~~~~~~~~~g~~~~~~l~K~~~~T~~a~~~iar~l--~i~-~~~i~yAG~KDk~AvT~Q~~ 89 (387)
T TIGR00094 22 ASPEDFIVEEILGFEPSGEGEFIHIRVEKEGCNTLEVARVLAKFL--GVS-RREIGFAGTKDKRAVTEQWV 89 (387)
T ss_pred cCccceeEEeecCCCCCCCCCEEEEEEEECCcCHHHHHHHHHHHh--CCC-hhheeecccccccceeEEEE
Confidence 34667665443 4689999999999999999999855443 555 688888 6565555555555
No 69
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=32.77 E-value=48 Score=39.59 Aligned_cols=99 Identities=23% Similarity=0.390 Sum_probs=59.1
Q ss_pred ccccceeee--EEEEcCCC-----cchHHHHHHHHHhcCCCCCCCceee---------ecCCCCCcccccccccc-eee-
Q 002254 19 NRLQRHTQF--QVILKPDP-----GNSQDLFIRSLSALGIDVTEHDIRF---------VEDNWESPVLGAWGLGW-EIW- 80 (947)
Q Consensus 19 nrl~~~~q~--qvi~kp~p-----~~~~~~yl~sl~~~g~~~~~~dirf---------ved~we~p~lga~g~gw-evw- 80 (947)
-|+..++|- .+.+.|.- ...++++..=|..+|+++..--++. -.+.|+--.+-.+|.+| |+.
T Consensus 207 ~RvReF~q~e~hiF~~peq~~~e~~~~l~~~~~~l~~lG~~~~~~~~s~~~~~e~~~ys~~~wd~e~~~~~g~~~~e~~g 286 (456)
T PRK04173 207 FRTREFEQMELEFFVKPGTDNEWFAYWIELRKNWLLDLGIDPENLRFREHLPEELAHYSKATWDIEYKFPFGRFWGELEG 286 (456)
T ss_pred eeeceeeeeEEEEEECcChHHHHHHHHHHHHHHHHHHcCCCccceEEEecCcchhhccHHHHHhHHHhCCCCCcEEEEee
Confidence 378888874 46677763 3456778888899999753211111 12347766665667778 333
Q ss_pred -ecCeee----------eeeehhh-hccCcccccceeehhhhHHHHHHH
Q 002254 81 -MDGMEI----------TQFTYFQ-QAGSLQLSPVSVEITYGLERILML 117 (947)
Q Consensus 81 -~~gmei----------tq~tyfq-q~gg~~~~~~~~e~tygler~~~~ 117 (947)
.+|-.. -.++|+. ..+|-.-.|+.++.+.|+|||.+.
T Consensus 287 ~~~~~dydL~~~~~~s~~dl~y~~~~~~~~~~~P~vi~~siGieRl~~a 335 (456)
T PRK04173 287 IANRTDYDLSRHSKHSGEDLSYFDDETTGEKYIPYVIEPSAGLDRLLLA 335 (456)
T ss_pred eeccchhhcccchhhcCCCeEEEecCCCCceeeeEEEEecccHHHHHHH
Confidence 222111 1233432 335556679999999999995333
No 70
>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=32.14 E-value=1.1e+02 Score=32.12 Aligned_cols=50 Identities=20% Similarity=0.232 Sum_probs=33.1
Q ss_pred CCCCCCCCCCCCCCCCCccccceeee--EEEEcC--CC---cchHHHHHHHHHhcCCC
Q 002254 2 YVEPSIRPDDSRYGENPNRLQRHTQF--QVILKP--DP---GNSQDLFIRSLSALGID 52 (947)
Q Consensus 2 yv~p~~rp~d~ryg~npnrl~~~~q~--qvi~kp--~p---~~~~~~yl~sl~~~g~~ 52 (947)
|+.+|-|-.-+-. .-.-|+..|+|- .++..| ++ ..+.+++.+.|+.||++
T Consensus 93 ~~g~~fR~E~~~~-~gl~R~reF~q~e~~~~~~~~~~~~~~~e~~~~~~~~l~~lgl~ 149 (235)
T cd00670 93 QIGPCFRHEPSGR-RGLMRVREFRQVEYVVFGEPEEAEEERREWLELAEEIARELGLP 149 (235)
T ss_pred eecccccCCCCCC-CCChhheeeeeceEEEEcCHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 5566666544322 223588889885 455555 22 46778999999999984
No 71
>COG1639 Predicted signal transduction protein [Signal transduction mechanisms]
Probab=31.92 E-value=3.5e+02 Score=30.88 Aligned_cols=142 Identities=19% Similarity=0.149 Sum_probs=85.7
Q ss_pred cccEEEEEcCCC-CchhhhchhhhhhhhhccccHhHHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHH
Q 002254 556 LPYFIAVANGAI-NEMVVRKGNEAVLRARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSL 634 (947)
Q Consensus 556 ~p~FI~VsN~~~-~~~~Vi~GNErVLrARL~DA~FF~~~D~K~~L~~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~ 634 (947)
+|||=.=.++.+ ....++-|=..|++==+++|+--+..+.+-.= .+.=-+.|.+.+...+|..||.
T Consensus 67 S~yfg~~~~i~tl~~Ai~rLG~~~v~NLv~a~a~~~~~~~~~~~~-------------~~~~~~w~~a~~~A~ia~~La~ 133 (289)
T COG1639 67 SPYFGFPREITTLNEAIVRLGIGLVINLVLALAEQAIQSVNSSSA-------------EDRQLFWDTAIETAMIAEGLAR 133 (289)
T ss_pred chhcCCCCccCcHHHHHHHHhHHHHHHHHHHHHHHhhccCCCchH-------------HHHHHHHHHHHHHHHHHHHHHH
Confidence 456533223333 34566778888887666654322222222222 2222478999999999999999
Q ss_pred HhC-CChhHHHHHHHHHHhhh-------------------hhcch--------hhhhcChhhhhHHHHHHHHhCCCCHHH
Q 002254 635 DLG-INEDMLQIVQEAASLAM-------------------SDLAT--------SVVMEFTSLAGVMACHYALRDGYSQQI 686 (947)
Q Consensus 635 ~l~-~~~~~~~~~~RAA~L~K-------------------aDL~T--------~MV~EFPELQGiMG~~YA~~~GE~~~V 686 (947)
.+| .+.+ .+--|+.|-+ .+..+ ..-+=|+ .-.+|.+-+++=|-|+++
T Consensus 134 ~~g~~~~~---~~y~~gLLh~lG~l~ll~~~~~~~~~~~~~~~~~~~~~~~~~e~~~i~~--h~~Iga~llr~W~fp~~l 208 (289)
T COG1639 134 ALGRADSD---EAYTAGLLHNLGILVLLTDFPDHCELLDYLLALNNDELLALDEELGIFG--HASIGAYLLRRWNFPDDL 208 (289)
T ss_pred HhCcccHH---HHHHHHHHHHccHHHHHHHhHHHHHHHHHHHHhccCcccchHHHhcccc--chHHHHHHHHHcCCCHHH
Confidence 998 3322 2233333322 22222 1112222 337899999999999999
Q ss_pred HHHHHhhcCCCCCCCCCCCchhHHHHHHHHH
Q 002254 687 AEALLEINLPRFSGDVLPKTDVGTVLAVADR 717 (947)
Q Consensus 687 A~AI~EhYlPr~agD~LP~s~~G~iLslADK 717 (947)
+++|.-|+.|.+.+..+ +....+..+|+-
T Consensus 209 ~e~i~~~~~~~~~~~~~--~~~~li~~~a~~ 237 (289)
T COG1639 209 IEAIRFHHNPSTEGARL--KYLDLILVLANL 237 (289)
T ss_pred HHHHHHhhcccccccch--HHHHHHHHHHHH
Confidence 99999999988887655 555555555543
No 72
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=31.55 E-value=80 Score=37.61 Aligned_cols=127 Identities=16% Similarity=0.189 Sum_probs=86.6
Q ss_pred hhhhHhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccc-cceeeeccccccCcchhhhhcCCccccccc
Q 002254 264 RLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPR-RLVVFVESLCQKQSENEFEARGPPVSKAFD 342 (947)
Q Consensus 264 ~~lLlEIGtEELPa~~v~~a~~~l~~~~~~~L~~~~L~~~~i~~~~TPR-RLav~v~~l~~~q~d~~~e~kGP~v~~Afd 342 (947)
.-+.+.++...+|+-.+-+-++-+.+.+.+.|++.+...=...+++--. |..++++ +....-...+..+|||+- +
T Consensus 284 ~v~~l~~~~pd~vdDilypQl~r~~~~l~r~Le~~gF~vl~~~~~~D~~~~~~v~~E-~~~~~l~~i~~r~GPp~~---~ 359 (443)
T COG1746 284 HVLALVFPKPDLVDDILYPQLERTARSLFRALEEEGFRVLRSGVWSDESERIYVLLE-LESKELPRIELRVGPPVW---T 359 (443)
T ss_pred eEEEEEeCCCCCCcchhhHHHHHHHHHHHHHHHHcCCEEeeeeeeecCCcceEEEEE-EecccccceeeecCCCcc---c
Confidence 4578889999999999999999999999999999987654444454444 8888777 445555577889999993 1
Q ss_pred cCCCCcHHHHHHHHHCCCCccCceEEeeCCeeEEEEEEEecchhHHHHHHhHHHHHHhcCCCCcccc
Q 002254 343 QQGNPTKAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMR 409 (947)
Q Consensus 343 ~dG~pTkAa~GFak~~Gv~~~~l~~~~~~kgeyl~~~~~~~G~~t~eiL~eil~~~I~~L~fpK~MR 409 (947)
+-|.. |.+|+++-. ...|.|+.-.+.. ....+.+.+++.+=|.+.+++|+..
T Consensus 360 -----e~a~r-F~~k~~~~~-------~~~g~~~~~~r~~--~~~~~~~~~i~~~~l~~~s~gk~v~ 411 (443)
T COG1746 360 -----EHAVR-FIEKYDVRW-------REGGPLAVEDRLY--VTIVRVLEDILRKPLGNHSLGKNVK 411 (443)
T ss_pred -----hhHHH-HHHhcccce-------eecCcccccccee--eehhhhHHHHHhCcccccccccchh
Confidence 24555 999995441 1234444433111 1122367777777667777777654
No 73
>KOG1576 consensus Predicted oxidoreductase [Energy production and conversion]
Probab=31.38 E-value=24 Score=39.70 Aligned_cols=52 Identities=25% Similarity=0.299 Sum_probs=41.9
Q ss_pred CCCCCCCccccceeeeEEEEcCCCcchHHHHHHHHHhcCCCC----CCCceeee--cCCCCCccccc
Q 002254 12 SRYGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDV----TEHDIRFV--EDNWESPVLGA 72 (947)
Q Consensus 12 ~ryg~npnrl~~~~q~qvi~kp~p~~~~~~yl~sl~~~g~~~----~~~dirfv--ed~we~p~lga 72 (947)
||||..|+|+..| |.+-+.+---+||+.|++|- .-|||-|+ +|-==|-||-|
T Consensus 105 gRy~ld~~~~Fdf---------sadkvreSv~rSlerLqldyvDilqiHDvefap~ld~vl~Etlp~ 162 (342)
T KOG1576|consen 105 GRYELDYANMFDF---------SADKVRESVKRSLERLQLDYVDILQIHDVEFAPNLDIVLNETLPA 162 (342)
T ss_pred eecccCccccccc---------hHHHHHHHHHHHHHHhCCceeEEEEeecccccccccHHHHHHHHH
Confidence 8999999999888 67888899999999999884 57999999 55444445443
No 74
>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=29.54 E-value=25 Score=38.69 Aligned_cols=102 Identities=25% Similarity=0.368 Sum_probs=52.0
Q ss_pred ccccceeeeEEEEcCCCcchHH---HHHHHHHhc-CCCCCCCceeeecCCC--CCccccc---c----cccc-eeeecCe
Q 002254 19 NRLQRHTQFQVILKPDPGNSQD---LFIRSLSAL-GIDVTEHDIRFVEDNW--ESPVLGA---W----GLGW-EIWMDGM 84 (947)
Q Consensus 19 nrl~~~~q~qvi~kp~p~~~~~---~yl~sl~~~-g~~~~~~dirfved~w--e~p~lga---~----g~gw-evw~~gm 84 (947)
+.+-.+||.=.++==..-++.+ ..-.=++.| |++ =.+||.+.-- -.|..-+ | +-|| ||--=||
T Consensus 120 th~~~f~Qleg~~~~~~~~f~~Lk~~l~~l~~~lfG~~---~~~r~~ps~fPftePs~e~~i~~~~~~~~~wiEvgg~G~ 196 (247)
T PF01409_consen 120 THLPEFHQLEGLVVDKNVTFEDLKGTLEELLKELFGID---VKVRFRPSYFPFTEPSREADIYCGVCKGGGWIEVGGCGM 196 (247)
T ss_dssp SBESEEEEEEEEEEETTE-HHHHHHHHHHHHHHHHTTT---EEEEEEECEETTEEEEEEEEEEEECTTTTCEEEEEEEEE
T ss_pred ccCccceeEeeEEEecccchhHHHHHHHHHHHHHhhcc---cceEeecCCCCcccCCeEEEEEEeeccCCCceEEeeccc
Confidence 4455666665444322344444 334456778 974 2588877542 3344322 2 4455 3322233
Q ss_pred eeeeeehhhhccCc--ccccceeehhhhHHHHHHHHhCCCccceee
Q 002254 85 EITQFTYFQQAGSL--QLSPVSVEITYGLERILMLLQGVDHFKKIQ 128 (947)
Q Consensus 85 eitq~tyfqq~gg~--~~~~~~~e~tygler~~~~~q~~~~~~~~~ 128 (947)
= -. .. -.-.|+ ++.-.+.. -|||||||-..|++++-++-
T Consensus 197 v-hP-~V-l~~~gid~~~~~~A~G--~GleRlam~~~gi~diR~~~ 237 (247)
T PF01409_consen 197 V-HP-EV-LENWGIDEEYPGFAFG--LGLERLAMLKYGIPDIRLLY 237 (247)
T ss_dssp E--H-HH-HHHTT--TTSEEEEEE--EEHHHHHHHHHT-SSGGHHH
T ss_pred c-cH-hh-hhccCcCccceEEEec--CCHHHHHHHHcCCchHHHHh
Confidence 1 10 01 133566 33333333 59999999999999887653
No 75
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=28.71 E-value=4.2e+02 Score=30.47 Aligned_cols=113 Identities=11% Similarity=0.089 Sum_probs=74.5
Q ss_pred ccccCCCCHHHHHHHHHHHHHHHHHHhC-CChhHHHHHHHHHHhhhhhcchhh----hhcChhhhhH------HHH----
Q 002254 610 LFHEKLGTMLDKTMRVQNMVRKLSLDLG-INEDMLQIVQEAASLAMSDLATSV----VMEFTSLAGV------MAC---- 674 (947)
Q Consensus 610 vF~~kLGSl~DK~~Ri~~La~~La~~l~-~~~~~~~~~~RAA~L~KaDL~T~M----V~EFPELQGi------MG~---- 674 (947)
.=|.-.|=+++.|--+.++|..+|.... ++ .+.+.-+|.|.-.--+-++ ..|++. .|- ||.
T Consensus 152 ~HHay~GGLleHtl~v~~~~~~l~~~y~~~n---~dll~agalLHDiGKi~E~~~~~~~~yT~-eG~LlGHi~lg~~~i~ 227 (314)
T PRK13480 152 NHHEFVSGLAYHVVSMLRLAKSICDLYPSLN---KDLLYAGIILHDLGKVIELSGPVSTTYTL-EGNLLGHISIMVNEIA 227 (314)
T ss_pred cccccccHHHHHHHHHHHHHHHHHHhccccC---HHHHHHHHHHHHhhhHHHhcCCCccCccc-cCEeccHHHHHHHHHH
Confidence 3477899999999999999999998753 34 2345555555433322232 234543 443 232
Q ss_pred HHHHhCCCCHHHHHHH-----HhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHhhh
Q 002254 675 HYALRDGYSQQIAEAL-----LEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFA 726 (947)
Q Consensus 675 ~YA~~~GE~~~VA~AI-----~EhYlPr~agD~LP~s~~G~iLslADKlDtLvG~F~ 726 (947)
..|..-|-+++....+ .-|-.+-+-.-..|.|+.+.+|..||.||.=+..|.
T Consensus 228 ~~~~~l~~~~e~~~~L~H~ILSHHG~~E~GSPv~P~t~EA~iLh~~D~lDAkl~~~~ 284 (314)
T PRK13480 228 KAADELQIDGEEVLILQHMVLSHHGKAEWGSPKPPLVKEAEILHYIDNIDAKMNMMD 284 (314)
T ss_pred HHHHHcCCCHHHHHHHHhhhhccCCccccCCCCCCCCHHHHHHHHHHhhhhHHHHHH
Confidence 2344556666655443 334455555567999999999999999999998884
No 76
>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=28.16 E-value=25 Score=42.00 Aligned_cols=20 Identities=25% Similarity=0.660 Sum_probs=17.0
Q ss_pred hhHHHHHHHHhCCCccceee
Q 002254 109 YGLERILMLLQGVDHFKKIQ 128 (947)
Q Consensus 109 ygler~~~~~q~~~~~~~~~ 128 (947)
-|+||+.|++=|.+||.|..
T Consensus 423 iGieRlvm~l~g~~~Irdv~ 442 (453)
T TIGR00457 423 LGFERLLAYITGLENIRDAI 442 (453)
T ss_pred ehHHHHHHHHhCCCcHhhhc
Confidence 34599999999999999863
No 77
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.
Probab=27.55 E-value=85 Score=38.04 Aligned_cols=72 Identities=10% Similarity=0.103 Sum_probs=50.4
Q ss_pred hhHhhcccCCCh--HhHHHHHHHHHHHHHHHHHhCCCCC-CcceeecccccceeeeccccccC---cchhhhhcCCcc
Q 002254 266 FVLEIGTEEMPP--QDVVNASQQLKDLMLQLLNKQKLSH-GEVQAFGTPRRLVVFVESLCQKQ---SENEFEARGPPV 337 (947)
Q Consensus 266 lLlEIGtEELPa--~~v~~a~~~l~~~~~~~L~~~~L~~-~~i~~~~TPRRLav~v~~l~~~q---~d~~~e~kGP~v 337 (947)
-.-|+..|-.|. +++...+......+...+....=.+ =.++.--+|.-+-+.|..++-++ ..+.+.++||-.
T Consensus 448 ~~~~~~~~gv~tgi~~~~a~a~~~a~~ieea~~~~~~~~~~~v~~~~~~~dinl~i~~~~~r~i~~~~~~id~rgpvf 525 (533)
T TIGR00470 448 QYIKAKEEGVSTGIRYIDGIAYKAAAKIEEALVSNVEEVKVRVPIVRSLSDINLKIDELALRYIMGKNKVIDVRGPLF 525 (533)
T ss_pred HHHHHHHcCCccCcchHHHHHHHHHHHHHHHHhcCCCceEEEEEEecCcccceeeecHHHHHHHhccCceEEeeCceE
Confidence 346677777887 6788888777777777765443233 24666788888999998888764 356677888843
No 78
>TIGR02247 HAD-1A3-hyp Epoxide hydrolase N-terminal domain-like phosphatase. These appear to be members of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases by general homology and the conservation of all of the recognized catalytic motifs (although the first motif is unusual in the replacement of the more common aspartate with glycine...). The variable domain is found in between motifs 1 and 2, indicating membership in subfamily I and phylogeny and prediction of the alpha helical nature of the variable domain (by PSI-PRED) indicate membership in subfamily IA.
Probab=26.38 E-value=39 Score=34.94 Aligned_cols=43 Identities=28% Similarity=0.425 Sum_probs=34.2
Q ss_pred EcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceee
Q 002254 31 LKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIW 80 (947)
Q Consensus 31 ~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw 80 (947)
.||+|. .|+..++.+|+++ .++-||+ |-++=..+|--.||...
T Consensus 151 ~KP~p~----~~~~~~~~~g~~~--~~~l~i~-D~~~di~aA~~aG~~~i 193 (211)
T TIGR02247 151 RKPDPR----IYQLMLERLGVAP--EECVFLD-DLGSNLKPAAALGITTI 193 (211)
T ss_pred CCCCHH----HHHHHHHHcCCCH--HHeEEEc-CCHHHHHHHHHcCCEEE
Confidence 489885 7899999999876 6689995 55556889999999753
No 79
>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=26.24 E-value=34 Score=40.53 Aligned_cols=23 Identities=26% Similarity=0.507 Sum_probs=19.6
Q ss_pred hhHHHHHHHHhCCCccceeeeCC
Q 002254 109 YGLERILMLLQGVDHFKKIQYAD 131 (947)
Q Consensus 109 ygler~~~~~q~~~~~~~~~~~~ 131 (947)
-|+||+.|++=|.+||-|+.+-+
T Consensus 398 iGidRL~m~l~g~~~Irdv~~FP 420 (428)
T TIGR00458 398 LGAERFVMFLLGLKNIREAVLFP 420 (428)
T ss_pred ecHHHHHHHHcCCCchheEEecc
Confidence 35699999999999999987754
No 80
>COG2316 Predicted hydrolase (HD superfamily) [General function prediction only]
Probab=25.74 E-value=8.4e+02 Score=26.05 Aligned_cols=141 Identities=18% Similarity=0.192 Sum_probs=88.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChhhhhHHHHHHHHhCCCCHHHHHHHHhhcCCC
Q 002254 618 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPR 697 (947)
Q Consensus 618 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPELQGiMG~~YA~~~GE~~~VA~AI~EhYlPr 697 (947)
+--.+--.++.-+++|..+|-+++ .---++.|-..| -+.-+-=||=.|.-|-.|-+..|-+++|++||.-|-.-.
T Consensus 48 L~kHcla~eavMr~lARe~gEDEE---kw~~~GlLHD~D--Ye~tqgdpEeHgl~g~eiL~~edv~eeil~ai~~H~~~~ 122 (212)
T COG2316 48 LQKHCLAVEAVMRWLAREWGEDEE---KWAVTGLLHDFD--YELTQGDPEEHGLWGVEILREEDVSEEILDAIMGHAAYT 122 (212)
T ss_pred HHHHHHHHHHHHHHHHHHhCccHH---HHHHHhhhhhcc--HHhhcCChhhcCccceehHhhcCCCHHHHHHHHHhhhhh
Confidence 344455667778899999887754 344556665444 222333379999999999999999999999999987544
Q ss_pred CCCCCCCCchhHHHHHHHHHHHHHHHhhhcCCCCCCCCChhhhhHHHHHHHHHHHhCCCCCCHHHHHHHHHhhCCCCcCc
Q 002254 698 FSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDPFGLRRISYGLVQILIEKDKNLDLELALRLAADVQPITVDA 777 (947)
Q Consensus 698 ~agD~LP~s~~G~iLslADKlDtLvG~F~iG~~PTGS~DPfALRRaAlGIirIl~e~~~~l~L~~li~~a~~~~~~~~~~ 777 (947)
+- -|+++.-..|--+| .+.|+. .+|+-..+. .+-
T Consensus 123 ~~---~~et~~e~aL~AvD---~~tGli---------------------------------------~AaALirp~-K~~ 156 (212)
T COG2316 123 GT---PRETRLEQALFAVD---ELTGLI---------------------------------------QAAALIRPD-KDV 156 (212)
T ss_pred cC---CcccHHHHHHHhhc---cchhHH---------------------------------------HHHHHhCCC-Ccc
Confidence 42 25566655554433 333332 222211111 011
Q ss_pred cchhhHHHHHHHHHHHHHHhcCCCHHHHHhhhcC
Q 002254 778 STINDVHQFVTRRLEQFLVDKGISPEIVRSVLSE 811 (947)
Q Consensus 778 ~~~~~v~~F~~~RL~~~l~d~g~~~dii~AVL~~ 811 (947)
++. =++|+..|++.-=-..|++-|-|+.+=..
T Consensus 157 ~vv--~~~~lkkrFKeK~FAaG~~Rd~vR~~E~l 188 (212)
T COG2316 157 RVV--ELSSLKKRFKEKGFAAGVNRDEVRQAEEL 188 (212)
T ss_pred ccc--cHHHHHHHHHhhhhhccCCHHHHHHHHHh
Confidence 121 15799999987555678888988875443
No 81
>KOG3085 consensus Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=23.37 E-value=66 Score=35.49 Aligned_cols=64 Identities=27% Similarity=0.439 Sum_probs=54.0
Q ss_pred EEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceeeecCeeeeeeehhhhccCcc
Q 002254 30 ILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQFTYFQQAGSLQ 99 (947)
Q Consensus 30 i~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw~~gmeitq~tyfqq~gg~~ 99 (947)
+.||+| ++|..-|+.+|+.| -|+-||.|+=+|--.||--+||--||=.-.+|=+-+.++.=|++
T Consensus 166 ~~KPDp----~If~~al~~l~v~P--ee~vhIgD~l~nD~~gA~~~G~~ailv~~~~~~~~~~~~~~~~~ 229 (237)
T KOG3085|consen 166 LEKPDP----RIFQLALERLGVKP--EECVHIGDLLENDYEGARNLGWHAILVDNSITALKELEYKLGID 229 (237)
T ss_pred cCCCCh----HHHHHHHHHhCCCh--HHeEEecCccccccHhHHHcCCEEEEEccccchhhhhhhccccc
Confidence 469998 58899999999986 57999999999999999999999887776667666766666665
No 82
>PF08668 HDOD: HDOD domain; InterPro: IPR013976 This domain is found in a superfamily of enzymes with a predicted or known phosphohydrolase activity. These members appear to be involved in the nucleic acid metabolism and signal transduction or possibly other functions and are restricted to bacteria, primarily the proteobacteria. The fact that all the highly conserved residues in the HD superfamily are histidines or aspartates suggests that coordination of divalent cations is essential for the activity of these proteins [].; PDB: 1VQR_D 3LJX_A 3P3Q_B 3MEM_A 3M1T_A 3HC1_A 3I7A_A.
Probab=23.16 E-value=4.7e+02 Score=26.77 Aligned_cols=84 Identities=15% Similarity=0.211 Sum_probs=55.3
Q ss_pred ccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhhcchhhhhcChh----------------------
Q 002254 610 LFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTS---------------------- 667 (947)
Q Consensus 610 vF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~L~KaDL~T~MV~EFPE---------------------- 667 (947)
.+...+-.+...+.....+|..||..++.... +.+--|+.|.-.-..- +...||+
T Consensus 87 ~~~~~~~~~~~~s~~~a~~a~~la~~~~~~~~--~~a~~~gLL~~iG~l~-l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 163 (196)
T PF08668_consen 87 PYQFNLERFWRHSLAAAAIARRLARELGFDDP--DEAYLAGLLHDIGKLL-LLSLFPEYYEEILQEVKQEPESREEAERE 163 (196)
T ss_dssp CTTSCHHHHHHHHHHHHHHHHHHHHHCTCCHH--HHHHHHHHHTTHHHHH-HHHHCHHHHHHHHHHHHHHCTHHHHHHHH
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHcCCCCH--HHHHHHHHHHHHhHHH-HHHHhHHHHHHHHHHHHcCCCCHHHHHHH
Confidence 34455566788888999999999999887652 2344455554322211 1122222
Q ss_pred ----hhhHHHHHHHHhCCCCHHHHHHHHhhcCC
Q 002254 668 ----LAGVMACHYALRDGYSQQIAEALLEINLP 696 (947)
Q Consensus 668 ----LQGiMG~~YA~~~GE~~~VA~AI~EhYlP 696 (947)
-.+-+|.+.+++=|-|+.++++|.-|+-|
T Consensus 164 ~~g~~h~~lg~~l~~~W~lP~~i~~~i~~hh~P 196 (196)
T PF08668_consen 164 LFGVTHAELGAALLRKWGLPEEIVEAIRHHHDP 196 (196)
T ss_dssp HHSSHHHHHHHHHHHHTT--HHHHHHHHHTT-C
T ss_pred HHcCCHHHHHHHHHHHcCCCHHHHHHHHHHhcC
Confidence 24679999999999999999999999987
No 83
>TIGR01509 HAD-SF-IA-v3 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED. HAD subfamilies caused by an overly broad single model.
Probab=21.90 E-value=59 Score=32.26 Aligned_cols=42 Identities=31% Similarity=0.548 Sum_probs=33.4
Q ss_pred cCCCcchHHHHHHHHHhcCCCCCCCceeeecCCCCCcccccccccceee
Q 002254 32 KPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIW 80 (947)
Q Consensus 32 kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~we~p~lga~g~gwevw 80 (947)
||+| +.|..-++.+|+++ .++-||+|...+ ..+|-..||.+.
T Consensus 140 KP~~----~~~~~~~~~~~~~~--~~~~~vgD~~~d-i~aA~~~G~~~i 181 (183)
T TIGR01509 140 KPDP----DIYLLALKKLGLKP--EECLFVDDSPAG-IEAAKAAGMHTV 181 (183)
T ss_pred CCCH----HHHHHHHHHcCCCc--ceEEEEcCCHHH-HHHHHHcCCEEE
Confidence 6665 56777899999975 568999999865 888888998654
No 84
>cd02552 PseudoU_synth_TruD_like PseudoU_synth_TruD_like: Pseudouridine synthase, TruD family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruD and Saccharomyces cerevisiae Pus7. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruD and S. cerevisiae Pus7 make psi13 in cytoplasmic tRNAs. In addition S. cerevisiae Pus7 makes psi35 in U2 small nuclear RNA (U2 snRNA) and psi35 in pre-tRNATyr. Psi35 in U2 snRNA and psi13 in tRNAs are highly phylogenetically conserved. Psi34 is the mammalian U2 snRNA counterpart of yeast U2 snRNA psi35.
Probab=21.10 E-value=1.6e+02 Score=32.19 Aligned_cols=49 Identities=14% Similarity=0.276 Sum_probs=35.3
Q ss_pred CCeeEEEEEEEecchhHHHHHHhHHHHHHhcCCCCccccc-CCCCcccchhhh
Q 002254 371 GKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRW-NSQVMFSRPIRW 422 (947)
Q Consensus 371 ~kgeyl~~~~~~~G~~t~eiL~eil~~~I~~L~fpK~MRW-~~~~~F~RPIrw 422 (947)
++|+|+++...+.|.+|.+++..+-..+ ++| |+.+.| +.+.+-+-=.+|
T Consensus 28 ~~G~~~~~~l~K~~~~T~~a~~~la~~l--~i~-~~~i~yAG~KDk~AvT~Q~ 77 (232)
T cd02552 28 GEGEYLHFTLYKENKDTMEALREIAKAL--GVP-PRDIGYAGTKDKRAVTTQR 77 (232)
T ss_pred CCCCEEEEEEEECCCCHHHHHHHHHHHc--CCC-HHHEeEcccccCceeeEEE
Confidence 6789999999999999999998844333 555 777888 544443333333
No 85
>KOG1195 consensus Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=20.88 E-value=2.3e+02 Score=34.63 Aligned_cols=79 Identities=13% Similarity=0.182 Sum_probs=58.7
Q ss_pred CCCcccCCCHHHHHHHHHHHHHhhhcCCCC---ChhHHHHHHHhhchHHhhhhccccccCCcHHHHHHHHHHHHHHHHhh
Q 002254 859 EVDETAFETIEEKALWTVYLSAKNKIHPGI---NVDDFIEISSELVQPLEDFFNHVFVMVEEERIRKNRLALLKKIADLP 935 (947)
Q Consensus 859 ~vd~~lf~~~~E~~L~~~~~~~~~~~~~~~---~~~~y~~al~~L~~~Id~FFD~VmVm~eD~~IR~NRLaLL~~i~~lf 935 (947)
.+|-++|++|.=..|+..+....+.+..++ ........|..|...+..+.+..-|-+...+|--.||.|.+.+++..
T Consensus 473 ~~d~~~l~ep~~~~Lv~~L~~fp~vve~s~e~lE~~~lV~YL~~La~a~s~~yk~l~V~d~~~eia~aRL~Lf~AvRqVL 552 (567)
T KOG1195|consen 473 EIDFSLLTEPDALLLVRLLLQFPEVVEKSMEQLEPCTLVTYLFKLAHAVSSAYKILWVKDSPMEIALARLLLFSAVRQVL 552 (567)
T ss_pred ccchhhcCChhHHHHHHHHhhhHHHHHHHHHhhcchhHHHHHHHHHHHHHhHHhheeecCCcHHHHHHHHHHHHHHHHHH
Confidence 478899999997777776655443333221 12223334577888999999999999999999999999999998876
Q ss_pred hh
Q 002254 936 KG 937 (947)
Q Consensus 936 ~~ 937 (947)
..
T Consensus 553 ~n 554 (567)
T KOG1195|consen 553 NN 554 (567)
T ss_pred Hh
Confidence 54
No 86
>cd00355 Ribosomal_L30_like Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea.
Probab=20.04 E-value=1.5e+02 Score=25.00 Aligned_cols=35 Identities=23% Similarity=0.206 Sum_probs=26.7
Q ss_pred EEEcCCCcchHHHHHHHHHhcCCCCCCCceeeecCC
Q 002254 29 VILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDN 64 (947)
Q Consensus 29 vi~kp~p~~~~~~yl~sl~~~g~~~~~~dirfved~ 64 (947)
|+..-|+.+.-.-.-+.|+.||+. +.|+..|++||
T Consensus 2 V~~irs~ig~~~~~~~tl~~LgL~-k~~~~v~~~~t 36 (53)
T cd00355 2 VTRVRSLIGRPPKQRKTLKALGLR-KINQTVFVKDT 36 (53)
T ss_pred EEEecCCCCCCHHHHHHHHHcCCC-cCCCEEEEeCC
Confidence 344445555555578899999998 88999999997
Done!