Query 001359
Match_columns 1092
No_of_seqs 282 out of 1296
Neff 4.7
Searched_HMMs 46136
Date Thu Mar 28 22:47:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001359.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001359hhsearch_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 3140.5 94.1 984 72-1072 3-1000(1000)
2 TIGR00211 glyS glycyl-tRNA syn 100.0 7E-208 1E-212 1834.2 67.4 683 386-1073 3-691 (691)
3 PRK01233 glyS glycyl-tRNA synt 100.0 8E-208 2E-212 1831.5 67.6 676 386-1073 1-681 (682)
4 COG0751 GlyS Glycyl-tRNA synth 100.0 3E-208 6E-213 1802.1 62.0 681 385-1073 2-690 (691)
5 PF02092 tRNA_synt_2f: Glycyl- 100.0 6E-182 1E-186 1576.7 55.0 543 389-933 1-547 (548)
6 TIGR00388 glyQ glycyl-tRNA syn 100.0 2E-162 4E-167 1275.1 27.1 288 74-361 1-292 (293)
7 COG0752 GlyQ Glycyl-tRNA synth 100.0 2E-162 5E-167 1259.8 27.2 291 71-361 2-296 (298)
8 PRK09348 glyQ glycyl-tRNA synt 100.0 1E-160 2E-165 1257.2 26.4 282 72-353 2-283 (283)
9 cd00733 GlyRS_alpha_core Class 100.0 5E-160 1E-164 1250.0 25.6 279 75-353 1-279 (279)
10 PF02091 tRNA-synt_2e: Glycyl- 100.0 8E-160 2E-164 1255.6 14.9 284 76-359 1-284 (284)
11 cd07956 Anticodon_Ia_Arg Antic 99.2 6E-11 1.3E-15 120.0 8.8 109 956-1069 34-147 (156)
12 smart00836 DALR_1 DALR anticod 99.0 4.1E-10 8.9E-15 108.7 6.6 101 964-1069 4-113 (122)
13 PF05746 DALR_1: DALR anticodo 98.6 2.4E-08 5.3E-13 95.8 4.3 111 961-1073 1-117 (119)
14 cd00768 class_II_aaRS-like_cor 97.0 0.0015 3.2E-08 67.5 6.7 115 117-237 72-211 (211)
15 PRK13902 alaS alanyl-tRNA synt 96.9 0.0062 1.4E-07 77.9 12.8 249 73-336 58-354 (900)
16 PRK01584 alanyl-tRNA synthetas 96.6 0.0035 7.7E-08 76.6 7.2 169 74-250 1-248 (594)
17 TIGR03683 A-tRNA_syn_arch alan 96.6 0.013 2.9E-07 75.0 12.0 176 72-254 54-263 (902)
18 PRK00252 alaS alanyl-tRNA synt 96.5 0.0075 1.6E-07 77.0 9.4 167 73-253 1-247 (865)
19 TIGR00295 conserved hypothetic 96.4 0.026 5.6E-07 58.5 10.7 100 739-842 12-124 (164)
20 PRK12705 hypothetical protein; 96.1 0.028 6E-07 67.9 10.4 101 733-843 315-416 (508)
21 PRK12704 phosphodiesterase; Pr 95.9 0.041 8.8E-07 66.8 10.8 102 732-843 326-428 (520)
22 TIGR00488 putative HD superfam 95.5 0.073 1.6E-06 54.6 9.4 99 741-847 9-126 (158)
23 TIGR03319 YmdA_YtgF conserved 95.3 0.082 1.8E-06 64.2 10.6 191 611-843 227-422 (514)
24 PRK07152 nadD putative nicotin 95.0 0.11 2.4E-06 59.8 9.7 95 741-843 197-308 (342)
25 PF01966 HD: HD domain; Inter 94.9 0.065 1.4E-06 50.0 6.4 101 742-843 2-121 (122)
26 PRK12703 tRNA 2'-O-methylase; 94.8 0.17 3.8E-06 58.4 10.9 96 741-843 188-294 (339)
27 smart00471 HDc Metal dependent 94.6 0.45 9.7E-06 43.7 11.2 103 740-846 4-117 (124)
28 PLN02900 alanyl-tRNA synthetas 94.5 0.12 2.5E-06 66.9 9.3 166 73-250 10-263 (936)
29 PRK00106 hypothetical protein; 94.4 0.19 4.1E-06 61.3 10.3 190 611-842 248-442 (535)
30 COG0013 AlaS Alanyl-tRNA synth 93.7 0.17 3.7E-06 64.4 8.3 176 73-253 5-250 (879)
31 cd00673 AlaRS_core Alanyl-tRNA 93.2 1 2.2E-05 49.7 12.2 157 78-244 3-232 (232)
32 COG1418 Predicted HD superfami 91.3 0.51 1.1E-05 51.7 7.1 116 725-845 21-146 (222)
33 cd00077 HDc Metal dependent ph 90.6 5.6 0.00012 37.0 12.6 108 740-847 2-128 (145)
34 TIGR00277 HDIG uncharacterized 90.3 1.6 3.4E-05 38.3 8.1 75 740-817 4-78 (80)
35 TIGR00344 alaS alanine--tRNA l 89.5 0.96 2.1E-05 58.3 8.5 104 137-253 109-241 (851)
36 TIGR00456 argS arginyl-tRNA sy 89.4 1.8 3.9E-05 53.4 10.4 114 954-1070 442-561 (566)
37 PRK12451 arginyl-tRNA syntheta 87.8 0.87 1.9E-05 56.1 6.3 109 957-1070 446-557 (562)
38 TIGR03401 cyanamide_fam HD dom 87.6 4 8.8E-05 45.0 10.6 100 740-845 55-167 (228)
39 PTZ00326 phenylalanyl-tRNA syn 85.9 3.8 8.2E-05 49.9 10.0 119 119-250 356-487 (494)
40 TIGR02367 PylS pyrrolysyl-tRNA 85.9 2.7 5.8E-05 50.5 8.5 161 76-253 242-442 (453)
41 PRK04172 pheS phenylalanyl-tRN 82.7 8.1 0.00018 47.0 11.1 124 112-250 342-477 (489)
42 PRK09537 pylS pyrolysyl-tRNA s 82.6 4.9 0.00011 48.1 8.9 160 76-251 206-404 (417)
43 PRK10119 putative hydrolase; P 82.4 9.5 0.0002 42.3 10.5 102 737-844 22-132 (231)
44 TIGR03671 cca_archaeal CCA-add 80.4 16 0.00034 43.9 11.9 118 387-518 280-398 (408)
45 COG1713 Predicted HD superfami 78.6 8 0.00017 41.7 8.0 108 741-868 18-146 (187)
46 COG0018 ArgS Arginyl-tRNA synt 77.7 6.7 0.00014 48.8 8.2 90 956-1046 454-550 (577)
47 COG2206 c-di-GMP phosphodieste 72.6 21 0.00046 41.5 10.1 102 742-845 150-273 (344)
48 PRK01611 argS arginyl-tRNA syn 69.7 6.6 0.00014 47.8 5.5 107 959-1069 391-501 (507)
49 PF01409 tRNA-synt_2d: tRNA sy 67.7 49 0.0011 37.1 11.2 166 74-251 17-237 (247)
50 cd00670 Gly_His_Pro_Ser_Thr_tR 66.1 19 0.00041 38.5 7.5 58 117-175 85-149 (235)
51 PRK13300 tRNA CCA-pyrophosphor 64.0 24 0.00051 42.9 8.4 130 387-533 283-413 (447)
52 COG1011 Predicted hydrolase (H 60.7 7.4 0.00016 41.0 3.1 87 110-205 105-199 (229)
53 PLN02286 arginine-tRNA ligase 59.8 58 0.0012 40.8 11.0 88 955-1042 455-547 (576)
54 TIGR00459 aspS_bact aspartyl-t 58.2 7.3 0.00016 48.5 2.9 60 195-254 465-551 (583)
55 COG2024 Phenylalanyl-tRNA synt 52.7 17 0.00036 43.1 4.4 130 118-271 205-360 (536)
56 TIGR01428 HAD_type_II 2-haloal 50.3 9.7 0.00021 39.6 2.0 45 155-206 148-193 (198)
57 TIGR00470 sepS O-phosphoseryl- 47.7 33 0.00072 42.0 6.0 124 118-253 205-343 (533)
58 PRK09449 dUMP phosphatase; Pro 47.6 13 0.00029 39.3 2.6 47 154-205 149-196 (224)
59 PLN02530 histidine-tRNA ligase 47.2 1.7E+02 0.0036 35.9 12.0 54 118-175 162-220 (487)
60 PRK04173 glycyl-tRNA synthetas 46.8 52 0.0011 39.9 7.6 129 110-240 175-335 (456)
61 COG2316 Predicted hydrolase (H 45.9 4.2E+02 0.0092 28.7 13.3 141 741-934 48-188 (212)
62 PRK09456 ?-D-glucose-1-phospha 44.1 16 0.00034 38.4 2.4 86 110-202 90-181 (199)
63 TIGR02253 CTE7 HAD superfamily 41.6 15 0.00032 38.7 1.7 82 110-202 100-191 (221)
64 COG3437 Response regulator con 40.9 86 0.0019 37.2 7.7 116 727-846 173-311 (360)
65 TIGR01993 Pyr-5-nucltdase pyri 40.7 14 0.00029 38.2 1.2 42 154-202 140-181 (184)
66 PF12917 HD_2: HD containing h 40.6 84 0.0018 34.8 7.2 124 734-860 23-156 (215)
67 PRK10748 flavin mononucleotide 39.9 19 0.00042 39.1 2.4 83 111-206 120-209 (238)
68 KOG3109 Haloacid dehalogenase- 38.4 32 0.0007 38.3 3.6 106 74-211 103-210 (244)
69 PF09113 N-glycanase_C: Peptid 38.0 13 0.00028 38.5 0.6 22 188-209 73-95 (141)
70 PF00152 tRNA-synt_2: tRNA syn 37.1 24 0.00052 40.5 2.7 57 195-251 245-328 (335)
71 PF10847 DUF2656: Protein of u 36.6 49 0.0011 34.0 4.3 23 337-359 55-77 (132)
72 TIGR00094 tRNA_TruD_broad tRNA 35.7 41 0.00088 39.8 4.3 61 483-546 22-89 (387)
73 PRK00488 pheS phenylalanyl-tRN 35.3 2.9E+02 0.0062 32.8 10.8 166 75-250 109-328 (339)
74 TIGR02252 DREG-2 REG-2-like, H 34.4 23 0.00051 36.9 1.8 43 154-202 159-201 (203)
75 COG1639 Predicted signal trans 33.4 2.6E+02 0.0056 32.5 9.9 129 692-840 81-237 (289)
76 PRK13480 3'-5' exoribonuclease 33.2 2.7E+02 0.0059 32.5 10.2 113 733-849 152-284 (314)
77 PF10490 CENP-F_C_Rb_bdg: Rb-b 31.2 12 0.00026 32.0 -0.7 18 852-869 27-44 (49)
78 COG1746 CCA1 tRNA nucleotidylt 30.1 2.3E+02 0.005 34.6 9.0 127 387-533 284-412 (443)
79 KOG1576 Predicted oxidoreducta 27.7 30 0.00065 39.6 1.4 67 115-194 89-161 (342)
80 TIGR00468 pheS phenylalanyl-tR 26.8 1E+03 0.022 27.4 14.5 162 75-250 73-281 (294)
81 PLN02563 aminoacyl-tRNA ligase 26.7 80 0.0017 42.0 5.1 25 68-92 74-98 (963)
82 cd02552 PseudoU_synth_TruD_lik 26.5 1.1E+02 0.0023 34.2 5.3 49 494-545 28-77 (232)
83 TIGR00457 asnS asparaginyl-tRN 25.4 30 0.00065 41.9 0.9 20 232-251 423-442 (453)
84 PRK00984 truD tRNA pseudouridi 24.1 1.1E+02 0.0024 36.0 5.0 61 484-547 23-90 (341)
85 PF06159 DUF974: Protein of un 23.9 53 0.0012 36.8 2.4 30 120-156 86-115 (249)
86 cd02575 PseudoU_synth_EcTruD P 23.5 1.3E+02 0.0027 34.2 5.2 60 484-546 6-72 (253)
87 PRK14869 putative manganese-de 23.2 2.1E+02 0.0045 35.3 7.5 28 656-687 268-295 (546)
88 cd02577 PSTD1 PSTD1: Pseudouri 22.7 1.5E+02 0.0033 34.6 5.8 61 484-547 6-73 (319)
89 TIGR00458 aspS_arch aspartyl-t 22.2 45 0.00097 40.1 1.5 23 232-254 398-420 (428)
90 PRK00037 hisS histidyl-tRNA sy 22.1 1.5E+02 0.0032 35.0 5.7 76 91-175 74-154 (412)
91 TIGR01509 HAD-SF-IA-v3 haloaci 20.1 67 0.0015 32.4 2.1 43 154-203 139-181 (183)
No 1
>PRK14908 glycyl-tRNA synthetase; Provisional
Probab=100.00 E-value=0 Score=3140.46 Aligned_cols=984 Identities=42% Similarity=0.713 Sum_probs=943.4
Q ss_pred CcchHHHHHHHHHHHHhhcCceeeeccccccccccCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeE
Q 001359 72 SVPTFQQAIQRLQEYWASVGCSVMQCSNTEVGAGTMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQ 151 (1092)
Q Consensus 72 ~~~~~q~~i~~l~~~w~~~gc~~~~p~~~e~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~q 151 (1092)
++|||||+|++||+||+++||+|+||||+|||||||||+||||+||||||++|||||||||+|||||+||||||||||||
T Consensus 3 ~~~~~q~~i~~l~~~w~~~gc~~~qp~~~e~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~q 82 (1000)
T PRK14908 3 QPLTMQDMLLALLRYWSEQGCIIHQGYDLEVGAGTFNPATFLRVLGPEPWRVAYVEPSRRPDDGRYGQNPNRLQTYTQFQ 82 (1000)
T ss_pred CcccHHHHHHHHHHHHHHCCCEEECCcccccccCcCCHHHHHhhcCCCCCcccccCCCCCCCCCCcCCCchhhhhheeeE
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEcCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccceeeecCeeeeeeehhhhcCCcccCcceeeeh
Q 001359 152 VILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQFTYFQQAGSLQLSPVSVEIT 231 (1092)
Q Consensus 152 vi~kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwevw~~gmeitqftyfqq~gg~~~~~~~~eit 231 (1092)
|||||||+|+|+|||+||++||||+++|||||||||||||||||||||||||||||||||||||||+||++|+||++|||
T Consensus 83 vi~kp~p~~~q~~yl~sl~~~gi~~~~~dirfved~we~p~lga~glgwevw~~gmeitqftyfqq~gg~~~~~~~~eit 162 (1000)
T PRK14908 83 VILKPVPGNPQELYLESLKAIGIDLRDHDIRFVHDDWENPTIGAWGLGWEVWLDGMEITQFTYFQQAGGKPLDPISGEIT 162 (1000)
T ss_pred EEECCCCccHHHHHHHHHHHcCCCccccceeEeecCCCCCcccccccccEEEECCeeeeeeeeehhcCCeeccccceeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHhCCCccceeeeCCCCceecccccchhhhhccccccCCHHHHHHHHHHHHHHHHHHHHcCCCcchhhhHHh
Q 001359 232 YGLERILMLLQGVDHFKKIQYADGITYGELFLENEKEMSAYYLEHANVHHLQKQFDFFEEESRSLLASGLAIPAYDQLLK 311 (1092)
Q Consensus 232 ygleri~m~~q~~~~~~~~~~~~~~~yg~~~~~~e~e~s~y~~~~~~~~~~~~~f~~~~~e~~~~~~~~l~~pay~~~lk 311 (1092)
|||||||||||+|||||||.||+++||||||+|+|+|||+||||+||+++|+++|++||+||++|++++||+||||||||
T Consensus 163 ygler~~m~~q~~~~~~~~~~~~~~~y~~~~~~~e~~~s~~~~~~~~~~~~~~~f~~~~~e~~~~~~~~l~~pay~~~~k 242 (1000)
T PRK14908 163 YGIERIAMYLQKVNHFKDIAWNDGLTYGEIFQQAEYEMSRYNFDDANTEMWLKHFEDYAAEALRLLDAGLPVPAYDFVLK 242 (1000)
T ss_pred ccHHHHHHHHhCCCeeeeeecCCCCcchhhccccHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHHcCCCcchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCCCChhhHHhhhcCCCCCccchhh
Q 001359 312 TSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRKSLGHPLGIVSEPVDLPCPKELLEAAVKKLPDDPRLFVL 391 (1092)
Q Consensus 312 ~sh~fn~ldar~~~~~~er~~~~~~~r~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lLl 391 (1092)
|||+|||||||||||||||++||+|||+|||.||++|+++|+++||||+...+|++++++. ..+.++++.+|||
T Consensus 243 ~sh~fn~ldar~~i~~~er~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~dlLl 316 (1000)
T PRK14908 243 ASHAFNILDARGAISVTERTRYIARIRQLARAVADLYVEWREELGFPLLKVPPPPAAVTPK------KTPDICGPETLLF 316 (1000)
T ss_pred HHHHhhhhhhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCCCCCCCCCCCC------CCCCCCCccCEEE
Confidence 9999999999999999999999999999999999999999999999999765544332222 3446688999999
Q ss_pred hhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeecccCccCcchhhhhcCCccccccccCCCCc
Q 001359 392 EIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFDQQGNPT 471 (1092)
Q Consensus 392 EIGtEELPa~~l~~a~~ql~~~~~~~L~~~~L~~~~I~~f~TPRRLav~V~~l~~~q~d~~~e~kGPpv~~Afd~dG~pT 471 (1092)
|||||||||+++.++++||++.+.+.|++++|+|++|++|+|||||+|+|++|+++|+|.++++||||+++|||+||+||
T Consensus 317 EIGtEELPA~~~~~a~~ql~~~~~~~L~~~~L~~~~i~~f~TPRRLav~v~~l~~~q~d~~~e~kGP~~~~AfD~dG~pT 396 (1000)
T PRK14908 317 EIGSEELPATFVPIGIQQLESALRELLADTRLGYEKLEVLGTPRRLALLVEDVAPREPDAEREKRGPRLSAAFDADGTPT 396 (1000)
T ss_pred EcccccCCHHHHHHHHHHHHHHHHHHHHHcCCCcCceEEEecCcEeEEEecCCcccCCCceeeeeCCcHHHhCccCCCcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHCCCCccCceE---------EEeCCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccc
Q 001359 472 KAVEGFCQRYAVPIDSLVT---------KAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSR 541 (1092)
Q Consensus 472 kAa~GFak~~Gv~~~~L~~---------~~~~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~R 541 (1092)
||++|||||||+++++|.+ ++++||+|+|++++++|++|.++|+++++++|++|||||+|||| ++++|+|
T Consensus 397 kAa~GFars~Gv~~~dL~~~~~~~~~~~~~~kg~eyl~~~k~~~G~~t~elL~eil~~~I~~L~fpKsMRWg~~~~~FvR 476 (1000)
T PRK14908 397 PAGEGFFRSQGVDISHLSALDQDGAIEIREINGVEYLFLVRPEPGRDAAAILANELPELIQSLRFPKKMRWDDPGLSYAR 476 (1000)
T ss_pred HHHHHHHHHcCCCHHHHHHhhcccccccccCCCcEEEEEEEEECCeEHHHHHHHHHHHHHHcCCCCCcceeCCCCcEEec
Confidence 9999999999999999988 55555699999999999999999999999999999999999999 9999999
Q ss_pred hhhhHHHHcCCceeeeEEcceeeCCcccccccCCCCcEEeCChhHHHHHHHhCCeeccHHHHHHHHHHHHHHHHHhcCCe
Q 001359 542 PIRWIMALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRKTIFDRSNALAKSVNGR 621 (1092)
Q Consensus 542 PIrWIvaL~gd~VIp~~~~Gi~Sgn~T~GHRfl~~~~i~I~~a~~Y~~~L~~~~VIvd~~eRk~~I~~qi~~lA~~~g~~ 621 (1092)
||||||||||++||||+++||+|||+|+||||++++.|+|++|++|++.|++++||+|+++||++|++|++++|+++|++
T Consensus 477 PIrWIvaLlg~eVIp~~i~gi~Sg~~T~GHRfl~~~~i~I~~a~~Y~~~L~~~~VIvD~~eRr~~I~~qi~~la~~~g~~ 556 (1000)
T PRK14908 477 PIRWLVALYGDQIVPISVGTLASGRTTRGHRQLDPPPVEIPSADGYVETLRQACVILSPKERREIIVQGLQNLAADVQID 556 (1000)
T ss_pred hHHHHHHHcCCceeEEEEecEEecCcccccccCCCCCeEeCCHHHHHHHHHhCCEECCHHHHHHHHHHHHHHHHHHcCCe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCchHHHhhhcccCCceeecccCccCCCCcHHHHHHHHHhCcceeEEECCCCCccccEEEEEcCCCCchhhhchhhh
Q 001359 622 IIFEESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFIAVANGAINEMVVRKGNEA 701 (1092)
Q Consensus 622 v~~de~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQKYFpv~d~~GkLlp~FI~VsN~~~~~~~Vi~GNEr 701 (1092)
+..|++||||||+|||||++++|+||++||+||+|||||+|++|||||||+|++|+|+|+||+|+|+.++. .|++||||
T Consensus 557 v~~de~LLdEVt~LVE~P~al~G~Fde~FL~LP~EVLit~Mk~HQRYFpv~d~~G~Llp~FI~VsN~~~~~-~Vi~GNEr 635 (1000)
T PRK14908 557 AIAEPRLIDEVTNLVEHPFVILGQFDEKFLELPKELLIAEMVKHQRYFPVRDAQGTLLNHFVIVADGSPDD-EIVRGNEK 635 (1000)
T ss_pred eCCCHHHHHHHHhccCCCeeeEEeeCHHHhCCCHHHHHHHHHHcceEEEEECCCCCccceEEEEECCCCcc-ceeecchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999998655 89999999
Q ss_pred HhhhhcccchhhHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccc
Q 001359 702 VLRARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLA 781 (1092)
Q Consensus 702 VLrARL~DA~FFy~eDlK~~Le~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~ 781 (1092)
||||||+||+|||++|+|+||++|+++|++||||+|||||+|||+||++||.+||+.+|.+.+ ..+.|||.||||||+
T Consensus 636 VLrARL~DA~FF~~~DlK~~L~~~vekL~~VvFq~kLGS~~dKv~Ri~~La~~La~~l~~~~~--~~~~RAA~LsKaDLv 713 (1000)
T PRK14908 636 VLRARLTDGAFLFKADLKTPLETFVEKLKSVTYFEALGSLADKVERIKAHAEELAALLPLSAR--ETLDRAAELCKFDLV 713 (1000)
T ss_pred hhHhHHhHHHHHHHHhccCCHHHHHHHhCceEeehhcCCHHHHHHHHHHHHHHHHHHhCCChh--HHHHHHHHHhhhhcc
Confidence 999999999999999999999999999999999999999999999999999999999998653 235899999999999
Q ss_pred cchhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHHhhhcCCCCCCCCChh
Q 001359 782 TSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDPF 861 (1092)
Q Consensus 782 T~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG~F~iG~~PTGSkDPf 861 (1092)
|+||+||||||||||+|||+++||+++||+||+|||+||++||+||+|++|++||||||||||+|||++|++||||+|||
T Consensus 714 T~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~agD~LP~s~~G~ilalADKlDTLvG~FaiG~~PTGSkDPf 793 (1000)
T PRK14908 714 SQMVNEFPELQGIMGRYYAQRAGEPEAVAQALGEHELPRTAGDSLPASTTGALLSLADRLDNLLGCFALGLKPTSSSDPY 793 (1000)
T ss_pred cchhccChHhhHHHHHHHHHHcCCCHHHHHHHHHHhCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHhCCCCcCCCCCCH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHhCCCCCCHHHHHHHHHhhCC---CCcCccchhhHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCCC
Q 001359 862 GLRRISYGLVQILIEKDKNLDLELALRLAADVQP---ITVDASTINDVHQFVTRRLEQFLVDKGISPEIVRSVLSERANL 938 (1092)
Q Consensus 862 ALRRaAlGIIrILie~~l~l~L~~li~~a~~~~~---~~~~~~~~~ev~~F~~~RL~~~L~d~G~~~diV~AVL~~~~~~ 938 (1092)
||||+|+||||||++++++|||.+++++|++.++ ...+.++.++|++||.+||+++|.++|+++|+|+||++.+.++
T Consensus 794 ALRRaAlGIirIl~e~~l~l~L~~ll~~a~~~~~~~~~~~~~~~~~~l~~Fi~~Rl~~~l~d~G~~~dvI~AVl~~~~~~ 873 (1000)
T PRK14908 794 ALRRQALGVLTLLRATPASLDLEDLLARLARHFPSTTVWVKEAVLDEVLEFVWGRLKTQLLDLGFDKDEIAAVLPDACKN 873 (1000)
T ss_pred HHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHccCCCC
Confidence 9999999999999999999999999999999874 1113356778999999999999999999999999999988899
Q ss_pred HHHHHHHHHHHHHHhcCCChHHHHHHHhhhhhhccCCCCCCcCCCCcccCCCHHHHHHHHHHHHHhhhcCC-CCCHHHHH
Q 001359 939 PCLATKTAYKMEALSKGQLFPKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHP-GINVDDFI 1017 (1092)
Q Consensus 939 ~~~~~~r~~aL~~f~~~~~f~~l~~a~KRv~NIlkk~~~~~~~~vd~~ll~e~~E~~L~~a~~~~~~~~~~-~~~~~~~~ 1017 (1092)
|+++.+|+++|++|++.++|++++++||||.||++|.+ ...+|+++|++++|++||+++.++++.+.+ ..+|.+++
T Consensus 874 ~~~~~~r~~aL~~f~~~~~~~~l~~a~kRv~NIl~k~~---~~~vd~~Lf~~~~E~~L~~a~~~~~~~~~~~~~dy~~al 950 (1000)
T PRK14908 874 PAEADKTAQALQELKSTEIFAEIAAALNRLKRILASLS---FSVTDASLLLEPAELNLKQALDAFREELTELPIDLKDYV 950 (1000)
T ss_pred HHHHHHHHHHHHHHhcChhHHHHHHHHHHHHHHHhhcC---CCccChhhcCCHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 99999999999999999999999999999999999653 136999999999999999999999776654 25799999
Q ss_pred HHHhhhchHHhhhhccccccCCCHHHHhhhhhhHHhhHHHHHHHHhhhccchHHH
Q 001359 1018 EISSELVQPLEDFFNHVFVMVKKESERTGLRCSRKLQTFQKALWICRFCLDFNSI 1072 (1092)
Q Consensus 1018 ~~l~~L~~~Id~FFD~VmVm~eD~~IR~N~~Ll~~L~ll~~i~~~f~~vaDfskL 1072 (1092)
..|++|++|||+|||+||||+||++||+| +|.+|+.+.++|..|+|||+|
T Consensus 951 ~~La~L~~~Id~FFD~VmVm~eD~~iR~N-----RLaLL~~i~~lf~~vaDfs~L 1000 (1000)
T PRK14908 951 AAAAELPQAVNTFFDEVLVMADDEAIRNA-----RLGLLAAIRDLKFGVLDWDAL 1000 (1000)
T ss_pred HHHHhhhhHHHHHhCCCEeeCCCHHHHHH-----HHHHHHHHHHHHHhhcchhcC
Confidence 99999999999999999999999999999 333566677999999999986
No 2
>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=6.5e-208 Score=1834.22 Aligned_cols=683 Identities=34% Similarity=0.566 Sum_probs=649.5
Q ss_pred ccchhhhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeecccCccCcchhhhhcCCccccccc
Q 001359 386 PRLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFD 465 (1092)
Q Consensus 386 ~~~lLlEIGtEELPa~~l~~a~~ql~~~~~~~L~~~~L~~~~I~~f~TPRRLav~V~~l~~~q~d~~~e~kGPpv~~Afd 465 (1092)
+++||||||||||||+++..+.+||++.+.+.|+++||+|+++++|+|||||+|+|++++++|+|.++++||||+++|||
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 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcHHHHHHHHHCCCCccCceEEEeCCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccchhh
Q 001359 466 QQGNPTKAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSRPIR 544 (1092)
Q Consensus 466 ~dG~pTkAa~GFak~~Gv~~~~L~~~~~~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~RPIr 544 (1092)
++|+||||++|||||||++++||.++++.||+|+|++++++|++|.++|+++++++|++|||||+|||| ++++|+||||
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 999999999999999999999999975778899999999999999999999999999999999999999 9999999999
Q ss_pred hHHHHcCCceeeeEEcceeeCCcccccccCCCCcEEeCChhHHHHHHHhCCeeccHHHHHHHHHHHHHHHHHhcCCeecC
Q 001359 545 WIMALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRKTIFDRSNALAKSVNGRIIF 624 (1092)
Q Consensus 545 WIvaL~gd~VIp~~~~Gi~Sgn~T~GHRfl~~~~i~I~~a~~Y~~~L~~~~VIvd~~eRk~~I~~qi~~lA~~~g~~v~~ 624 (1092)
|||||||++||||+++||+|||+|+||||++++.|+|++|++|++.|++++||+|+++||++|++|++++|+++|+++..
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 001359 625 EESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFIAVANGA-INEMVVRKGNEAVL 703 (1092)
Q Consensus 625 de~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQKYFpv~d~~GkLlp~FI~VsN~~-~~~~~Vi~GNErVL 703 (1092)
|++||||||+|||||++++|+||++||+||+|||||+|++|||||||+|++|+|+|+||+|+|+. .+.++|++||||||
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 99999999999999999999999999999999999999999999999999999999999999997 57899999999999
Q ss_pred hhhcccchhhHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccc
Q 001359 704 RARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATS 783 (1092)
Q Consensus 704 rARL~DA~FFy~eDlK~~Le~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~ 783 (1092)
||||+||+|||++|+|+||++|+++|++|+||+|||||+|||+||++||.+||+.++++.+..+.+.|||.||||||+|+
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 99999999999999999999999999999999999999999999999999999999987643323589999999999999
Q ss_pred hhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHHhhhcCCCCCCCCChhhh
Q 001359 784 VVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDPFGL 863 (1092)
Q Consensus 784 MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG~F~iG~~PTGSkDPfAL 863 (1092)
||+||||||||||+|||+++||+++||.||+|||+|||+||.||+|.+|++||||||||||+|||++|++||||+|||||
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 001359 864 RRISYGLVQILIEKDKNLDLELALRLAADVQPITV-DASTINDVHQFVTRRLEQFLVDKGISPEIVRSVLSERANLPCLA 942 (1092)
Q Consensus 864 RRaAlGIIrILie~~l~l~L~~li~~a~~~~~~~~-~~~~~~ev~~F~~~RL~~~L~d~G~~~diV~AVL~~~~~~~~~~ 942 (1092)
||+|+||||||++++|++||.+++++|++.++... +.++.++|++||.+||+++|.++|+++|+|+||++.+.++|+++
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 99999999999999999999999999999874311 22456689999999999999999999999999999888999999
Q ss_pred HHHHHHHHHHhcCCChHHHHHHHhhhhhhccCCCCCCcCCCCcccCCCHHHHHHHHHHHHHhhhcCC---CCCHHHHHHH
Q 001359 943 TKTAYKMEALSKGQLFPKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHP---GINVDDFIEI 1019 (1092)
Q Consensus 943 ~~r~~aL~~f~~~~~f~~l~~a~KRv~NIlkk~~~~~~~~vd~~ll~e~~E~~L~~a~~~~~~~~~~---~~~~~~~~~~ 1019 (1092)
.+|+++|++|.+.++|++++++||||.||++|.+......||++||++++|++||+++..++..+.. ..+|...+..
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 9999999999999999999999999999999754221236999999999999999999999655543 2468889999
Q ss_pred HhhhchHHhhhhccccccCCCHHHHhhhhhhHHhhHHHHHHHHhhhccchHHHH
Q 001359 1020 SSELVQPLEDFFNHVFVMVKKESERTGLRCSRKLQTFQKALWICRFCLDFNSIQ 1073 (1092)
Q Consensus 1020 l~~L~~~Id~FFD~VmVm~eD~~IR~N~~Ll~~L~ll~~i~~~f~~vaDfskL~ 1073 (1092)
|+.|+++||+|||+||||+||++||+| +|.+|+.+.++|..++|||+|+
T Consensus 643 l~~L~~~Id~FFD~VmVm~~d~~iR~N-----RL~LL~~i~~lf~~iaDfs~l~ 691 (691)
T TIGR00211 643 LAELRAPVDEFFDSVMVMADDIELRQN-----RLNFLWGLRQLFLEVADISALQ 691 (691)
T ss_pred HHHhhhHHHHHhCCCEeeCCCHHHHHH-----HHHHHHHHHHHHHHhccHHHcC
Confidence 999999999999999999999999999 3336667779999999999985
No 3
>PRK01233 glyS glycyl-tRNA synthetase subunit beta; Validated
Probab=100.00 E-value=7.8e-208 Score=1831.49 Aligned_cols=676 Identities=39% Similarity=0.639 Sum_probs=648.9
Q ss_pred ccchhhhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeecccCccCcchhhhhcCCccccccc
Q 001359 386 PRLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFD 465 (1092)
Q Consensus 386 ~~~lLlEIGtEELPa~~l~~a~~ql~~~~~~~L~~~~L~~~~I~~f~TPRRLav~V~~l~~~q~d~~~e~kGPpv~~Afd 465 (1092)
+++||||||||||||+++.++.+||++.+.+.|++++|+|+++++|+|||||+|+|++++++|+|.++++||||+++|||
T Consensus 1 ~~~lLlEIGtEElPa~~~~~a~~~l~~~~~~~L~~~~l~~~~i~~f~TPRRLav~v~~l~~~q~d~~~e~kGP~~~~A~d 80 (682)
T PRK01233 1 MKDLLLEIGTEELPAKALRKAAEQLAERITKELKEAGLSFGSIKVFATPRRLAVLVEGLAEKQPDREEEKKGPAVKIAFD 80 (682)
T ss_pred CCcEEeehhhccCCHHHHHHHHHHHHHHHHHHHHHcCCCcCceEEEEcCcEeeeeecCCcccCCcchheecCccHHHhcC
Confidence 45899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcHHHHHHHHHCCCCccCceEEEeCCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccchhh
Q 001359 466 QQGNPTKAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSRPIR 544 (1092)
Q Consensus 466 ~dG~pTkAa~GFak~~Gv~~~~L~~~~~~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~RPIr 544 (1092)
+||+||||++|||||||++++||.+++++||+|+|++++++|++|.++|+++++++|++|||||+|||| ++++|+||||
T Consensus 81 ~~G~ptkA~~GFar~~gv~~~~l~~~~~~kgey~~~~~~~~g~~~~~lL~~~l~~~i~~l~fpKsMRWg~~~~~F~RPir 160 (682)
T PRK01233 81 ADGNPTKAAEGFARGQGVTVDDLERRETKKGEYLFARKVVKGRPTAELLPEILPEALAKLPFPKSMRWGNGDLRFVRPVH 160 (682)
T ss_pred cCCCcCHHHHHHHHHcCCCHHHheeeecCCccEEEEEEEECCccHHHHHHHHHHHHHHcCCCCCcceeCCCCCEEechHH
Confidence 999999999999999999999999998899999999999999999999999999999999999999999 9999999999
Q ss_pred hHHHHcCCceeeeEEcceeeCCcccccccCCCCcEEeCChhHHHHHHHhCCeeccHHHHHHHHHHHHHHHHHhcCCeecC
Q 001359 545 WIMALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRKTIFDRSNALAKSVNGRIIF 624 (1092)
Q Consensus 545 WIvaL~gd~VIp~~~~Gi~Sgn~T~GHRfl~~~~i~I~~a~~Y~~~L~~~~VIvd~~eRk~~I~~qi~~lA~~~g~~v~~ 624 (1092)
|||||+|++||||+++||+|||+|+||||++++.|+|+++++|++.|++++||+|+++||++|++|++++|+++|+++..
T Consensus 161 wivaLl~~~vi~~~~~gi~s~~~t~GHRf~~~~~i~i~~~~~Y~~~L~~~~VI~d~~~R~~~I~~~i~~~a~~~g~~v~~ 240 (682)
T PRK01233 161 WIVALLGDEVVPFEILGIKSGRVTRGHRFLGPGPITIANADDYEEKLREAKVIADPEERKAIILEQIEELAAELGGQVDI 240 (682)
T ss_pred HHHHHcCCeeeEEEEeceecCCcccccccCCCCCeEeCCHHHHHHHHhhCCEECCHHHHHHHHHHHHHHHHHHcCCEecC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCchHHHhhhcccCCceeecccCccCCCCcHHHHHHHHHhCcceeEEECCCCCccccEEEEEcCC-CCchhhhchhhhHh
Q 001359 625 EESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFIAVANGA-INEMVVRKGNEAVL 703 (1092)
Q Consensus 625 de~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQKYFpv~d~~GkLlp~FI~VsN~~-~~~~~Vi~GNErVL 703 (1092)
|++||||||+|||||++++|+||++||+||+|||||+|++|||||||+|++|+|+|+||+|+|+. .+.++|++||||||
T Consensus 241 d~~LLeEVt~LvE~P~~l~G~Fd~~fL~LP~Evlit~M~~hQrYFpv~d~~g~L~p~Fi~V~N~~~~~~~~V~~GNErVl 320 (682)
T PRK01233 241 DEDLLEEVTGLVEWPVVLLGSFDEKFLELPEEVLITTMKEHQKYFPVYDADGKLLPNFITVSNIESKDPENIIKGNEKVL 320 (682)
T ss_pred CHHHHHHHHhccCCCeEEEEEeCHHHhCCCHHHHHHHHHHcCeeEEEECCCCCeeeeEEEEECCCCCCchhhhhcchHhH
Confidence 99999999999999999999999999999999999999999999999999999999999999996 46899999999999
Q ss_pred hhhcccchhhHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccc
Q 001359 704 RARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATS 783 (1092)
Q Consensus 704 rARL~DA~FFy~eDlK~~Le~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~ 783 (1092)
||||+||+|||++|+|+||++|+++|++||||+|||||+|||+||++|+.+||+.+|++. +.+.|||.||||||+|+
T Consensus 321 rARL~DA~FF~~~D~k~~L~~~~~~L~~VvF~~~LGs~~dK~~Ri~~La~~la~~l~~~~---~~~~RAa~L~KaDL~T~ 397 (682)
T PRK01233 321 RARLADAEFFFEEDLKKPLEDRVEKLKNVVFHEKLGTLYDKVERIRALAGYIAEQLGADA---ALAERAALLAKADLVTE 397 (682)
T ss_pred HhHHhHHHHHHHHhccCCHHHHHHhcCceEeecccCCHHHHHHHHHHHHHHHHHHhCCCH---HHHHHHHHHHhhhccch
Confidence 999999999999999999999999999999999999999999999999999999999876 34799999999999999
Q ss_pred hhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHHhhhcCCCCCCCCChhhh
Q 001359 784 VVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDPFGL 863 (1092)
Q Consensus 784 MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG~F~iG~~PTGSkDPfAL 863 (1092)
||+||||||||||+|||+++||+++||.||+|||+||++||.||+|++|++||||||||||+|||++|++||||+|||||
T Consensus 398 mV~EFpELQGiMG~~YA~~~GE~~~VA~AI~EhY~P~~~~d~lP~t~~g~ilaiADKlDtL~g~F~ig~~PTGS~DPfaL 477 (682)
T PRK01233 398 MVGEFPELQGIMGRYYALHDGEDEEVALAIEEHYLPRFAGDELPSTPVGAAVALADKLDTLVGIFGIGEIPTGSKDPFAL 477 (682)
T ss_pred hhccChHhhHHHHHHHHHHCCCCHHHHHHHHHHhCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHhCCCCcCCCCCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHhCCCCCCHHHHHHHHHhhCCCCcCccchhhHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCCCHHHHH
Q 001359 864 RRISYGLVQILIEKDKNLDLELALRLAADVQPITVDASTINDVHQFVTRRLEQFLVDKGISPEIVRSVLSERANLPCLAT 943 (1092)
Q Consensus 864 RRaAlGIIrILie~~l~l~L~~li~~a~~~~~~~~~~~~~~ev~~F~~~RL~~~L~d~G~~~diV~AVL~~~~~~~~~~~ 943 (1092)
||+|+||||||++++|++||.+++++|++.+. .+..++|++||.+||+++|.++|+++|+|+||++.+.++|+++.
T Consensus 478 RR~A~GIirIi~~~~~~l~L~~li~~a~~~~~----~~~~~~l~~F~~~Rl~~~l~~~g~~~dvi~AVl~~~~~~~~~~~ 553 (682)
T PRK01233 478 RRAALGILRIILEKGLDLDLDELIEKAVSLYN----ANVLDDVLDFFLDRLKALLQDEGIRYDVIDAVLALRPDDLADLD 553 (682)
T ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhh----hhHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHccCCCCHHHHH
Confidence 99999999999999999999999999998653 24567899999999999999999999999999998888999999
Q ss_pred HHHHHHHHHhcCCChHHHHHHHhhhhhhccCCCCCCcCCCCcccCCCHHHHHHHHHHHHHhhhcCCC---CCHHHHHHHH
Q 001359 944 KTAYKMEALSKGQLFPKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHPG---INVDDFIEIS 1020 (1092)
Q Consensus 944 ~r~~aL~~f~~~~~f~~l~~a~KRv~NIlkk~~~~~~~~vd~~ll~e~~E~~L~~a~~~~~~~~~~~---~~~~~~~~~l 1020 (1092)
.|+++|.+|.+.++|++++++||||.||++|.+......||+++|++++|++||+++.+++..+... -+|...+..|
T Consensus 554 ~r~~aL~~~~~~~~~~~l~~~~kRv~NIl~k~~~~~~~~v~~~l~~~~~E~~L~~~~~~~~~~~~~~~~~~~y~~~l~~l 633 (682)
T PRK01233 554 ARVEALSAFRKLPEFKALAAANKRVSNILKKAEGKVSGEVDPALFEEPAEKALYAALEELKPKVEPALAAGDYQAALEAL 633 (682)
T ss_pred HHHHHHHHHhcChhHHHHHHHHHHHHHHHhccccccCCccChhHcCCHHHHHHHHHHHHHHHHHHHHhhhccHHHHHHHH
Confidence 9999999999999999999999999999997532223579999999999999999999997666543 3588888999
Q ss_pred hhhchHHhhhhccccccCCCHHHHhhhhhhHHhhHHHHHHHHhhhccchHHHH
Q 001359 1021 SELVQPLEDFFNHVFVMVKKESERTGLRCSRKLQTFQKALWICRFCLDFNSIQ 1073 (1092)
Q Consensus 1021 ~~L~~~Id~FFD~VmVm~eD~~IR~N~~Ll~~L~ll~~i~~~f~~vaDfskL~ 1073 (1092)
+.|++|||+|||+||||+||++||+| +|.+|+.+.++|..++|||+|+
T Consensus 634 ~~L~~~Id~FFD~VmVm~~d~~iR~N-----RL~LL~~i~~~f~~iaDfs~l~ 681 (682)
T PRK01233 634 AALRPPVDAFFDNVMVMAEDEALRAN-----RLALLASLRELFLRVADFSKLA 681 (682)
T ss_pred HhhhhHHHHHhCCCeeeCCCHHHHHH-----HHHHHHHHHHHHHHhcCHHHhc
Confidence 99999999999999999999999999 3335667779999999999986
No 4
>COG0751 GlyS Glycyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3e-208 Score=1802.15 Aligned_cols=681 Identities=38% Similarity=0.601 Sum_probs=652.3
Q ss_pred CccchhhhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeecccCccCcchhhhhcCCcccccc
Q 001359 385 DPRLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAF 464 (1092)
Q Consensus 385 ~~~~lLlEIGtEELPa~~l~~a~~ql~~~~~~~L~~~~L~~~~I~~f~TPRRLav~V~~l~~~q~d~~~e~kGPpv~~Af 464 (1092)
|+++||||||||||||++++++.+||.+.+.+.|+++||+|+++++|+|||||+|.|+||+..|+|.++|+||||+++||
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 45699999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCcHHHHHHHHHCCCCccCceEEEeCC-e-eEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccc
Q 001359 465 DQQGNPTKAVEGFCQRYAVPIDSLVTKAAGK-T-EYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSR 541 (1092)
Q Consensus 465 d~dG~pTkAa~GFak~~Gv~~~~L~~~~~~k-g-eYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~R 541 (1092)
|++|+||||++||+|+||++++++.+..++| | +|+|..++.+|++|+++|+++++++|++|||||+|||| .+++|+|
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 5 89999999999999999999999999999999999999 9999999
Q ss_pred hhhhHHHHcCCceeeeEEcceeeCCcccccccCCCCcEEeCChhHHHHHHHhCCeeccHHHHHHHHHHHHHHHHHhcCCe
Q 001359 542 PIRWIMALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRKTIFDRSNALAKSVNGR 621 (1092)
Q Consensus 542 PIrWIvaL~gd~VIp~~~~Gi~Sgn~T~GHRfl~~~~i~I~~a~~Y~~~L~~~~VIvd~~eRk~~I~~qi~~lA~~~g~~ 621 (1092)
|||||+||||++|||+++.||+|||+||||||+++..|+|+++++|.++|++++||+|+++||++|+++++++|.++|+.
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 001359 622 IIFEESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFIAVANGAI-NEMVVRKGNE 700 (1092)
Q Consensus 622 v~~de~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQKYFpv~d~~GkLlp~FI~VsN~~~-~~~~Vi~GNE 700 (1092)
++.|++||||||+|||||++++|+||++||+||+|||||+|++|||||||+|++|+|+|+||+|||+.+ |.++|++|||
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 999999999999999999999999999999999999999999999999999999999999999999985 6799999999
Q ss_pred hHhhhhcccchhhHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhcc
Q 001359 701 AVLRARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDL 780 (1092)
Q Consensus 701 rVLrARL~DA~FFy~eDlK~~Le~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL 780 (1092)
|||||||+||+|||++|+|+||++++++|++||||+||||++|||+||+.||.+||+++|++. +++.|||.||||||
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 KVLRARLSDAEFFFKEDLKKPLESRLPKLKTVTFHEKLGTLADKVERIKKIAAYIAPQLGADV---EDADRAALLAKADL 398 (691)
T ss_pred eeeeeccchHHHHHhhhhcccHHHHHHhhceeeehHhcccHHHHHHHHHHHHHHHHHHhCccH---HHHHHHHHHHhhhh
Confidence 999999999999999999999999999999999999999999999999999999999999954 78999999999999
Q ss_pred ccchhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHHhhhcCCCCCCCCCh
Q 001359 781 ATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDP 860 (1092)
Q Consensus 781 ~T~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG~F~iG~~PTGSkDP 860 (1092)
+|+||+||||||||||+|||+++||+++||.||.|||+|||+||.||+|++|++||||||||||+|||+||++||||+||
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 hhhhHHHHHHHHHHHhCCCCCCHHHHHHHHHhhCCCC-cCccchhhHHHHHHHHHHHHHHhcCCCHHHHHHhhcCCCCCH
Q 001359 861 FGLRRISYGLVQILIEKDKNLDLELALRLAADVQPIT-VDASTINDVHQFVTRRLEQFLVDKGISPEIVRSVLSERANLP 939 (1092)
Q Consensus 861 fALRRaAlGIIrILie~~l~l~L~~li~~a~~~~~~~-~~~~~~~ev~~F~~~RL~~~L~d~G~~~diV~AVL~~~~~~~ 939 (1092)
|||||+|+||||||++++|+|||.++++.+...+... ....+.++|++||.+||+++|+++|+++|+|+|||+.++.+|
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 9999999999999999999999999999998665321 234678899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcCCChHHHHHHHhhhhhhccCCCCCCcCCCCcccCCCHHHHHHHHHHHHHhhhcCCC---CCHHHH
Q 001359 940 CLATKTAYKMEALSKGQLFPKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHPG---INVDDF 1016 (1092)
Q Consensus 940 ~~~~~r~~aL~~f~~~~~f~~l~~a~KRv~NIlkk~~~~~~~~vd~~ll~e~~E~~L~~a~~~~~~~~~~~---~~~~~~ 1016 (1092)
+++.+|++||+.|+..++++++++++||+.||++|.+......||++||++++|++||+++..+..+..+. .+|.++
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 99999999999999999999999999999999997653334679999999999999999999998766443 468999
Q ss_pred HHHHhhhchHHhhhhccccccCCCHHHHhhhhhhHHhhHHHHHHHHhhhccchHHHH
Q 001359 1017 IEISSELVQPLEDFFNHVFVMVKKESERTGLRCSRKLQTFQKALWICRFCLDFNSIQ 1073 (1092)
Q Consensus 1017 ~~~l~~L~~~Id~FFD~VmVm~eD~~IR~N~~Ll~~L~ll~~i~~~f~~vaDfskL~ 1073 (1092)
+..|++|++|||.|||+||||+||++||+| | |.+|..+++.|..|||||+|+
T Consensus 639 l~~L~~L~~pId~FFd~VmVm~eD~~iR~N-R----LalL~~l~~~f~~vAd~~~l~ 690 (691)
T COG0751 639 LAALAELRPPIDEFFDNVMVMAEDEALRNN-R----LALLSKLRELFLKVADFSLLV 690 (691)
T ss_pred HHHHHHhhhhHHHHhcCceeeCCCHHHHHH-H----HHHHHHHHHHHHHHhhHHHhc
Confidence 999999999999999999999999999999 3 346677789999999999986
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=6.3e-182 Score=1576.69 Aligned_cols=543 Identities=45% Similarity=0.757 Sum_probs=532.3
Q ss_pred hhhhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeecccCccCcchhhhhcCCccccccccCC
Q 001359 389 FVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFDQQG 468 (1092)
Q Consensus 389 lLlEIGtEELPa~~l~~a~~ql~~~~~~~L~~~~L~~~~I~~f~TPRRLav~V~~l~~~q~d~~~e~kGPpv~~Afd~dG 468 (1092)
||||||||||||++++.+.++|++.+.+.|++++|+|++|++|+|||||+|.|++++++|+|.++++||||+++|||++|
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 CCcHHHHHHHHHCCCCccCceEEEeCCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccchhhhHH
Q 001359 469 NPTKAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSRPIRWIM 547 (1092)
Q Consensus 469 ~pTkAa~GFak~~Gv~~~~L~~~~~~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~RPIrWIv 547 (1092)
+||||++||||+||+++++|.+++++||+|+|+++.++|++|.++|+++++++|++|||||+|||| ++++|+||||||+
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 999999999999999999999999999999999999999999999999999999999999999999 9999999999999
Q ss_pred HHcCCceeeeEEcceeeCCcccccccCCCCcEEeCChhHHHHHHHhCCeeccHHHHHHHHHHHHHHHHHhcCCeecCCCc
Q 001359 548 ALHGDVVVPFMFAGVLSGNLSYGLRNTPLATVKVQNAESYAGVMRNAGVKIKIEDRRKTIFDRSNALAKSVNGRIIFEES 627 (1092)
Q Consensus 548 aL~gd~VIp~~~~Gi~Sgn~T~GHRfl~~~~i~I~~a~~Y~~~L~~~~VIvd~~eRk~~I~~qi~~lA~~~g~~v~~de~ 627 (1092)
||||++||||+++||+|||+|+||||+++++|+|++|++|++.|++++||+|+++||++|++|++++|+++|++++.|++
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 001359 628 LLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFIAVANGAI-NEMVVRKGNEAVLRAR 706 (1092)
Q Consensus 628 LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQKYFpv~d~~GkLlp~FI~VsN~~~-~~~~Vi~GNErVLrAR 706 (1092)
||||||+|||||++++|+||++||+||+|||+|+|++|||||||+|++|+|+|+||+|||+.+ +.++|++|||||||||
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 999999999999999999999999999999999999999999999999999999999999985 5799999999999999
Q ss_pred cccchhhHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchhh
Q 001359 707 YEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVM 786 (1092)
Q Consensus 707 L~DA~FFy~eDlK~~Le~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV~ 786 (1092)
|+||+|||++|+|+||++|+++|++|+||+|||||+|||+||+.|+.+||++++ ..+.+.+.|||.||||||+|+||+
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 445578999999999999999999
Q ss_pred cChhhhHHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHHhhhcCCCCCCCCChhhhhHH
Q 001359 787 EFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDPFGLRRI 866 (1092)
Q Consensus 787 EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG~F~iG~~PTGSkDPfALRRa 866 (1092)
||||||||||+|||+++||+++||.||+|||+|+++||+||+|++|++||||||||||+|||++|++||||+|||||||+
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 001359 867 SYGLVQILIEKDKNLDLELALRLAADVQPIT--VDASTINDVHQFVTRRLEQFLVDKGISPEIVRSVLS 933 (1092)
Q Consensus 867 AlGIIrILie~~l~l~L~~li~~a~~~~~~~--~~~~~~~ev~~F~~~RL~~~L~d~G~~~diV~AVL~ 933 (1092)
|+||||||+++++++||.+++++|++.++.. ..+++.++|.+||.+||+++|+++||++|+|+|||+
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 9999999999999999999999999987532 345788999999999999999999999999999996
No 6
>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=1.7e-162 Score=1275.06 Aligned_cols=288 Identities=59% Similarity=1.054 Sum_probs=286.1
Q ss_pred chHHHHHHHHHHHHhhcCceeeeccccccccccCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeEEE
Q 001359 74 PTFQQAIQRLQEYWASVGCSVMQCSNTEVGAGTMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVI 153 (1092)
Q Consensus 74 ~~~q~~i~~l~~~w~~~gc~~~~p~~~e~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi 153 (1092)
|||||||++||+||+++||+|+||||+|||||||||+||||+||||||+||||||||||+||||||||||||||||||||
T Consensus 1 m~fQ~iI~~Lq~fWa~~GC~i~QPyD~EvGAGT~hPaTflralgpepw~vAYVqPsRRP~DGRYGeNPNRLq~yyQfQVi 80 (293)
T TIGR00388 1 QTFQGLILKLQEYWANQGCLIVQPYDMEKGAGTMHPMTFLRSLGPEPWAVAYVEPSRRPTDGRYGENPNRLQHYYQFQVV 80 (293)
T ss_pred CCHHHHHHHHHHHHHHCCCEEEcCcccccccccCCHHHHHHhcCCCcceeccccCCCCCCCCCCCCCchhhhheeeeEEE
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EcCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccceeeecCeeeeeeehhhhcCCcccCcceeeehhh
Q 001359 154 LKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQFTYFQQAGSLQLSPVSVEITYG 233 (1092)
Q Consensus 154 ~kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwevw~~gmeitqftyfqq~gg~~~~~~~~eityg 233 (1092)
|||||+|+|+|||+||++||||+++||||||||||||||||||||||||||||||||||||||||||++|+||++|||||
T Consensus 81 lKPsP~niQelYL~SL~~lGid~~~hDIRFVEDnWEsPTLGAwGlGWEVWldGMEITQFTYFQQvGGi~~~pv~~EITYG 160 (293)
T TIGR00388 81 IKPSPDNIQELYLDSLRALGIDPTEHDIRFVEDNWENPTLGAWGLGWEVWLDGMEVTQFTYFQQVGGLECKPVSVEITYG 160 (293)
T ss_pred ECCCCccHHHHHHHHHHHhCCCccccCeeEeecCCCCCcccccccccEEEECCeeeeeeeeeeeeCCeeccccceeeehh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhCCCccceeeeCCC----CceecccccchhhhhccccccCCHHHHHHHHHHHHHHHHHHHHcCCCcchhhhH
Q 001359 234 LERILMLLQGVDHFKKIQYADG----ITYGELFLENEKEMSAYYLEHANVHHLQKQFDFFEEESRSLLASGLAIPAYDQL 309 (1092)
Q Consensus 234 leri~m~~q~~~~~~~~~~~~~----~~yg~~~~~~e~e~s~y~~~~~~~~~~~~~f~~~~~e~~~~~~~~l~~pay~~~ 309 (1092)
|||||||||+|||||||.||++ |||||||+|+|+|||+||||+||+++|+++|++||+||++|++++|++||||+|
T Consensus 161 LERiaMylQ~vd~v~dl~w~~~~~~~vtYgdv~~~~E~e~S~ynFe~ad~~~l~~~F~~~e~ea~~ll~~~L~lPAYd~~ 240 (293)
T TIGR00388 161 LERLAMYIQGVENVYDLEWSDGPLGKTTYGDVFHQNEVEQSTYNFETADVDFLFQLFKQYEKEAQQLLENGLPLPAYEYV 240 (293)
T ss_pred HHHHHHHHhCCCeeeeeeecCCCCcccchhhcccccHHHHhHhccccCCHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHH
Confidence 9999999999999999999997 999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 001359 310 LKTSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRKSLGHPLGI 361 (1092)
Q Consensus 310 lk~sh~fn~ldar~~~~~~er~~~~~~~r~l~~~~~~~~~~~~~~~~~~~~~ 361 (1092)
|||||+|||||||||||||||++||+|||+|||+||++|+++|+++||||+.
T Consensus 241 lK~SH~FNlLDARgaIsvtER~~yI~riR~la~~~a~~y~~~r~~~g~pl~~ 292 (293)
T TIGR00388 241 LKCSHSFNLLDARKAISVTERQRYILRIRNLAKGVAEAYYEQREALGFPLCK 292 (293)
T ss_pred HHHHHHHhhHhhccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccC
Confidence 9999999999999999999999999999999999999999999999999964
No 7
>COG0752 GlyQ Glycyl-tRNA synthetase, alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.2e-162 Score=1259.77 Aligned_cols=291 Identities=60% Similarity=1.053 Sum_probs=288.5
Q ss_pred CCcchHHHHHHHHHHHHhhcCceeeeccccccccccCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeee
Q 001359 71 ASVPTFQQAIQRLQEYWASVGCSVMQCSNTEVGAGTMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQF 150 (1092)
Q Consensus 71 ~~~~~~q~~i~~l~~~w~~~gc~~~~p~~~e~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~ 150 (1092)
+++||||+||++||+||++|||+|+||||+|||||||||+||||+||||||++|||||||||+|||||||||||||||||
T Consensus 2 ~~~~~fQ~~IltLq~yW~~qGC~i~QpyD~evGAGT~hPaTfLralGpePw~aAYVqPSRRP~DGRYGenPNRlq~yyQf 81 (298)
T COG0752 2 NKKLTFQGLILTLQNYWAEQGCTILQPYDMEVGAGTFHPATFLRALGPEPWNAAYVQPSRRPTDGRYGENPNRLQHYYQF 81 (298)
T ss_pred CccccHHHHHHHHHHHHHHcCCEEecccccccccCcCChHHHHHhcCCCccceeeeccCCCCCCCCCCCCchhhhhheeE
Confidence 34699999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEcCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccceeeecCeeeeeeehhhhcCCcccCcceeee
Q 001359 151 QVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQFTYFQQAGSLQLSPVSVEI 230 (1092)
Q Consensus 151 qvi~kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwevw~~gmeitqftyfqq~gg~~~~~~~~ei 230 (1092)
||||||||+|||||||+||++||||+++||||||||||||||||||||||||||||||||||||||||||++|+||++||
T Consensus 82 QVilKPsP~NiQeLYL~SL~~lGid~~~HDIRFVEDnWE~PTlGawGlGWEVWldGMEvTQFTYFQQvGGiec~pV~~EI 161 (298)
T COG0752 82 QVIIKPSPDNIQELYLGSLEALGIDPLEHDIRFVEDNWENPTLGAWGLGWEVWLDGMEVTQFTYFQQVGGLECKPVSGEI 161 (298)
T ss_pred EEEecCCCccHHHHHHHHHHHcCCChhhcceeeeccCCCCCcccccccceeEEEcCeeeeeeehhhhhCCeeccceeeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHhCCCccceeeeCCC----CceecccccchhhhhccccccCCHHHHHHHHHHHHHHHHHHHHcCCCcchh
Q 001359 231 TYGLERILMLLQGVDHFKKIQYADG----ITYGELFLENEKEMSAYYLEHANVHHLQKQFDFFEEESRSLLASGLAIPAY 306 (1092)
Q Consensus 231 tygleri~m~~q~~~~~~~~~~~~~----~~yg~~~~~~e~e~s~y~~~~~~~~~~~~~f~~~~~e~~~~~~~~l~~pay 306 (1092)
||||||||||||+|||||||.||++ +||||||+|+|+|+|+||||+||++||+++|++||+||++|++.||++|||
T Consensus 162 TYGlERlAmYiQ~vdnVydl~W~~~~~~~~tYgdvf~q~E~e~S~ynFE~ad~~~L~~~F~~~e~Ea~~ll~~~L~lPAY 241 (298)
T COG0752 162 TYGLERLAMYIQGVDNVYDLEWNDGPGGKVTYGDVFLQNEVEQSKYNFEYADVDMLFRHFDDYEKEAKRLLELGLVLPAY 241 (298)
T ss_pred ehhHHHHHHHHhCccceeEEeecCCCCCceehhhhhhhhHHHhhhhccccCCHHHHHHHHHHHHHHHHHHHHcCCCcchH
Confidence 9999999999999999999999998 999999999999999999999999999999999999999999999999999
Q ss_pred hhHHhhhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 001359 307 DQLLKTSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRKSLGHPLGI 361 (1092)
Q Consensus 307 ~~~lk~sh~fn~ldar~~~~~~er~~~~~~~r~l~~~~~~~~~~~~~~~~~~~~~ 361 (1092)
|+||||||+|||||||||||||||++||+|||+|||+||++|+++|+++|||++.
T Consensus 242 d~vlKasH~FNlLDARgaISVtER~~YI~RiR~Lar~~a~~y~e~r~~lgfp~~~ 296 (298)
T COG0752 242 DYVLKASHTFNLLDARGAISVTERQRYILRIRNLARAVAEAYLESREALGFPLLK 296 (298)
T ss_pred HHHHHhhhhhhhhccccceeehHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccc
Confidence 9999999999999999999999999999999999999999999999999999976
No 8
>PRK09348 glyQ glycyl-tRNA synthetase subunit alpha; Validated
Probab=100.00 E-value=9.5e-161 Score=1257.25 Aligned_cols=282 Identities=62% Similarity=1.078 Sum_probs=279.9
Q ss_pred CcchHHHHHHHHHHHHhhcCceeeeccccccccccCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeE
Q 001359 72 SVPTFQQAIQRLQEYWASVGCSVMQCSNTEVGAGTMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQ 151 (1092)
Q Consensus 72 ~~~~~q~~i~~l~~~w~~~gc~~~~p~~~e~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~q 151 (1092)
.+|||||||++||+||+++||+|+||||+|||||||||+||||+||||||+||||||||||+||||||||||||||||||
T Consensus 2 ~~~~fQ~iI~~Lq~fWa~~GC~i~qPyD~EvGAGT~~P~Tflr~Lgpepw~vaYvqPsRRP~DGRYGeNPNRLq~y~QfQ 81 (283)
T PRK09348 2 KKMTFQDIILTLQDYWADQGCVILQPYDMEVGAGTFHPATFLRALGPEPWNAAYVQPSRRPTDGRYGENPNRLQHYYQFQ 81 (283)
T ss_pred CCCcHHHHHHHHHHHHHHCCCEEECCcccccccccCCHHHHHHhcCCCccccccccCCCCCCCCCcCCCchhhhhheeeE
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEcCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccceeeecCeeeeeeehhhhcCCcccCcceeeeh
Q 001359 152 VILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQFTYFQQAGSLQLSPVSVEIT 231 (1092)
Q Consensus 152 vi~kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwevw~~gmeitqftyfqq~gg~~~~~~~~eit 231 (1092)
|||||||+|+|+|||+||++||||+++||||||||||||||||||||||||||||||||||||||||||++|+||++|||
T Consensus 82 VilKPsP~niQelYL~SL~~lGid~~~hDIRFVEDnWEsPTLGAwGlGWEVWldGMEITQFTYFQQvGGi~~~pv~~EIT 161 (283)
T PRK09348 82 VILKPSPDNIQELYLGSLEALGIDPLEHDIRFVEDNWESPTLGAWGLGWEVWLDGMEVTQFTYFQQVGGIECKPVTGEIT 161 (283)
T ss_pred EEEcCCCccHHHHHHHHHHHhCCCccccceeEeecCCCCCcccccccceEEEECCeeeeeeeeeeeeCCeeccccceeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHhCCCccceeeeCCCCceecccccchhhhhccccccCCHHHHHHHHHHHHHHHHHHHHcCCCcchhhhHHh
Q 001359 232 YGLERILMLLQGVDHFKKIQYADGITYGELFLENEKEMSAYYLEHANVHHLQKQFDFFEEESRSLLASGLAIPAYDQLLK 311 (1092)
Q Consensus 232 ygleri~m~~q~~~~~~~~~~~~~~~yg~~~~~~e~e~s~y~~~~~~~~~~~~~f~~~~~e~~~~~~~~l~~pay~~~lk 311 (1092)
|||||||||||+|||||||.||+++||||||+++|+|||+||||+||+++|+++|++||+||++|++++|++||||+|||
T Consensus 162 YGLERiamylQ~vd~v~dl~w~~~~tYgdv~~~~E~e~S~ynFe~ad~~~l~~~F~~~e~e~~~ll~~~L~lPAYd~~lK 241 (283)
T PRK09348 162 YGLERLAMYLQGVDNVYDLVWNDGVTYGDVFLQNEVEQSKYNFEHADVEMLFKLFDDYEKEAKRLLEKGLPLPAYDYVLK 241 (283)
T ss_pred hhHHHHHHHHhCCCceeeeecCCCCceeeeccccHHHHhHhcccccCHHHHHHHHHHHHHHHHHHHHcCCCcchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 001359 312 TSHAFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRK 353 (1092)
Q Consensus 312 ~sh~fn~ldar~~~~~~er~~~~~~~r~l~~~~~~~~~~~~~ 353 (1092)
|||+|||||||||||||||++||+|||+|||.||++|+++|+
T Consensus 242 ~SH~FNlLDARgaIsvtER~~yI~rvR~la~~~a~~y~~~~~ 283 (283)
T PRK09348 242 ASHTFNLLDARGAISVTERQRYILRIRNLARAVAEAYLESRE 283 (283)
T ss_pred HHHHHHhHhhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 999999999999999999999999999999999999999884
No 9
>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=4.8e-160 Score=1250.05 Aligned_cols=279 Identities=62% Similarity=1.084 Sum_probs=277.8
Q ss_pred hHHHHHHHHHHHHhhcCceeeeccccccccccCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeEEEE
Q 001359 75 TFQQAIQRLQEYWASVGCSVMQCSNTEVGAGTMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVIL 154 (1092)
Q Consensus 75 ~~q~~i~~l~~~w~~~gc~~~~p~~~e~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~ 154 (1092)
||||||++||+||+++||+|+||||+|||||||||+||||+||||||+||||||||||+|||||||||||||||||||||
T Consensus 1 ~fQ~iI~~Lq~fW~~~GC~i~qPyD~EvGAGT~hPaTflr~Lgpepw~vAYVqPsrRP~DGRYGeNPNRLq~y~QfQVii 80 (279)
T cd00733 1 TFQDLILKLQKFWASQGCLIIQPYDMEVGAGTFHPATFLRALGPEPWNVAYVEPSRRPTDGRYGENPNRLQHYYQFQVII 80 (279)
T ss_pred CHHHHHHHHHHHHHHCCCEEEcCcccccccccCCHHHHHHhcCCCcceeccccCCCCCCCCCcCCCchhhhhheeeEEEE
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccceeeecCeeeeeeehhhhcCCcccCcceeeehhhh
Q 001359 155 KPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQFTYFQQAGSLQLSPVSVEITYGL 234 (1092)
Q Consensus 155 kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwevw~~gmeitqftyfqq~gg~~~~~~~~eitygl 234 (1092)
||||+|+|+|||+||++||||+++||||||||||||||||||||||||||||||||||||||||||++|+||++||||||
T Consensus 81 KPsP~niQelYL~SL~~lGid~~~hDIRFVEDnWEsPTLGAwGLGWEVWldGMEITQFTYFQQvGGi~~~pv~~EiTYGL 160 (279)
T cd00733 81 KPSPDNIQELYLESLEALGINPKEHDIRFVEDNWESPTLGAWGLGWEVWLDGMEVTQFTYFQQVGGIPCKPISVEITYGL 160 (279)
T ss_pred CCCCccHHHHHHHHHHHhCCCccccCeeEeecCCCCCcccccccccEEEECCeeeeeeeeeeeeCCeeccccceeeehhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCccceeeeCCCCceecccccchhhhhccccccCCHHHHHHHHHHHHHHHHHHHHcCCCcchhhhHHhhhh
Q 001359 235 ERILMLLQGVDHFKKIQYADGITYGELFLENEKEMSAYYLEHANVHHLQKQFDFFEEESRSLLASGLAIPAYDQLLKTSH 314 (1092)
Q Consensus 235 eri~m~~q~~~~~~~~~~~~~~~yg~~~~~~e~e~s~y~~~~~~~~~~~~~f~~~~~e~~~~~~~~l~~pay~~~lk~sh 314 (1092)
||||||||+|||||||.||++|||||||+|+|+|||+||||+||+++|+++|++||+||++|++++|++||||+||||||
T Consensus 161 ERiamylQ~vd~v~dl~w~~~vtYgdvf~~~E~e~S~ynFe~ad~~~l~~~F~~~e~e~~~ll~~~L~lPAYd~~lk~sH 240 (279)
T cd00733 161 ERIAMYLQGVDNVYDIEWNKKITYGDVFLQNEIEQSVYNFEYANVDMLFQLFEDYEKEAKRLLELGLPLPAYDYVLKCSH 240 (279)
T ss_pred HHHHHHHhCCCceeccccCCCCchhhhccccHHHHhHhccccCCHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHh
Q 001359 315 AFNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRK 353 (1092)
Q Consensus 315 ~fn~ldar~~~~~~er~~~~~~~r~l~~~~~~~~~~~~~ 353 (1092)
+|||||||||||||||++||+|||+|||+||++|+++|+
T Consensus 241 ~FNlLDARgaIsvteR~~yI~riR~la~~~a~~y~~~r~ 279 (279)
T cd00733 241 TFNLLDARGAISVTERQRYILRIRNLAREIAKLYVEQRE 279 (279)
T ss_pred HHHhHhhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 999999999999999999999999999999999999885
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=8.4e-160 Score=1255.63 Aligned_cols=284 Identities=63% Similarity=1.125 Sum_probs=248.8
Q ss_pred HHHHHHHHHHHHhhcCceeeeccccccccccCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeEEEEc
Q 001359 76 FQQAIQRLQEYWASVGCSVMQCSNTEVGAGTMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVILK 155 (1092)
Q Consensus 76 ~q~~i~~l~~~w~~~gc~~~~p~~~e~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~k 155 (1092)
|||||++||+||+++||+|+||||+|||||||||+||||+||||||+||||||||||+||||||||||||||||||||||
T Consensus 1 fQ~iI~~Lq~fW~~~GC~i~qPyD~evGAGT~~P~Tflr~Lgpepw~vaYVqPsrRP~DGRYGeNPNRLq~y~QfQVilK 80 (284)
T PF02091_consen 1 FQDIILTLQKFWADQGCIILQPYDIEVGAGTFHPATFLRALGPEPWNVAYVQPSRRPTDGRYGENPNRLQHYYQFQVILK 80 (284)
T ss_dssp HHHHHHHHHHHHHCTT-EE----SS--SSGGGSHHHHTTTSSSS-EEEEEEEEEE-GGG--TTTSSS--SEEEEEEEEEE
T ss_pred CHHHHHHHHHHHHHCCCEEECCcccccccccCCHHHHHHhcCCCCccccccccCCCCCCCccCCCchHhhhhheeEEEEc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccceeeecCeeeeeeehhhhcCCcccCcceeeehhhhH
Q 001359 156 PDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQFTYFQQAGSLQLSPVSVEITYGLE 235 (1092)
Q Consensus 156 p~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwevw~~gmeitqftyfqq~gg~~~~~~~~eitygle 235 (1092)
|||+|+|+|||+||++||||+++|||||||||||||||||||||||||||||||||||||||+||++|+|||+|||||||
T Consensus 81 PsP~niq~lYL~SL~~lGId~~~hDIRFVEDnWEsPtLGAwGlGWEVWldGMEITQfTYFQQvGGi~~~pv~~EITYGLE 160 (284)
T PF02091_consen 81 PSPDNIQELYLESLEALGIDPKEHDIRFVEDNWESPTLGAWGLGWEVWLDGMEITQFTYFQQVGGIDCKPVSVEITYGLE 160 (284)
T ss_dssp S--TTHHHHHHHHHHHCT--CCCS-EEEEEE-EEETTTTEEEEEEEEEETTCEEEEEEEEEEETTEE-SS--EEEEEEHH
T ss_pred CCCccHHHHHHHHHHHhCCCccccceeEeecCCCCCcccccccccEEEECCEEEEEeeeeeeeCCccccccceehhhhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCccceeeeCCCCceecccccchhhhhccccccCCHHHHHHHHHHHHHHHHHHHHcCCCcchhhhHHhhhhc
Q 001359 236 RILMLLQGVDHFKKIQYADGITYGELFLENEKEMSAYYLEHANVHHLQKQFDFFEEESRSLLASGLAIPAYDQLLKTSHA 315 (1092)
Q Consensus 236 ri~m~~q~~~~~~~~~~~~~~~yg~~~~~~e~e~s~y~~~~~~~~~~~~~f~~~~~e~~~~~~~~l~~pay~~~lk~sh~ 315 (1092)
|||||||+|||||||.||++|||||||+++|+|+|+||||+||+++|+++|+.||+||++|++++|++||||+||||||+
T Consensus 161 RiamylQ~vdnv~dl~w~~~vtYgdif~~~E~e~S~ynFe~ad~~~l~~~F~~~e~E~~~li~~~L~lpaYd~~lK~sH~ 240 (284)
T PF02091_consen 161 RIAMYLQGVDNVYDLIWNDGVTYGDIFLQNEVEFSKYNFEHADVDMLFKLFDDYEKEAKRLIELGLPLPAYDYVLKCSHT 240 (284)
T ss_dssp HHHHHHCT-SSGGGSEEEEEEEHHHHHHHHHHHHHHHHHHTS-HHHHHHHHHHHHHHHHHHHCTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHhCCCeeEeeeecCCcchhhhcchhHHHHHhhcchhcCHHHHHHHHHHHHHHHHHHhccCCCccHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 001359 316 FNILDSRGFVGVTERARYFGRMRSLARQCAQLWLKTRKSLGHPL 359 (1092)
Q Consensus 316 fn~ldar~~~~~~er~~~~~~~r~l~~~~~~~~~~~~~~~~~~~ 359 (1092)
|||||||||||||||++||+|||+|||+||++|+++|+++||||
T Consensus 241 FNlLDARgaisvtER~~yi~riR~la~~~a~~y~~~re~lgfPL 284 (284)
T PF02091_consen 241 FNLLDARGAISVTERQNYIGRIRNLAKACAEAYLEQREELGFPL 284 (284)
T ss_dssp HHHHHHTT---HHHHHHHHHHHHHHHHHHHHHHHHHH-------
T ss_pred HHHHhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 99999999999999999999999999999999999999999997
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=99.18 E-value=6e-11 Score=119.97 Aligned_cols=109 Identities=17% Similarity=0.157 Sum_probs=83.2
Q ss_pred CChHHHHHHHhhhhhhccCCCC-CC-cCCCCcccCCCHHHHHHHHHHHHHhhhcCC---CCCHHHHHHHHhhhchHHhhh
Q 001359 956 QLFPKVVEAYSRPTRIVRGKDV-DT-ALEVDETAFETIEEKALWTVYLSAKNKIHP---GINVDDFIEISSELVQPLEDF 1030 (1092)
Q Consensus 956 ~~f~~l~~a~KRv~NIlkk~~~-~~-~~~vd~~ll~e~~E~~L~~a~~~~~~~~~~---~~~~~~~~~~l~~L~~~Id~F 1030 (1092)
....-+..+|+|+.||++|.+. .. ...+|+++|++++|++|+..+....+.+.. ..++...+..+.+|.++++.|
T Consensus 34 ~~~~yi~ya~aRi~nIl~k~~~~~~~~~~~~~~ll~~~~E~~L~~~l~~~~~~i~~~~~~~~~~~l~~~l~~L~~~~~~f 113 (156)
T cd07956 34 DTGPYLQYAHARLCSILRKAGETIEAEADADLSLLPEPDERDLILLLAKFPEVVKNAAETLEPHTIATYLFDLAHAFSKF 113 (156)
T ss_pred CCchhHHHHHHHHHHHHHhCCCcCccccccchhhcCCHHHHHHHHHHHHhHHHHHHHHHHcCcHHHHHHHHHHHHHHHHH
Confidence 3566899999999999997542 11 135899999999999999999888554432 356888889999999999999
Q ss_pred hccccccCCCHHHHhhhhhhHHhhHHHHHHHHhhhccch
Q 001359 1031 FNHVFVMVKKESERTGLRCSRKLQTFQKALWICRFCLDF 1069 (1092)
Q Consensus 1031 FD~VmVm~eD~~IR~N~~Ll~~L~ll~~i~~~f~~vaDf 1069 (1092)
||+||||++|+++|+| ||. +++.+...+..++++
T Consensus 114 fd~v~V~~~~~~i~~n-RL~----Ll~~v~~vl~~~l~l 147 (156)
T cd07956 114 YNACPVLGAEEELRNA-RLA----LVAAARQVLANGLDL 147 (156)
T ss_pred HhcCcccCCCHHHHHH-HHH----HHHHHHHHHHHHHHh
Confidence 9999999999999999 322 333333455555444
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=99.02 E-value=4.1e-10 Score=108.73 Aligned_cols=101 Identities=17% Similarity=0.193 Sum_probs=76.9
Q ss_pred HHhhhhhhccCCCC-C-C-c--CCCCcccCCCHHHHHHHHHHHHHhhhcCC---CCCHHHHHHHHhhhchHHhhhhcccc
Q 001359 964 AYSRPTRIVRGKDV-D-T-A--LEVDETAFETIEEKALWTVYLSAKNKIHP---GINVDDFIEISSELVQPLEDFFNHVF 1035 (1092)
Q Consensus 964 a~KRv~NIlkk~~~-~-~-~--~~vd~~ll~e~~E~~L~~a~~~~~~~~~~---~~~~~~~~~~l~~L~~~Id~FFD~Vm 1035 (1092)
+|+|+.||++|.+. . . . ..+|.++|++++|++|+..+....+.+.. ..++......+.+|.+++++|||+|+
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 78999999997432 1 1 1 24788999999999999999888654432 34577788899999999999999999
Q ss_pred ccCCC-HHHHhhhhhhHHhhHHHHHHHHhhhccch
Q 001359 1036 VMVKK-ESERTGLRCSRKLQTFQKALWICRFCLDF 1069 (1092)
Q Consensus 1036 Vm~eD-~~IR~N~~Ll~~L~ll~~i~~~f~~vaDf 1069 (1092)
||++| +++|+| || .++..+...+..++|+
T Consensus 84 V~~~~~~~~~~~-RL----~Ll~~~~~~l~~~~~l 113 (122)
T smart00836 84 VLGEENPELRAA-RL----ALLKAVRQVLANGLRL 113 (122)
T ss_pred ccCCCCHHHHHH-HH----HHHHHHHHHHHHHHHH
Confidence 99998 999999 22 2344444566666654
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=98.63 E-value=2.4e-08 Score=95.78 Aligned_cols=111 Identities=21% Similarity=0.280 Sum_probs=72.7
Q ss_pred HHHHHhhhhhhccCCCCCC-cCCCCccc-CCCHHHHHHHHHHHHHhhhcCC---CCCHHHHHHHHhhhchHHhhhhcccc
Q 001359 961 VVEAYSRPTRIVRGKDVDT-ALEVDETA-FETIEEKALWTVYLSAKNKIHP---GINVDDFIEISSELVQPLEDFFNHVF 1035 (1092)
Q Consensus 961 l~~a~KRv~NIlkk~~~~~-~~~vd~~l-l~e~~E~~L~~a~~~~~~~~~~---~~~~~~~~~~l~~L~~~Id~FFD~Vm 1035 (1092)
+.-+|+|+.||++|.+... ....+... +++++|++|++.+......+.. ..++......+.+|.+.++.|||+|+
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 3468999999999754321 12233333 5899999999999777554433 24577778889999999999999999
Q ss_pred ccCCCHHHH-hhhhhhHHhhHHHHHHHHhhhccchHHHH
Q 001359 1036 VMVKKESER-TGLRCSRKLQTFQKALWICRFCLDFNSIQ 1073 (1092)
Q Consensus 1036 Vm~eD~~IR-~N~~Ll~~L~ll~~i~~~f~~vaDfskL~ 1073 (1092)
||++|+.+| +| ||. ++..++.+......++..+.++
T Consensus 81 I~~~~~~~~~~~-RL~-Ll~~v~~vl~~~l~llgi~~~~ 117 (119)
T PF05746_consen 81 ILDEDEEIRKNN-RLA-LLKAVRQVLKNGLDLLGIEPLE 117 (119)
T ss_dssp STTSTTCHH-HH-HHH-HHHHHHHHHHHHHHHTT----S
T ss_pred ccccchHHHHHH-HHH-HHHHHHHHHHHHHHHcCCCccc
Confidence 999999999 77 332 3444444444444445554443
No 14
>cd00768 class_II_aaRS-like_core Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ.
Probab=96.97 E-value=0.0015 Score=67.52 Aligned_cols=115 Identities=31% Similarity=0.397 Sum_probs=84.0
Q ss_pred CCCcceEEeecCCCCCCCCCCCCCCccccceeeeEEEEcCCC-------cchHHHHHHHHHhcCCCCCCCceeEecCCCC
Q 001359 117 GPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDP-------GNSQDLFIRSLSALGIDVTEHDIRFVEDNWE 189 (1092)
Q Consensus 117 ~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p-------~~~q~lyl~sl~~~gi~~~~hdirfved~we 189 (1092)
+..|.++.|+.++.|+.++..+ +.|++.+.|.-+.+--.+ .++..++-..|+.+|+ .++++|+.+.+.
T Consensus 72 ~~~~~~lfeig~vfr~e~~~~~--~~~~~ef~~l~~~~~g~~~~~~~~~~~~~~~~~~~l~~lg~---~~~~~~~~~~~~ 146 (211)
T cd00768 72 RKLPLRLAEIGPAFRNEGGRRG--LRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRALGI---KLDIVFVEKTPG 146 (211)
T ss_pred ccCCEEEEEEcceeecCCCccc--cccceeEEEcCEEEEcCCchhHHHHHHHHHHHHHHHHHcCC---CcceEEEecCch
Confidence 4589999999999999765333 578888888777766544 4577788899999997 346788866543
Q ss_pred Cccc-ccccccceeeec-----CeeeeeeehhhhcC------------CcccCcceeeehhhhHHH
Q 001359 190 SPVL-GAWGLGWEIWMD-----GMEITQFTYFQQAG------------SLQLSPVSVEITYGLERI 237 (1092)
Q Consensus 190 ~p~l-gawglgwevw~~-----gmeitqftyfqq~g------------g~~~~~~~~eitygleri 237 (1092)
+ -. +.+|..++|+++ |.||..+.+..+.. +..-.|++...|.|+||+
T Consensus 147 ~-~~~~~~g~~~~i~~~~~~~~~~eig~~g~~~~~~~~~~~l~~~~~~~~~~~p~~~~~~~~~~R~ 211 (211)
T cd00768 147 E-FSPGGAGPGFEIEVDHPEGRGLEIGSGGYRQDEQARAADLYFLDEALEYRYPPTIGFGLGLERL 211 (211)
T ss_pred h-hccccCCceEEEEEEccCCCeEEEeeceeecCchhHhhhhheecccccccCceeecCccCccCC
Confidence 2 23 589999999999 99988766553322 222357777778888874
No 15
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=96.91 E-value=0.0062 Score=77.85 Aligned_cols=249 Identities=20% Similarity=0.335 Sum_probs=149.5
Q ss_pred cchHHHHHHHHHHHHhhcCceeeecccccc---------ccc--cCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCCC
Q 001359 73 VPTFQQAIQRLQEYWASVGCSVMQCSNTEV---------GAG--TMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGENP 141 (1092)
Q Consensus 73 ~~~~q~~i~~l~~~w~~~gc~~~~p~~~e~---------gag--t~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~np 141 (1092)
.||..+|-.+--+|..++|+.+..+|..=- .|| .|-|.-.....-|..=+++=.|||.|=.|= ||=
T Consensus 58 ~~~~~eiR~~Fl~FF~~~gH~~v~s~pvvprw~dDllft~Agm~~Fkp~f~~G~~~pp~~~~~~sQ~CiR~nDl---dnV 134 (900)
T PRK13902 58 KYTLKEMREKFLSFFEKHGHTRIERYPVVARWRDDVYLTIASIYDFQPWVTSGLVPPPANPLVISQPCIRLNDI---DNV 134 (900)
T ss_pred CCCHHHHHHHHHHHHHhCCCEEcCCcCcCCCCCCCeeeeecchhhhhHHhcCCCCCCCCCCceecccccchhhh---hhc
Confidence 389999999999999999999999885433 455 344443223433433578999999998773 222
Q ss_pred cc-ccceeeeEEEEcCCCc----------chHHHHHHHHHh-cCCCCCCCceeEecCCCCCcccccccccceeeecCeee
Q 001359 142 NR-LQRHTQFQVILKPDPG----------NSQDLFIRSLSA-LGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEI 209 (1092)
Q Consensus 142 nr-l~~~~q~qvi~kp~p~----------~~q~lyl~sl~~-~gi~~~~hdirfved~we~p~lgawglgwevw~~gmei 209 (1092)
=| -.||+=|-.+=-=|-+ ...++=-+=|.. ||||+ +.|.|.|+=|+-= |--|==-||-..|+||
T Consensus 135 G~t~rH~T~FEMlGn~sFg~~~~~~YfK~eaI~~a~e~lt~~lgi~~--~~I~~~enfW~~G--GpcGPcsEi~~~glEi 210 (900)
T PRK13902 135 GRTGRHLTSFEMMAHHAFNYPDKEVYWKDETVEYCFEFFTKELGIDP--EEITFKESWWEGG--GNAGPCFEVLVRGLEL 210 (900)
T ss_pred cccCCchhhhhhccceeeCCCCcccccHHHHHHHHHHHHHhhcCCCH--HHeeecccccCCC--CCCCCceeeeeCCEEe
Confidence 22 2466666655443333 122222333433 99998 6799976666644 8888888999999998
Q ss_pred eeeehhh--hcCCcccCc---ceeeehhhhHHHHHHHhCCCccceeeeCC---------CCceec--ccccchhhhhccc
Q 001359 210 TQFTYFQ--QAGSLQLSP---VSVEITYGLERILMLLQGVDHFKKIQYAD---------GITYGE--LFLENEKEMSAYY 273 (1092)
Q Consensus 210 tqftyfq--q~gg~~~~~---~~~eitygleri~m~~q~~~~~~~~~~~~---------~~~yg~--~~~~~e~e~s~y~ 273 (1092)
-=.-++| +.+| .+.| -++---|||||||+.+||+.++||..+.+ |+.|++ |..++-+=....+
T Consensus 211 wnlVFmqy~~~~g-~~~~Lp~k~VDTG~GLER~~~v~qg~~t~ydt~f~~ii~~i~~~~g~~~~~~~~~~~~~~~~g~~~ 289 (900)
T PRK13902 211 ATLVFMQYKKDGN-RYVEMPLKIVDTGYGLERIAWASQGTPTAYDAIFGELVDKLKENAGVEEPDEEILAEAARLAGLMD 289 (900)
T ss_pred eeeeeeEEEcCCC-eeeeCCCCeeeCCcCHHHHHHHHcCCCchHHHHHHHHHHHHHHHhCCCcccchhhhhhhhhcccCC
Confidence 4322222 2244 3444 34555699999999999999999997776 677764 4433333222222
Q ss_pred cccCCHHHHHHHHHHH-------HHHHHHHHHcCCCcchhhhHHhhhhc--cccccccCCcchhhhhhHHHH
Q 001359 274 LEHANVHHLQKQFDFF-------EEESRSLLASGLAIPAYDQLLKTSHA--FNILDSRGFVGVTERARYFGR 336 (1092)
Q Consensus 274 ~~~~~~~~~~~~f~~~-------~~e~~~~~~~~l~~pay~~~lk~sh~--fn~ldar~~~~~~er~~~~~~ 336 (1092)
. .+++.+..+++.- .+|-.++++.. -++ -.=|-|+ .-.+=|-|++--++-..|+.|
T Consensus 290 ~--~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~--~vIaDH~R~~~f~i~DGv~PsN~grGYvlR 354 (900)
T PRK13902 290 I--EEIEDLRSLRQKVAKKLGIDVEELEELLEPL---EAI--YAIADHTRTLAFMLGDGIVPSNVGEGYLAR 354 (900)
T ss_pred c--ccchhHHHHHHHHHhhcccchhhhhhhcccc---ceE--EEEecHHHHHHHHHhCCCcCCCCCcchHHH
Confidence 2 2333333333321 12333333221 111 0012221 112346699999999999875
No 16
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=96.62 E-value=0.0035 Score=76.55 Aligned_cols=169 Identities=23% Similarity=0.315 Sum_probs=96.2
Q ss_pred chHHHHHHHHHHHHhhcCceeeecccc---------ccccc--cCCHHHHhhhcCCCcceEEeecCCCCCCCC-CCCCCC
Q 001359 74 PTFQQAIQRLQEYWASVGCSVMQCSNT---------EVGAG--TMNPLTFLRVLGPEPWNVAYVEPSIRPDDS-RYGENP 141 (1092)
Q Consensus 74 ~~~q~~i~~l~~~w~~~gc~~~~p~~~---------e~gag--t~~p~t~~~~l~~~~~~~ayv~p~~rp~d~-ryg~np 141 (1092)
||-.+|-.+--+|..++|+.++.++.. -+.|| .|-|. |+..--|.--+++=.|+|.|=.|= .=| .
T Consensus 1 ~~~~eiR~~fl~FF~~kgH~~~~s~slvp~~d~tllftnAGm~~fk~~-f~G~~~p~~~r~~~~QkCiR~~Dle~VG-~- 77 (594)
T PRK01584 1 MTLDELRKKYIDFFKSKGHVEIAGKSLIPENDPTVLFTTAGMHPLVPY-LLGEPHPSGTRLVDVQKCLRTGDIDEVG-D- 77 (594)
T ss_pred CCHHHHHHHHHHHHHhCCCEEcCCCCcCCCCCCCeeeeccchhhhhHH-hcCCCCCCCCCccccccccccccccccC-C-
Confidence 456788888889999999998876543 23444 34443 332222333568999999998772 123 1
Q ss_pred ccccceeeeEEEEcCCCcc----------------------------------------hHHHHHHHHHhcCCCCCCCce
Q 001359 142 NRLQRHTQFQVILKPDPGN----------------------------------------SQDLFIRSLSALGIDVTEHDI 181 (1092)
Q Consensus 142 nrl~~~~q~qvi~kp~p~~----------------------------------------~q~lyl~sl~~~gi~~~~hdi 181 (1092)
+| ||+=|..+=-=|-++ =+|-|===++ +|+.. +| |
T Consensus 78 ~r--HhTfFEMlGnfSfgdYfK~eai~~awe~lt~~~~l~l~~~rl~vTv~~~~~~~~~D~Ea~~iW~~-~g~~~-~r-I 152 (594)
T PRK01584 78 LS--HLTFFEMLGNWSLGAYFKEESIKYSFEFLTSPDYLNIPKDKLYVTVFEGDEEIPRDEETASVWES-LGIPK-DR-I 152 (594)
T ss_pred Cc--chhHHHhhccccHhhhhHHHHHHHHHHHhccchhcCCCHHHeEEEEeCCCCCCCCCHHHHHHHHH-cCCCH-HH-e
Confidence 22 555444332222222 0111111112 45432 22 5
Q ss_pred eEe--cCCCCC--cccccccccceeeec------------------Ceeeeeeehhh---hcCC--cccCcceeeehhhh
Q 001359 182 RFV--EDNWES--PVLGAWGLGWEIWMD------------------GMEITQFTYFQ---QAGS--LQLSPVSVEITYGL 234 (1092)
Q Consensus 182 rfv--ed~we~--p~lgawglgwevw~~------------------gmeitqftyfq---q~gg--~~~~~~~~eitygl 234 (1092)
-+. +|||=. =--|--|==-||-.| ++||==.-+.| ..+| .+|.--++---+||
T Consensus 153 ~~~~~~dNfW~~~G~~GPCGPcsEI~~d~g~~~~~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp~k~IDTGmGL 232 (594)
T PRK01584 153 FYLSREHNWWGPVGETGPCGPDTEIFVDTGKPKCSVNCRPTCSCGKYFEIWNNVFMQYNKDEDGNYEELKRKCVDTGMGI 232 (594)
T ss_pred eeCCCCCCcccccCCCcCCCCceEEEEecCCcccccccCCCCCCCceEEEeeeeeeeeeecCCCccccCCCCceeCCcCH
Confidence 444 677641 112444433777777 37775444433 2344 34555556667999
Q ss_pred HHHHHHHhCCCcccee
Q 001359 235 ERILMLLQGVDHFKKI 250 (1092)
Q Consensus 235 eri~m~~q~~~~~~~~ 250 (1092)
|||++.|||+.|+||.
T Consensus 233 ERl~~vlqg~~s~ydt 248 (594)
T PRK01584 233 ERTIAFLQGKSSVYDT 248 (594)
T ss_pred HHHHHHHcCCCCccch
Confidence 9999999999999998
No 17
>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=96.56 E-value=0.013 Score=74.98 Aligned_cols=176 Identities=21% Similarity=0.357 Sum_probs=120.1
Q ss_pred CcchHHHHHHHHHHHHhhcCceeeecccccc---------ccc--cCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCC
Q 001359 72 SVPTFQQAIQRLQEYWASVGCSVMQCSNTEV---------GAG--TMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGEN 140 (1092)
Q Consensus 72 ~~~~~q~~i~~l~~~w~~~gc~~~~p~~~e~---------gag--t~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~n 140 (1092)
..||-.+|-.+--+|..++|+.+..+|..=- .|| .|-|.-....-.|..=+++=.|||.|=.|= ||
T Consensus 54 ~~~~~~eiR~~fl~FF~~~gH~~v~s~pvvprw~dDllft~Agm~~Fkp~f~~G~~~pp~~r~~~sQkCiR~nDl---dn 130 (902)
T TIGR03683 54 KKYTLDEMREAFLSFFEKHGHTRIKRYPVVARWRDDVYLTIASIADFQPWVTSGLVPPPANPLVISQPCIRLNDI---DN 130 (902)
T ss_pred CCCCHHHHHHHHHHHHHhCCCEEeCCcCcCcCCCCCeeEeecchhhhhHhhcCCCCCCCCCCceecccccccccc---cc
Confidence 3488999999999999999999999885432 555 344443224444433568999999999773 23
Q ss_pred Ccc-ccceeeeEEEEcCCCcc----------hHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccceeeecCeee
Q 001359 141 PNR-LQRHTQFQVILKPDPGN----------SQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEI 209 (1092)
Q Consensus 141 pnr-l~~~~q~qvi~kp~p~~----------~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwevw~~gmei 209 (1092)
==| -+||+=|..+=-=|-+. ..++=-+=|+.|||+ .+.|.|.|+=|+-= |--|==-||-..|+||
T Consensus 131 VG~t~rH~TfFEMlGn~sFg~~~~~dYfK~EaI~~a~e~l~~lgi~--~~~i~~~enfW~~G--GpcGPcsEi~~~glEi 206 (902)
T TIGR03683 131 VGRTGRHLTCFEMMAHHAFNYPDKEIYWKDETVEYCFEFLEELGID--PEEITYKESPWEGG--GNAGPCFEVIVGGLEL 206 (902)
T ss_pred ccCCCCcchhhhhccceeeCCCCcccCcHHHHHHHHHHHHHHcCCC--HHHeeecCCccCCC--CCCCCceeeeeCcEee
Confidence 222 25777676655444441 222223344668984 45688866666544 8888889999999999
Q ss_pred eeeehhhhc----------CCc--ccCcceeeehhhhHHHHHHHhCCCccceeeeCC
Q 001359 210 TQFTYFQQA----------GSL--QLSPVSVEITYGLERILMLLQGVDHFKKIQYAD 254 (1092)
Q Consensus 210 tqftyfqq~----------gg~--~~~~~~~eitygleri~m~~q~~~~~~~~~~~~ 254 (1092)
-=.-++|-- +|. ++.--++---||||||++.+||+.++||..+.+
T Consensus 207 wnlVFmq~~~~~~~~~~~~~g~~~~Lp~k~VDTG~GLER~~~v~qg~~t~ydt~f~~ 263 (902)
T TIGR03683 207 ATLVFMQYEEDKEGEIEIKGGRYSEMPLKIVDTGYGLERFVWASQGTPTAYDAIFPE 263 (902)
T ss_pred eeeeeeeeccccccccccCCCeeeeCCCCceecCCCHHHHHHHHcCCCchHHHHHHH
Confidence 766666632 331 333344566699999999999999999997765
No 18
>PRK00252 alaS alanyl-tRNA synthetase; Reviewed
Probab=96.51 E-value=0.0075 Score=77.01 Aligned_cols=167 Identities=25% Similarity=0.307 Sum_probs=110.9
Q ss_pred cchHHHHHHHHHHHHhhcCceeeecccc-----------ccccccCCHHHHhhhcCCCcceEEeecCCCCCCC----C--
Q 001359 73 VPTFQQAIQRLQEYWASVGCSVMQCSNT-----------EVGAGTMNPLTFLRVLGPEPWNVAYVEPSIRPDD----S-- 135 (1092)
Q Consensus 73 ~~~~q~~i~~l~~~w~~~gc~~~~p~~~-----------e~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d----~-- 135 (1092)
+||-.+|-.+--+|..++|+.+.-+|.. --|--+|-|. |+...-|.-=+++=.|+|.|=.| |
T Consensus 1 ~~~~~eiR~~fl~fF~~~~H~~v~s~~lvp~~d~~llf~nAGm~~fk~~-f~g~~~p~~~r~~~~QkCiR~nDld~VG~t 79 (865)
T PRK00252 1 MMTSAEIRQKFLDFFESKGHTVVPSASLVPKNDPTLLFTNAGMVQFKDY-FLGQEKPPYPRATTSQKCIRTNDLENVGYT 79 (865)
T ss_pred CCCHHHHHHHHHHHHHhCCCEEecCCCcCCCCCCCeeeeccchhhhhHH-hcCCCCCCCCCcccccccccccchhhccCC
Confidence 4778899999999999999999987753 2344466676 65444443346999999999876 2
Q ss_pred -C--------------------------------CCCCCcccc-ceeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCce
Q 001359 136 -R--------------------------------YGENPNRLQ-RHTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDI 181 (1092)
Q Consensus 136 -r--------------------------------yg~npnrl~-~~~q~qvi~kp~p~~~q~lyl~sl~~~gi~~~~hdi 181 (1092)
| ||=+|+||+ .|| +.-. |-|===++.+|+++. |=|
T Consensus 80 ~rHhTfFEMlGn~sfgdYfK~eai~~awe~lt~~~~i~~~~l~vt~~-------~~D~---e~~~iW~~~~g~~~~-~i~ 148 (865)
T PRK00252 80 ARHHTFFEMLGNFSFGDYFKEEAIEWAWELLTSVLGLPKEKLYVTVY-------EDDD---EAYDIWKKEIGVPPE-RII 148 (865)
T ss_pred CCchHHHHHhcccchhhhhHHHHHHHHHHHHHHHhCCCHHHEEEEEc-------CCCH---HHHHHHHhccCCCHH-Hee
Confidence 2 677788887 343 1111 333333345677654 447
Q ss_pred eE-ecCCCCC-cccccccccceeeec-------------------Ceee-----eeeehhhhcCC--cccCcceeeehhh
Q 001359 182 RF-VEDNWES-PVLGAWGLGWEIWMD-------------------GMEI-----TQFTYFQQAGS--LQLSPVSVEITYG 233 (1092)
Q Consensus 182 rf-ved~we~-p~lgawglgwevw~~-------------------gmei-----tqftyfqq~gg--~~~~~~~~eityg 233 (1092)
+| .+|||=+ =-.|--|==-||-.| +.|| +||.+- .+| .+|.--++---||
T Consensus 149 ~~~~~dNfW~~G~~GpcGPcsEi~~d~g~~~~~~~~~~~~~~~~~~lEiwNlVF~q~~~~--~~g~~~~Lp~~~iDTG~G 226 (865)
T PRK00252 149 RIGKKDNFWSMGDTGPCGPCSEIFYDRGEEYWGGPPGSPEEDGDRYIEIWNLVFMQFNRD--EDGNLTPLPKKNIDTGMG 226 (865)
T ss_pred cCCccCCccccCCCcCCCCCeEEEEecCcccCCCCCCCCcCCCCcEEEEeeeeeEeeeec--CCCceeeCCCCeeecCcC
Confidence 76 6777543 223666666777776 3555 555542 344 3444456677799
Q ss_pred hHHHHHHHhCCCcccee-eeC
Q 001359 234 LERILMLLQGVDHFKKI-QYA 253 (1092)
Q Consensus 234 leri~m~~q~~~~~~~~-~~~ 253 (1092)
||||++.|||+.+.||. .+.
T Consensus 227 lER~~~ilq~~~snydtd~f~ 247 (865)
T PRK00252 227 LERIAAVLQGVHSNYETDLFR 247 (865)
T ss_pred HHHHHHHHcCCCCcchhhhHH
Confidence 99999999999999997 444
No 19
>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=96.36 E-value=0.026 Score=58.54 Aligned_cols=100 Identities=15% Similarity=0.097 Sum_probs=77.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHhCCCh--hHHHHHHHHHHhhhhccccchhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhh
Q 001359 739 GTMLDKTMRVQNMVRKLSLDLGINE--DMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEI 816 (1092)
Q Consensus 739 GSl~DK~~Ri~~La~~La~~l~~~~--~~~~~~~RAA~LaKaDL~T~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~Eh 816 (1092)
.+.++-+.|+..+|..||..++.+. .+.+.+..||.|--.. .-.. .....+.+|..+....|-+++++.+|.-|
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 4578899999999999999987321 2346788899886443 2222 22468999999999999999999999988
Q ss_pred cCCCCC-----------CCCCCCcchhhHHHHhhhHH
Q 001359 817 NLPRFS-----------GDVLPKTDVGTVLAVADRLD 842 (1092)
Q Consensus 817 YlPr~a-----------gD~LP~t~~G~iLSLADKlD 842 (1092)
.-+... ++..|.|..+.+|++||++-
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 755332 45578999999999999984
No 20
>PRK12705 hypothetical protein; Provisional
Probab=96.07 E-value=0.028 Score=67.91 Aligned_cols=101 Identities=16% Similarity=0.257 Sum_probs=80.4
Q ss_pred ccccCCCC-HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchhhcChhhhHHHHHHHHHhCCCCHHHHH
Q 001359 733 LFHEKLGT-MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAE 811 (1092)
Q Consensus 733 vF~~kLGS-l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV~EFPELQGiMG~yYA~~~GE~~~VA~ 811 (1092)
-|...-|. +++.+.++..+|..||..+|++. +.+.+||.|-- +.-.+-.|...-+..+|...++.-|+++.|+.
T Consensus 315 ~~R~sygqnvl~HSl~VA~lA~~LA~~lGld~---d~a~~AGLLHD--IGK~ie~e~~~~H~~iGaeLlkk~~~p~~Vv~ 389 (508)
T PRK12705 315 YFRTSYGQNVLSHSLEVAHLAGIIAAEIGLDP---ALAKRAGLLHD--IGKSIDRESDGNHVEIGAELARKFNEPDEVIN 389 (508)
T ss_pred hhcccCCchHHHHHHHHHHHHHHHHHHcCcCH---HHHHHHHHHHH--cCCcchhhhcccHHHHHHHHHHhcCCCHHHHH
Confidence 35555543 89999999999999999999986 45678998863 33333345555688999999999999999999
Q ss_pred HHHhhcCCCCCCCCCCCcchhhHHHHhhhHHH
Q 001359 812 ALLEINLPRFSGDVLPKTDVGTVLAVADRLDT 843 (1092)
Q Consensus 812 AI~EhYlPr~agD~LP~t~~G~iLSLADKlDt 843 (1092)
+|..|.-|.. |++..+.++++||.++.
T Consensus 390 aI~~HHe~~~-----~~~~~a~IVaiADaLSa 416 (508)
T PRK12705 390 AIASHHNKVN-----PETVYSVLVQIADALSA 416 (508)
T ss_pred HHHHhCCCCC-----CCCHHHHHHHHHHHHcC
Confidence 9999997753 55789999999996643
No 21
>PRK12704 phosphodiesterase; Provisional
Probab=95.88 E-value=0.041 Score=66.84 Aligned_cols=102 Identities=17% Similarity=0.234 Sum_probs=84.5
Q ss_pred cccccCCC-CHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchhhcChhhhHHHHHHHHHhCCCCHHHH
Q 001359 732 ILFHEKLG-TMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIA 810 (1092)
Q Consensus 732 VvF~~kLG-Sl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV~EFPELQGiMG~yYA~~~GE~~~VA 810 (1092)
+-|....| ++++.+.|+..+|..||..+|++. +.+.+||.|.-...... .|++.-..+.|...+...|+++.|+
T Consensus 326 l~~R~~~~qn~l~Hs~~Va~lA~~lA~~lgld~---~~a~~AgLLHDIGK~~~--~e~~~~H~~iGa~il~~~~~~~~v~ 400 (520)
T PRK12704 326 LKYRTSYGQNVLQHSIEVAHLAGLMAAELGLDV---KLAKRAGLLHDIGKALD--HEVEGSHVEIGAELAKKYKESPVVI 400 (520)
T ss_pred hhccCcCCCcHhHHHHHHHHHHHHHHHHhCcCH---HHHHHHHHHHccCcCcc--ccccCCHHHHHHHHHHHcCCCHHHH
Confidence 34455554 489999999999999999999986 45789999987666532 4677789999999999999999999
Q ss_pred HHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHH
Q 001359 811 EALLEINLPRFSGDVLPKTDVGTVLAVADRLDT 843 (1092)
Q Consensus 811 ~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDt 843 (1092)
.+|.-|-- +.-|.+..+.+|.+||.|+.
T Consensus 401 ~aI~~HHe-----~~~~~~~~a~IV~~ADaLsa 428 (520)
T PRK12704 401 NAIAAHHG-----DEEPTSIEAVLVAAADAISA 428 (520)
T ss_pred HHHHHcCC-----CCCCCCHHHHHHHHHHHHhC
Confidence 99999984 34588899999999997764
No 22
>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=95.51 E-value=0.073 Score=54.62 Aligned_cols=99 Identities=13% Similarity=0.101 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccc-c----------------chhhcChhhhHHHHHHHHHhC
Q 001359 741 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLA-T----------------SVVMEFTSLAGVMACHYALRD 803 (1092)
Q Consensus 741 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~-T----------------~MV~EFPELQGiMG~yYA~~~ 803 (1092)
.+..+.++..+|..||..++.+. +.+..|+.|--.... + .-..|+.-+.+.+|.+++.+-
T Consensus 9 r~~Hsl~Va~~a~~lA~~~~~d~---e~a~~AGLLHDIGk~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~vGa~ll~~w 85 (158)
T TIGR00488 9 RYQHCLGVGQTAKQLAEANKLDS---KKAEIAGAYHDLAKFLPKEQLKQIAKREKMPAHLLYPSPKLLHAYVGAYILKRE 85 (158)
T ss_pred HHHHHHHHHHHHHHHHHHhCcCH---HHHHHHHHHHHHhccCCHHHHHHHHHHcCCCchhhcccccccHHHHHHHHHHHH
Confidence 46778899999999999998765 345666655432210 0 111235557999999999874
Q ss_pred -CC-CHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHHh
Q 001359 804 -GY-SQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGL 847 (1092)
Q Consensus 804 -GE-~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG~ 847 (1092)
|. +++|..||.-|-.|. -+.+..+.+|.+||+++...|.
T Consensus 86 ~~~~~~~i~~aI~~H~~~~-----~~~~~l~~iV~lAD~i~~~~~~ 126 (158)
T TIGR00488 86 FGVQDEDILDAIRNHTSGP-----PGMSLLDMIIYVADKLEPNRGA 126 (158)
T ss_pred hCCCcHHHHHHHHHhCCCC-----CCCCHHHHHHHhHHHHhhcccc
Confidence 66 889999999999883 2346789999999999998874
No 23
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=95.32 E-value=0.082 Score=64.19 Aligned_cols=191 Identities=18% Similarity=0.273 Sum_probs=126.6
Q ss_pred HHHHHHhcCCeecCCCchHHHhhhcccCCceeecccCccCCCCcHHHHHHHHHhCcceeEEECCCCCccccEE--EEEcC
Q 001359 611 SNALAKSVNGRIIFEESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFI--AVANG 688 (1092)
Q Consensus 611 i~~lA~~~g~~v~~de~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQKYFpv~d~~GkLlp~FI--~VsN~ 688 (1092)
|..+.+-.|..+++|+. -..+++.+||+ +=.||=..+|..= + .||++.|.-| .|...
T Consensus 227 ir~~e~~tgvd~iiddt----------p~~v~ls~fdp----~rreia~~~l~~l-----i--~dgrihp~riee~~~~~ 285 (514)
T TIGR03319 227 IRALETLTGVDLIIDDT----------PEAVILSGFDP----VRREIARMALEKL-----I--QDGRIHPARIEEMVEKA 285 (514)
T ss_pred HHHHHHHhCceEEEcCC----------CCeEEecCCch----HHHHHHHHHHHHH-----H--HcCCCCHHHHHHHHHHH
Confidence 44566667888888765 23677888886 3445555555431 1 2688888644 11111
Q ss_pred CC--CchhhhchhhhHhhhhcccchhhHHhhhcCChHHHHhcccCcccccCCCC-HHHHHHHHHHHHHHHHHHhCCChhH
Q 001359 689 AI--NEMVVRKGNEAVLRARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGT-MLDKTMRVQNMVRKLSLDLGINEDM 765 (1092)
Q Consensus 689 ~~--~~~~Vi~GNErVLrARL~DA~FFy~eDlK~~Le~~v~kLk~VvF~~kLGS-l~DK~~Ri~~La~~La~~l~~~~~~ 765 (1092)
.. +......|-+-|...=+.+- .. +-+.-|..+-|....|. ++..+.++..+|..||..+|++.
T Consensus 286 ~~~~~~~i~~~g~~~~~~~~~~~~--------~~---~~~~~l~~l~~r~~~~~~~l~Hs~~VA~lA~~LA~~lgld~-- 352 (514)
T TIGR03319 286 TKEVDNAIREEGEQAAFDLGVHGL--------HP---ELIKLLGRLKFRTSYGQNVLQHSIEVAHLAGIMAAELGEDV-- 352 (514)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCcC--------CH---HHHHHHHHhhccccCCccHHHHHHHHHHHHHHHHHHhCcCH--
Confidence 11 11122345555554333221 11 12333444556666654 89999999999999999999986
Q ss_pred HHHHHHHHHhhhhccccchhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHH
Q 001359 766 LQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDT 843 (1092)
Q Consensus 766 ~~~~~RAA~LaKaDL~T~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDt 843 (1092)
+.+.+||.|.-.--+ +-.|...-..++|..+++.-|+++.|..+|.-|--| .-|.+..+.+|.+||.|+.
T Consensus 353 -~~a~~AGLLHDIGK~--~~~e~~~~H~~~Ga~ll~~~~~~~~V~~aI~~HH~~-----~~~~~~~a~IV~~AD~lsa 422 (514)
T TIGR03319 353 -KLAKRAGLLHDIGKA--VDHEVEGSHVEIGAELAKKYKESPEVVNAIAAHHGD-----VEPTSIEAVLVAAADALSA 422 (514)
T ss_pred -HHHHHHHHHHhcCcc--cchhhcccHHHHHHHHHHHcCCCHHHHHHHHHhCCC-----CCCCCHHHHHHHHHHHhcC
Confidence 457789988755433 223444567899999999999999999999999865 3578999999999999864
No 24
>PRK07152 nadD putative nicotinate-nucleotide adenylyltransferase; Validated
Probab=94.95 E-value=0.11 Score=59.79 Aligned_cols=95 Identities=12% Similarity=0.127 Sum_probs=72.1
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccc---------------cchhhcChhhhHHHHHHHHHhC-C
Q 001359 741 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLA---------------TSVVMEFTSLAGVMACHYALRD-G 804 (1092)
Q Consensus 741 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~---------------T~MV~EFPELQGiMG~yYA~~~-G 804 (1092)
.+..+.|+..+|..||..+|++. +.+..||.|--.--. +.--.++....+..|.++++.. |
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 67789999999999999999886 456677765432221 1111223345899999999876 8
Q ss_pred CC-HHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHH
Q 001359 805 YS-QQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDT 843 (1092)
Q Consensus 805 E~-~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDt 843 (1092)
.+ ++|+.||..|..|.. +.+..+.+|.+||+++.
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 799999999998753 45789999999999885
No 25
>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=94.88 E-value=0.065 Score=50.02 Aligned_cols=101 Identities=21% Similarity=0.178 Sum_probs=77.5
Q ss_pred HHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchh-hc-----C--hhhhHHHHHHHHHhCCCCH-----H
Q 001359 742 LDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVV-ME-----F--TSLAGVMACHYALRDGYSQ-----Q 808 (1092)
Q Consensus 742 ~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV-~E-----F--PELQGiMG~yYA~~~GE~~-----~ 808 (1092)
++-+.|+..++..|+..++. ..+...+..||.|=-.-...... .| + -...+++|.+.++..+... .
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 44556788888875333333221 11 1 1357889999988888877 9
Q ss_pred HHHHHHhhcCCCC------CCCCCCCcchhhHHHHhhhHHH
Q 001359 809 IAEALLEINLPRF------SGDVLPKTDVGTVLAVADRLDT 843 (1092)
Q Consensus 809 VA~AI~EhYlPr~------agD~LP~t~~G~iLSLADKlDt 843 (1092)
|+.+|..|-.|.. ....-|.+..+.++.+||++|.
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 26
>PRK12703 tRNA 2'-O-methylase; Reviewed
Probab=94.84 E-value=0.17 Score=58.44 Aligned_cols=96 Identities=13% Similarity=0.111 Sum_probs=75.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhc---
Q 001359 741 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEIN--- 817 (1092)
Q Consensus 741 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhY--- 817 (1092)
+++.+.|+..+|..||..++++. ..+..||.|--.+-.- ....-.++.|..++...|.+++++.+|+.|-
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 68999999999999999998775 5677888886554432 1122488999999999999999999998876
Q ss_pred CCCC--------CCCCCCCcchhhHHHHhhhHHH
Q 001359 818 LPRF--------SGDVLPKTDVGTVLAVADRLDT 843 (1092)
Q Consensus 818 lPr~--------agD~LP~t~~G~iLSLADKlDt 843 (1092)
.|.. ..+..|.|..+.||+.|||++.
T Consensus 261 ~~~~~~~~~gL~~~~~~P~TLEakIV~dADrL~~ 294 (339)
T PRK12703 261 ITSEEAQKLGLPVKDYVPETIEEMIVAHADNLFA 294 (339)
T ss_pred CCcchhhccCCccccCCCCCHHHHHHHHHHHHhc
Confidence 3321 1245788999999999999953
No 27
>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=94.64 E-value=0.45 Score=43.67 Aligned_cols=103 Identities=19% Similarity=0.210 Sum_probs=75.8
Q ss_pred CHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchhhc-------ChhhhHHHHHHHHHhCCCCHHHHHH
Q 001359 740 TMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVME-------FTSLAGVMACHYALRDGYSQQIAEA 812 (1092)
Q Consensus 740 Sl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV~E-------FPELQGiMG~yYA~~~GE~~~VA~A 812 (1092)
+.++-+.++..++..++...+. .+...+.-||.|.- +....... ...-++.+|..+++..+.++.++..
T Consensus 4 ~~~~H~~~v~~~~~~l~~~~~~--~~~~~~~~a~LlHD--ig~~~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~~~~~~~ 79 (124)
T smart00471 4 HVFEHSLRVAQLAAALAEELGL--LDIELLLLAALLHD--IGKPGTPDSFLVKTSVLEDHHFIGAEILLEEEEPRILEEI 79 (124)
T ss_pred hHHHHHHHHHHHHHHHHHHcCh--HHHHHHHHHHHHHc--ccCccCCHHHhcCccHHHHhHHHHHHHHHhCCCCHHHHHH
Confidence 5788899999999999998875 12345666666532 22222211 2467889999999998999999887
Q ss_pred ----HHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHH
Q 001359 813 ----LLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVG 846 (1092)
Q Consensus 813 ----I~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG 846 (1092)
|..|..+......-+.+..+.++.+||++|....
T Consensus 80 ~~~~i~~h~~~~~~~~~~~~~~~~~il~~aD~~~~~~~ 117 (124)
T smart00471 80 LATAILSHHERPDGLRGEPITLEARIVKVADRLDALRR 117 (124)
T ss_pred HhhHHHHhccccCCCCCCcCCHHHHHHHHHHHHHHHhc
Confidence 8888877654344456789999999999999764
No 28
>PLN02900 alanyl-tRNA synthetase
Probab=94.53 E-value=0.12 Score=66.88 Aligned_cols=166 Identities=26% Similarity=0.368 Sum_probs=97.5
Q ss_pred cchHHHHHHHHHHHHhhcCceeeecccc---------ccccc--cCCHHHHhhhcCCCcc--------eEEeecCCCCC-
Q 001359 73 VPTFQQAIQRLQEYWASVGCSVMQCSNT---------EVGAG--TMNPLTFLRVLGPEPW--------NVAYVEPSIRP- 132 (1092)
Q Consensus 73 ~~~~q~~i~~l~~~w~~~gc~~~~p~~~---------e~gag--t~~p~t~~~~l~~~~~--------~~ayv~p~~rp- 132 (1092)
.||-.+|=.+--+|..++||.++.+|.. -+.|| .|-| ++ ||.++. +++=+|+|.|=
T Consensus 10 ~~~~~eiR~~Fl~FF~~~gH~~v~s~slvp~~dptllftnAGm~~Fk~--~f--~G~~~p~~~~~~~~R~~~~QkCiR~g 85 (936)
T PLN02900 10 EWPGDRIRRTFLSFFESKGHTFLPSSPLVPVDDPTLLFTNAGMNQFKP--IF--LGTADPNTPLRKLPRATNTQKCIRAG 85 (936)
T ss_pred CCCHHHHHHHHHHHHHhCCCEEeCCCCcCCCCCCCeeeeecchhhhhh--hh--cCCCCCCCCCCCCCceeeecccccCC
Confidence 4888999999999999999999886642 23555 3333 23 365544 68999999998
Q ss_pred ---CCC-CCCCCCccccceeeeEEEEcCCCcchHHHHHHH---------H-HhcCCCCCC--------------------
Q 001359 133 ---DDS-RYGENPNRLQRHTQFQVILKPDPGNSQDLFIRS---------L-SALGIDVTE-------------------- 178 (1092)
Q Consensus 133 ---~d~-ryg~npnrl~~~~q~qvi~kp~p~~~q~lyl~s---------l-~~~gi~~~~-------------------- 178 (1092)
.|= .-|-. -.||+=|..+=-=|-++ |-+- | +.|||+++.
T Consensus 86 GKHnDlenVG~t---~rHhTfFEMlGnfSfgd----YfK~eaI~~awe~lT~~l~i~~~~l~vTv~~~D~~~~~d~Ea~~ 158 (936)
T PLN02900 86 GKHNDLDDVGKD---TYHHTFFEMLGNWSFGD----YFKKEAIGWAWELLTKVYGLPADRLYATYFGGDEKQAPDDEARA 158 (936)
T ss_pred CCCCCHhhccCC---CCchHHHHhhhccchhh----hhHHHHHHHHHHHHHHhcCCCHHHEEEEEeCCCCCcCCCHHHHH
Confidence 541 01111 02333333332222221 2210 1 124444433
Q ss_pred ---------CceeE-ecCC-CCCcccccccccceeeec-----------------Ceee-----eeeehhhhcCCc-ccC
Q 001359 179 ---------HDIRF-VEDN-WESPVLGAWGLGWEIWMD-----------------GMEI-----TQFTYFQQAGSL-QLS 224 (1092)
Q Consensus 179 ---------hdirf-ved~-we~p~lgawglgwevw~~-----------------gmei-----tqftyfqq~gg~-~~~ 224 (1092)
|=+|| .+|| |+-=-.|--|==-|+-.| ++|| +||.+- .-|.+ +|.
T Consensus 159 iW~~~~~~~rI~~~~~~dNfW~~G~tGpcGPcsEi~yD~g~~~~~~~~~~~~~~r~lEiwNlVFmq~~~~-~~g~~~~Lp 237 (936)
T PLN02900 159 IWLDYLPEERVLPFGCKDNFWEMGDTGPCGPCSEIHYDRIGERDAADLVNNDDPRFIEIWNLVFIQFNRE-ADGSLKPLP 237 (936)
T ss_pred HHHHhCCHHHeecCCcccCCccCCCCcCCCCCeEEEEecCCccCccccCCCCCCCEEEEeeeeeeeeeec-CCCceeeCC
Confidence 22333 2455 433224666666777776 5777 455431 12322 344
Q ss_pred cceeeehhhhHHHHHHHhCCCcccee
Q 001359 225 PVSVEITYGLERILMLLQGVDHFKKI 250 (1092)
Q Consensus 225 ~~~~eitygleri~m~~q~~~~~~~~ 250 (1092)
--++---+||||||+.|||+.|.||.
T Consensus 238 ~~~IDTGmGLERl~~vlqg~~snydt 263 (936)
T PLN02900 238 AKHVDTGMGLERLASILQNKPSNYDT 263 (936)
T ss_pred CCeeecCcCHHHHHHHHcCCCCcchh
Confidence 45566679999999999999999997
No 29
>PRK00106 hypothetical protein; Provisional
Probab=94.41 E-value=0.19 Score=61.32 Aligned_cols=190 Identities=17% Similarity=0.225 Sum_probs=125.1
Q ss_pred HHHHHHhcCCeecCCCchHHHhhhcccCCceeecccCccCCCCcHHHHHHHHHhCcceeEEECCCCCccccEE--EEEcC
Q 001359 611 SNALAKSVNGRIIFEESLLNEVVNLVEAPVPVLGEFEDSFLELPEDLLTVVMKKHQKYFALTDDKGRLLPYFI--AVANG 688 (1092)
Q Consensus 611 i~~lA~~~g~~v~~de~LLeEVt~LVE~P~~l~G~Fde~FL~LP~EVLit~Mk~HQKYFpv~d~~GkLlp~FI--~VsN~ 688 (1092)
|..+..-.|..+++|+. -..+++.+||+= =.||=..+|.. .=.||++.|.-| .|...
T Consensus 248 ir~~E~~tGvdliiddt----------p~~v~lS~fdpv----RReiAr~~le~-------Li~dgrIhp~rIEe~v~k~ 306 (535)
T PRK00106 248 IRTLESLTGIDVIIDDT----------PEVVVLSGFDPI----RREIARMTLES-------LIKDGRIHPARIEELVEKN 306 (535)
T ss_pred HHHHHHHhCceEEEcCC----------CCeEEEeCCChH----HHHHHHHHHHH-------HHHcCCcCHHHHHHHHHHH
Confidence 34555667777777663 235677888864 34444444433 112688888754 11111
Q ss_pred CC--CchhhhchhhhHhhhhcccchhhHHhhhcCChHHHHhcccCcccccCCC-CHHHHHHHHHHHHHHHHHHhCCChhH
Q 001359 689 AI--NEMVVRKGNEAVLRARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLG-TMLDKTMRVQNMVRKLSLDLGINEDM 765 (1092)
Q Consensus 689 ~~--~~~~Vi~GNErVLrARL~DA~FFy~eDlK~~Le~~v~kLk~VvF~~kLG-Sl~DK~~Ri~~La~~La~~l~~~~~~ 765 (1092)
.. +......|-+-|...=.. +-+. +-+.-|..+-|....| .+++.+..+..+|..||..+|++.
T Consensus 307 ~~e~~~~i~~~Ge~a~~~lg~~----~~~~-------e~~~~lg~l~~r~sy~qnl~~HSv~VA~lA~~lA~~lgld~-- 373 (535)
T PRK00106 307 RLEMDNRIREYGEAAAYEIGAP----NLHP-------DLIKIMGRLQFRTSYGQNVLRHSVEVGKLAGILAGELGENV-- 373 (535)
T ss_pred HHHHHHHHHHHHHHHHHHcCCC----CCCH-------HHHHHHHHHhhhccCCCcHHHHHHHHHHHHHHHHHHhCCCH--
Confidence 11 112223455555442221 1111 2234445555666665 489999999999999999999865
Q ss_pred HHHHHHHHHhhhhccccchhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHH
Q 001359 766 LQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLD 842 (1092)
Q Consensus 766 ~~~~~RAA~LaKaDL~T~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlD 842 (1092)
+.+.+|+.|.--.-+ +-.|...-.+.+|..+++.-|++++|..||..|--|. -|.|..+.+|.+||.|+
T Consensus 374 -e~a~~AGLLHDIGK~--v~~e~~g~Ha~iGa~ll~~~~~~~~v~~aI~~HH~~~-----~~~s~~a~IV~~AD~ls 442 (535)
T PRK00106 374 -ALARRAGFLHDMGKA--IDREVEGSHVEIGMEFARKYKEHPVVVNTIASHHGDV-----EPESVIAVIVAAADALS 442 (535)
T ss_pred -HHHHHHHHHHhccCc--cCccccCChHHHHHHHHHHcCCCHHHHHHHHHhCCCC-----CCCChHHHHHHHHHHhc
Confidence 568999998755544 3356666799999999999999999999999998754 35689999999999874
No 30
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=93.71 E-value=0.17 Score=64.40 Aligned_cols=176 Identities=24% Similarity=0.322 Sum_probs=116.9
Q ss_pred cchHHHHHHHHHHHHhhcCceeeecccc---------cccc--ccCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCCC
Q 001359 73 VPTFQQAIQRLQEYWASVGCSVMQCSNT---------EVGA--GTMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGENP 141 (1092)
Q Consensus 73 ~~~~q~~i~~l~~~w~~~gc~~~~p~~~---------e~ga--gt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~np 141 (1092)
++|--+|=.+--+|+.++|=.++-+|.. -+.| -+|-|. |+..-.|.+-+++=.|||.|-.|= ||=
T Consensus 5 ~~t~~EiR~~FL~FF~~kgH~~v~s~slVP~nDptLLftnAGm~~FK~~-f~g~v~p~~~r~~~sQkcIR~NDi---eNV 80 (879)
T COG0013 5 KLTTNEIRQKFLDFFEKKGHTVVPSSPLVPRNDPTLLFTNAGMVQFKPY-FTGGVTPPANRAVTSQKCIRTNDI---DNV 80 (879)
T ss_pred cCCHHHHHHHHHHHHHHCCCeecCCCCcCCCCCCCeEEeecccccchhh-hcCCCCCCCCCeeccccccccCch---hhc
Confidence 4788899999999999999999876643 2344 455554 333346777899999999999872 232
Q ss_pred cccc-ceeeeEEEEcCCCcc--------------------------------hHHHHHHHHHhcCCCCCCCceeE-ecCC
Q 001359 142 NRLQ-RHTQFQVILKPDPGN--------------------------------SQDLFIRSLSALGIDVTEHDIRF-VEDN 187 (1092)
Q Consensus 142 nrl~-~~~q~qvi~kp~p~~--------------------------------~q~lyl~sl~~~gi~~~~hdirf-ved~ 187 (1092)
-+-- ||+=|..+--=|-++ =.|-|=.+.+.+||++ +|=||+ -+||
T Consensus 81 G~T~RHhTfFEMLGNfSFGdYFKeeAI~~AwEflT~~lgl~~ekL~vtvy~~Ddea~~~W~~~~gip~-~rIir~~~~dN 159 (879)
T COG0013 81 GYTARHHTFFEMLGNFSFGDYFKEEAIEFAWEFLTKVLGLPKEKLYVTVYEDDDEAYNEWEKIIGIPP-ERIIRIGASDN 159 (879)
T ss_pred CccccchhHHHhhhcCchhHHHHHHHHHHHHHHHHhhcCCCHHHEEEEEecCchHHHHHHHhhcCCCH-HHeeecCcCCC
Confidence 2222 455555443222221 1233445555566533 343444 4688
Q ss_pred CCCcccccccccceeeecC-------------------eeeeeeehhh--hc-CC---cccCcceeeehhhhHHHHHHHh
Q 001359 188 WESPVLGAWGLGWEIWMDG-------------------MEITQFTYFQ--QA-GS---LQLSPVSVEITYGLERILMLLQ 242 (1092)
Q Consensus 188 we~p~lgawglgwevw~~g-------------------meitqftyfq--q~-gg---~~~~~~~~eitygleri~m~~q 242 (1092)
|-+.-.|--|==-||-.|+ +||-=.-+.| +. |+ .+|.--++-=-||||||+-.||
T Consensus 160 fW~~G~GPcGPcsEI~yD~G~~~~~~~~~~~~~d~dR~lEiwNLVFmQfnr~~~~g~~~~Lp~k~IDTGmGLERi~~vlQ 239 (879)
T COG0013 160 FWEMGDGPCGPCSEIFYDRGEEIGGGPPGSPDEDGDRYLEIWNLVFMQYNRDPGDGNYTPLPKKNIDTGMGLERIAAVLQ 239 (879)
T ss_pred CCCCCCcCCCCceEEEEcCCcccCCCCCCCcCCCCCceEEEeeeeehhhccCCCCCCcccCCCCCcccCccHHHHHHHHc
Confidence 7666667777779999999 9987655444 33 44 3455556666799999999999
Q ss_pred CCCccceeeeC
Q 001359 243 GVDHFKKIQYA 253 (1092)
Q Consensus 243 ~~~~~~~~~~~ 253 (1092)
++.++||+..=
T Consensus 240 ~~~tnyd~dlf 250 (879)
T COG0013 240 GVPTNYDTDLF 250 (879)
T ss_pred CCCcchhhhhh
Confidence 99999998654
No 31
>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=93.20 E-value=1 Score=49.71 Aligned_cols=157 Identities=25% Similarity=0.335 Sum_probs=90.4
Q ss_pred HHHHHHHHHHhhcCceeeecccc---------ccccccCCHHH-HhhhcCCCc---ceEEeecCCCCCCC----CCCCCC
Q 001359 78 QAIQRLQEYWASVGCSVMQCSNT---------EVGAGTMNPLT-FLRVLGPEP---WNVAYVEPSIRPDD----SRYGEN 140 (1092)
Q Consensus 78 ~~i~~l~~~w~~~gc~~~~p~~~---------e~gagt~~p~t-~~~~l~~~~---~~~ayv~p~~rp~d----~ryg~n 140 (1092)
+|..+--+|..++|+.++.++.. -+.|| |+|-. ++ +|.++ =+++=+|+|.|=.| |+-
T Consensus 3 eiR~~fl~FF~~kgH~~v~s~slvp~dDptllFtnAG-M~~Fkp~f--~G~~~p~~~r~~~~QkCiR~~DienVG~t--- 76 (232)
T cd00673 3 EIRETFLSFFEKKGHTRVPSSPVVPRDDPTLLFTNAG-MNQFKPIF--LGEVPPPANRLVNSQKCIRAGDIDNVGKT--- 76 (232)
T ss_pred HHHHHHHHHHHhCCCEEeCCCCcCCCCCCchheeccc-hhhhhHHh--cCCCCCCCCceeeeeeceecCChhhcccc---
Confidence 56777788999999988775532 22444 33322 33 55544 37889999999653 311
Q ss_pred CccccceeeeEEEEcCCCcc--------------------------------hHHHHHHHHHhcCCCCCCCceeE-ecCC
Q 001359 141 PNRLQRHTQFQVILKPDPGN--------------------------------SQDLFIRSLSALGIDVTEHDIRF-VEDN 187 (1092)
Q Consensus 141 pnrl~~~~q~qvi~kp~p~~--------------------------------~q~lyl~sl~~~gi~~~~hdirf-ved~ 187 (1092)
-.||+=|+.+=-=|-++ -.|.|-.=.+.+||+ ..|=+++ .+||
T Consensus 77 ---~rHhTfFEMLGNfSFgdYFK~eaI~~awe~LT~~l~l~~~rl~vTv~~~dde~~~~w~~~~g~~-~~~i~~~~~~dN 152 (232)
T cd00673 77 ---GRHHTFFEMLGNFSFGDYFKEEAIAFAWELLTEVLGLPKDRLYVSVFEGDDEEEAIWWWKIGLP-GIRIERIGFKDN 152 (232)
T ss_pred ---ccchhhhhhhcccchhhhhHHHHHHHHHHHHHhhcCCCccceEEEEeCCCHHHHHHHHHhhCCC-HHHeeeCCccCC
Confidence 12344444332222211 134444444566763 3444554 2577
Q ss_pred CCCc-ccccccccceeeecC-----------------eeeeeeehhh---hcCC--cccCcceeeehhhhHHHHHHHhCC
Q 001359 188 WESP-VLGAWGLGWEIWMDG-----------------MEITQFTYFQ---QAGS--LQLSPVSVEITYGLERILMLLQGV 244 (1092)
Q Consensus 188 we~p-~lgawglgwevw~~g-----------------meitqftyfq---q~gg--~~~~~~~~eitygleri~m~~q~~ 244 (1092)
|=+. --|-=|===|+-.|+ +||==.-+.| ...| .+|.--++---+||||||+.||||
T Consensus 153 fW~~G~~GPCGPcsEI~yd~g~~~~~~~~~~~~~~r~lEIWNlVFmqy~r~~~g~l~pLp~k~IDTGmGlERla~vlQg~ 232 (232)
T cd00673 153 FWEMGGNGPCGPCSEIFYDRGEERDAASLPNEDDDRYLEIWNLVFMQYNRDADGTYRPLPKKIVDTGMGLERLVWVLQGV 232 (232)
T ss_pred CCCCCCCcCCCCCEEEEEccCCCcCccccccCCCCCEEEEeeeeeeeeeccCCCCCccCCCCeeeCCcCHHHHHHHHcCC
Confidence 5433 234445557888887 7775544444 3333 244545677779999999999986
No 32
>COG1418 Predicted HD superfamily hydrolase [General function prediction only]
Probab=91.29 E-value=0.51 Score=51.65 Aligned_cols=116 Identities=19% Similarity=0.215 Sum_probs=90.8
Q ss_pred HHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchhhcChhhhHHHHHHHHHhCC
Q 001359 725 FQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDG 804 (1092)
Q Consensus 725 ~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV~EFPELQGiMG~yYA~~~G 804 (1092)
....+....|+.-=++.++-+.|+..||..||...|.|. ..+.+||.|- |.......+--.=+-+.|..-|+.-+
T Consensus 21 ~~~~~~~~~~~~~~~~~l~H~~~Va~lA~~Ia~~~g~D~---~l~~~aaLLH--DIg~~~~~~~~~~h~~~gae~a~~~~ 95 (222)
T COG1418 21 LVKLLGRLKFRTYGQHVLEHSLRVAYLAYRIAEEEGVDP---DLALRAALLH--DIGKAIDHEPGGSHAEIGAEIARKFL 95 (222)
T ss_pred HHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHcCCCH---HHHHHHHHHH--hhccccccCCccchHHHHHHHHHHHc
Confidence 344445555665346899999999999999999999876 6789999985 66665555532227889999999999
Q ss_pred CC----------HHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHH
Q 001359 805 YS----------QQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLV 845 (1092)
Q Consensus 805 E~----------~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLv 845 (1092)
++ +.|+.+|..|--=....|.+|.+..|..+.=||++|.+.
T Consensus 96 ~~~~~~~~~~~~~~~~~~i~~~s~~~~~~d~~~a~~~g~~~~dad~l~~~~ 146 (222)
T COG1418 96 EDPVVINAIEAHHGVEEIISRHSFLVAAADALSAARPGARLQDADRLDARG 146 (222)
T ss_pred ccccccchHHHhccccchhhHHHHHhhhhhcccccCCccccccHHHHHHHH
Confidence 99 666777777766556666999999999999999888775
No 33
>cd00077 HDc Metal dependent phosphohydrolases with conserved 'HD' motif
Probab=90.58 E-value=5.6 Score=37.03 Aligned_cols=108 Identities=18% Similarity=0.143 Sum_probs=74.2
Q ss_pred CHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccc------hhhcChhhhHHHHHHHHH------hCCCCH
Q 001359 740 TMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATS------VVMEFTSLAGVMACHYAL------RDGYSQ 807 (1092)
Q Consensus 740 Sl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~------MV~EFPELQGiMG~yYA~------~~GE~~ 807 (1092)
+++..+.++..++..++...+.+..+...+..||.|...-.... .-..+.......|..+++ ..+...
T Consensus 2 ~~~~Hs~~v~~~~~~~~~~~~~~~~~~~~l~~aaLlHDig~~~~~~~~~~~~~~~~~~h~~~g~~~~~~~~~~~~~~~~~ 81 (145)
T cd00077 2 HRFEHSLRVAQLARRLAEELGLSEEDIELLRLAALLHDIGKPGTPDAITEEESELEKDHAIVGAEILRELLLEEVIKLID 81 (145)
T ss_pred chHHHHHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHhcCCccCccccCHHHHHHHHhhHHHHHHHHHHhhhcccccccH
Confidence 67788999999999999887655545566778887764433211 011145566677787784 677778
Q ss_pred HHHHHHH-hhcCCCCCCC------CCCCcchhhHHHHhhhHHHHHHh
Q 001359 808 QIAEALL-EINLPRFSGD------VLPKTDVGTVLAVADRLDTLVGL 847 (1092)
Q Consensus 808 ~VA~AI~-EhYlPr~agD------~LP~t~~G~iLSLADKlDtLvG~ 847 (1092)
+++.++. -|+.+..... ..|.+..+.++.+||++|+....
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~~~~~~~~ 128 (145)
T cd00077 82 ELILAVDASHHERLDGLGYPDGLKGEEITLEARIVKLADRLDALRRD 128 (145)
T ss_pred HHHHHHHHHcccCCCCCCCCCCCCcccCCHHHHHHHHHHHHHHHhcC
Confidence 8888887 5553222211 22568999999999999999875
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=90.29 E-value=1.6 Score=38.26 Aligned_cols=75 Identities=15% Similarity=0.221 Sum_probs=56.7
Q ss_pred CHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhc
Q 001359 740 TMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEIN 817 (1092)
Q Consensus 740 Sl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhY 817 (1092)
..++-+.|+..++..||+.++++. ..+.-||.|.-......--....--+..+|...++.-|.+++|+.+|..|-
T Consensus 4 ~~~~H~~~v~~~a~~la~~~~~~~---~~l~~AalLHDiG~~~~~~~~~~~~H~~~g~~~l~~~~~~~~~~~~I~~Hh 78 (80)
T TIGR00277 4 NVLQHSLEVAKLAEALARELGLDV---ELARRGALLHDIGKPITREGVIFESHAVVGAEIARKYGEPLEVIDIIAEHH 78 (80)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCCH---HHHHHHHHHHccCCcccchHHHHHchHHHHHHHHHHcCCCHHHHHHHHHHc
Confidence 568899999999999999999875 346778888765433211000123477889999999999999999999884
No 35
>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=89.53 E-value=0.96 Score=58.30 Aligned_cols=104 Identities=28% Similarity=0.405 Sum_probs=62.4
Q ss_pred CCCCCccccc-eeeeEEEEcCCCcchHHHHHHHHHhcCCCCCCCceeEe-cCC-CCCcccccccccceeeec------C-
Q 001359 137 YGENPNRLQR-HTQFQVILKPDPGNSQDLFIRSLSALGIDVTEHDIRFV-EDN-WESPVLGAWGLGWEIWMD------G- 206 (1092)
Q Consensus 137 yg~npnrl~~-~~q~qvi~kp~p~~~q~lyl~sl~~~gi~~~~hdirfv-ed~-we~p~lgawglgwevw~~------g- 206 (1092)
||-+|+||+- || +.-+ |-|===++ +||+. +|=+||= +|| |+-=- |--|==-|+-.| |
T Consensus 109 ~~i~~~rl~vTv~-------~~D~---ea~~iW~~-~g~~~-~~i~~~~~~dNfW~~G~-GpcGPcsEi~yD~g~~~~~~ 175 (851)
T TIGR00344 109 LGLDKERLYVTVY-------EDDE---EAYEIWEK-HGIPA-ERIIRCGDKDNFWDMGD-GPCGPCTEIYYDRGEFVGGK 175 (851)
T ss_pred cCCChHHEEEEEc-------CCCH---HHHHHHHh-cCCCH-HHcccCCccCCcCCCCC-cCCccCeEEEEecCcccCCC
Confidence 7778888875 32 2222 33333334 77743 3446661 355 54332 666666777744 2
Q ss_pred -------------eeeeeeehhh---hcCC--cccCcceeeehhhhHHHHHHHhCCCcccee-eeC
Q 001359 207 -------------MEITQFTYFQ---QAGS--LQLSPVSVEITYGLERILMLLQGVDHFKKI-QYA 253 (1092)
Q Consensus 207 -------------meitqftyfq---q~gg--~~~~~~~~eitygleri~m~~q~~~~~~~~-~~~ 253 (1092)
+||==.-+.| .-+| .+|.--++---+|||||++.|||+.++||. .+.
T Consensus 176 ~~~~~~~~~~~r~lEiwNlVFmq~~~~~~g~~~~Lp~~~IDTGmGLERl~~vlqg~~snydtD~f~ 241 (851)
T TIGR00344 176 PGEPEFFEENDRYVEVWNLVFMQFNRDPDGNYTPLPKKNIDTGMGLERFVAVLQGVPTNYDTDIFL 241 (851)
T ss_pred CCcccccCCCCcEEEEeeeeeEeeeecCCCceeeCCCCeeecCcCHHHHHHHHcCCCCcchhhhHH
Confidence 6654333333 3344 345555667779999999999999999998 444
No 36
>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=89.37 E-value=1.8 Score=53.36 Aligned_cols=114 Identities=19% Similarity=0.203 Sum_probs=73.7
Q ss_pred cCCChHHHHHHHhhhhhhccCCCCCCcC--CCCcccCCCHHHHHHHHHHHHHhhhcCCC---CCHHHHHHHHhhhchHHh
Q 001359 954 KGQLFPKVVEAYSRPTRIVRGKDVDTAL--EVDETAFETIEEKALWTVYLSAKNKIHPG---INVDDFIEISSELVQPLE 1028 (1092)
Q Consensus 954 ~~~~f~~l~~a~KRv~NIlkk~~~~~~~--~vd~~ll~e~~E~~L~~a~~~~~~~~~~~---~~~~~~~~~l~~L~~~Id 1028 (1092)
+.....-+.=++.|+..|++|....... ..+.. +.++.|+.|...+......+..+ .+.......+-+|....+
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 4555678889999999999965321100 11223 34888999988887776554442 345566778899999999
Q ss_pred hhhccccccCC-CHHHHhhhhhhHHhhHHHHHHHHhhhccchH
Q 001359 1029 DFFNHVFVMVK-KESERTGLRCSRKLQTFQKALWICRFCLDFN 1070 (1092)
Q Consensus 1029 ~FFD~VmVm~e-D~~IR~N~~Ll~~L~ll~~i~~~f~~vaDfs 1070 (1092)
.|+++.-|..+ |+.+++. ||+ ++.....+......++-.+
T Consensus 521 ~yy~~~~Vl~~~~~~~~~~-RL~-L~~a~~~vl~~gL~lLGI~ 561 (566)
T TIGR00456 521 SFYKACPVLDAENENLAAA-RLA-LLKATRQTLKNGLQLLGIE 561 (566)
T ss_pred HHHhcCccCCCCCHHHHHH-HHH-HHHHHHHHHHHHHHhcCCC
Confidence 99999888875 6778777 333 3344444444444444333
No 37
>PRK12451 arginyl-tRNA synthetase; Reviewed
Probab=87.82 E-value=0.87 Score=56.08 Aligned_cols=109 Identities=12% Similarity=0.085 Sum_probs=70.1
Q ss_pred ChHHHHHHHhhhhhhccCCCCCCcCCCCcccCCCHHHHHHHHHHHHHhhhcCCC---CCHHHHHHHHhhhchHHhhhhcc
Q 001359 957 LFPKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHPG---INVDDFIEISSELVQPLEDFFNH 1033 (1092)
Q Consensus 957 ~f~~l~~a~KRv~NIlkk~~~~~~~~vd~~ll~e~~E~~L~~a~~~~~~~~~~~---~~~~~~~~~l~~L~~~Id~FFD~ 1033 (1092)
...-+.=||-|+..|++|.+... ...+-. |.++.|.+|-..+......+..+ .+.......+-+|....+.||+.
T Consensus 446 t~pYiQYa~AR~~SIlrka~~~~-~~~~~~-l~~~~E~~Ll~~L~~~~~~v~~a~e~~ep~~~~~yl~~LA~~fN~fy~~ 523 (562)
T PRK12451 446 TGPYVQYTHARACSILRKESVEF-ETCTFA-LKDDYSWSVVKLLNKFPQVIEAAFNKNEPSVISKYVLDVAQSFNKYYGN 523 (562)
T ss_pred ccHHHHHHHHHHHHHHHhcCCCc-cccccC-CCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHh
Confidence 34566678889999988643111 112222 67999999998887776555432 44666677889999999999999
Q ss_pred ccccCCCHHHHhhhhhhHHhhHHHHHHHHhhhccchH
Q 001359 1034 VFVMVKKESERTGLRCSRKLQTFQKALWICRFCLDFN 1070 (1092)
Q Consensus 1034 VmVm~eD~~IR~N~~Ll~~L~ll~~i~~~f~~vaDfs 1070 (1092)
.-|+. ++.+++. ||+ ++...+.+......++-.+
T Consensus 524 ~~Vl~-~~~~~~~-RL~-L~~a~~~vL~~gL~LLGI~ 557 (562)
T PRK12451 524 VRILE-ESAEKDS-RLA-LVYAVTVVLKEGLRLLGVE 557 (562)
T ss_pred CCCCC-CHHHHHH-HHH-HHHHHHHHHHHHHHhcCCC
Confidence 88885 5567665 333 3444444444444444333
No 38
>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=87.62 E-value=4 Score=44.99 Aligned_cols=100 Identities=17% Similarity=0.179 Sum_probs=69.4
Q ss_pred CHHHHHHHHHHHHHHHHHH----hCCChhHHHHHHHHHHhhhhccccchhh----cChhhhHHHHHHHHHhC-CCCH---
Q 001359 740 TMLDKTMRVQNMVRKLSLD----LGINEDMLQIVQEAASLAMSDLATSVVM----EFTSLAGVMACHYALRD-GYSQ--- 807 (1092)
Q Consensus 740 Sl~DK~~Ri~~La~~La~~----l~~~~~~~~~~~RAA~LaKaDL~T~MV~----EFPELQGiMG~yYA~~~-GE~~--- 807 (1092)
-.++-+.|+-.++..|+.. ++++. +.+.-||.|--.-++-.-.. -|-+.-+...+...+.. |-++
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 6789999999999999974 35654 55778888865433211111 23344455666666666 7666
Q ss_pred -HHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHH
Q 001359 808 -QIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLV 845 (1092)
Q Consensus 808 -~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLv 845 (1092)
.|+.||.-|-.|.. .-+.++.|.+|..||++|.+-
T Consensus 132 ~~V~~aI~~H~~~~~---~~~~~~e~~lvq~Ad~lDa~G 167 (228)
T TIGR03401 132 EAVAEAIIRHQDLGV---DGTITTLGQLLQLATIFDNVG 167 (228)
T ss_pred HHHHHHHHHHhCCCC---CCCcCHHHHHHHHHHHHhHcc
Confidence 57789999955544 445688999999999999853
No 39
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=85.93 E-value=3.8 Score=49.93 Aligned_cols=119 Identities=14% Similarity=0.233 Sum_probs=76.7
Q ss_pred CcceEEeecCCCCCCCCCCCCCCccccceeeeEEEEcCCC---cchHHHHHHHHHhcCCCCCCCceeEecCC--CCCccc
Q 001359 119 EPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDP---GNSQDLFIRSLSALGIDVTEHDIRFVEDN--WESPVL 193 (1092)
Q Consensus 119 ~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p---~~~q~lyl~sl~~~gi~~~~hdirfved~--we~p~l 193 (1092)
.|.++.++..+.|.+.- ..-|+-.|||.=+++-=.. .++..+-...++++|+ .++||.-.= +--|++
T Consensus 356 ~P~k~fsigrVfR~d~~----DatH~~eFhQ~Eg~vi~~~~s~~~L~~~l~~f~~~lG~----~~~RfrP~yfPfTEPS~ 427 (494)
T PTZ00326 356 KPKKYFSIDRVFRNETL----DATHLAEFHQVEGFVIDRNLTLGDLIGTIREFFRRIGI----TKLRFKPAFNPYTEPSM 427 (494)
T ss_pred CCceEEecCCEecCCCC----CCCcCceeEEEEEEEEeCCCCHHHHHHHHHHHHHhcCC----CceEEecCCCCCCCCee
Confidence 49999999999999863 4578889999986553322 3455555678889997 689997210 111221
Q ss_pred ccccccceeeec--C--eeeeeeehhh----hcCCcccCcceeeehhhhHHHHHHHhCCCcccee
Q 001359 194 GAWGLGWEIWMD--G--MEITQFTYFQ----QAGSLQLSPVSVEITYGLERILMLLQGVDHFKKI 250 (1092)
Q Consensus 194 gawglgwevw~~--g--meitqftyfq----q~gg~~~~~~~~eitygleri~m~~q~~~~~~~~ 250 (1092)
= -+||+. | +||-.--.|+ ...|++.+....=.--||||+||..=|++++-|+
T Consensus 428 E-----v~v~~~~~gkWIEIgg~Gm~rpevL~~~Gi~~~~~~~A~GlGleRlaMi~ygi~DIR~l 487 (494)
T PTZ00326 428 E-----IFGYHPGLKKWVEVGNSGIFRPEMLRPMGFPEDVTVIAWGLSLERPTMIKYGIKNIRDL 487 (494)
T ss_pred E-----EEEEecCCCcEEEEeCcCccCHHHHHhcCCCCcceEEEEEecHHHHHHHHhCCcHHHHH
Confidence 1 112221 2 5555555555 3345654432344557899999999999998776
No 40
>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=85.87 E-value=2.7 Score=50.52 Aligned_cols=161 Identities=15% Similarity=0.215 Sum_probs=96.8
Q ss_pred HHHHHHHHHHHHhhcCceeeeccccc-------cc--cc--cCCHH------H---------Hhhhc------CCCcceE
Q 001359 76 FQQAIQRLQEYWASVGCSVMQCSNTE-------VG--AG--TMNPL------T---------FLRVL------GPEPWNV 123 (1092)
Q Consensus 76 ~q~~i~~l~~~w~~~gc~~~~p~~~e-------~g--ag--t~~p~------t---------~~~~l------~~~~~~~ 123 (1092)
...+...+.++....|+.=+..+-.+ +| .| ..||. + ++|.+ -+.|-++
T Consensus 242 ~~~Led~IRevfvg~GFqEV~TPtLt~eE~~E~m~~~~g~eI~n~Iyk~ee~lvLRPdLTPsLaR~La~N~~~l~~PqKI 321 (453)
T TIGR02367 242 LGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRVDKNFCLRPMLAPNLYNYLRKLDRALPDPIKI 321 (453)
T ss_pred HHHHHHHHHHHHHHCCCEEEECCeecchHHHHhhcCccCCcccccceEecCceEecccCHHHHHHHHHHhhhhccCCeeE
Confidence 56777788888999999876666652 22 22 12222 2 33333 2669999
Q ss_pred EeecCCCCCCCCCCCCCCccccceeeeEEEEc---CCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccc
Q 001359 124 AYVEPSIRPDDSRYGENPNRLQRHTQFQVILK---PDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGW 200 (1092)
Q Consensus 124 ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~k---p~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgw 200 (1092)
.|+.++.|...+. ..|+..++|.=+.+= .+-.++..+--..|+.||| |++|.|+.|.=|--+|
T Consensus 322 FEIGkVFR~E~~~----~thlREF~QL~~eIaG~~atfaDlealL~e~Lr~LGI-----dfeitE~s~FI~GR~A----- 387 (453)
T TIGR02367 322 FEIGPCYRKESDG----KEHLEEFTMLNFCQMGSGCTRENLEAIIKDFLDHLEI-----DFEIVGDSCMVYGDTL----- 387 (453)
T ss_pred EEEcCeEecCCCC----CCCcCeEEEEEEEEECCCCCHHHHHHHHHHHHHHCCC-----ceEEeCCCceEeccee-----
Confidence 9999999876542 257888888876553 3334555555668899998 4888766443222222
Q ss_pred eeeecCeeeeeeehhhh-----cCCcccCcceeeehhhhHHHHHHHhCCCccceeeeC
Q 001359 201 EIWMDGMEITQFTYFQQ-----AGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYA 253 (1092)
Q Consensus 201 evw~~gmeitqftyfqq-----~gg~~~~~~~~eitygleri~m~~q~~~~~~~~~~~ 253 (1092)
+|-.+++||. .-+|=- -=|++..-+..|| |||||+|...|.+||-|+.-+
T Consensus 388 ~I~~G~~Ev~-~GvfGEihpL~~fGIe~PVvAfEI--~LeRLam~~~g~~dir~~~~~ 442 (453)
T TIGR02367 388 DIMHGDLELS-SAVVGPIPLDREWGIDKPWIGAGF--GLERLLKVKHDFKNIKRAARS 442 (453)
T ss_pred eeecCCEEEe-eEEEeecccccccCCCCccEEEEe--ehhHHHHHHhCcHHHHHHHhh
Confidence 1211112220 001100 1144444445554 789999999999999988544
No 41
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=82.74 E-value=8.1 Score=46.99 Aligned_cols=124 Identities=20% Similarity=0.396 Sum_probs=77.1
Q ss_pred HhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHH---HHHHHHhcCCCCCCCceeEecCCC
Q 001359 112 FLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDL---FIRSLSALGIDVTEHDIRFVEDNW 188 (1092)
Q Consensus 112 ~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~q~l---yl~sl~~~gi~~~~hdirfved~w 188 (1092)
++..-++.|.++.++-++.|+..- ...|+..++|.=+++=-.+.++-++ --.-|+.+||. +++|.....
T Consensus 342 ~l~~~~~~p~rlFeiGrVFR~e~~----d~~~l~Ef~ql~~~i~G~~~~f~elkg~l~~ll~~lGi~----~~~~~~~~~ 413 (489)
T PRK04172 342 YLASRPEPPQKYFSIGRVFRPDTI----DATHLPEFYQLEGIVMGEDVSFRDLLGILKEFYKRLGFE----EVKFRPAYF 413 (489)
T ss_pred HHHhcCCCCeEEEEecceEcCCCC----CcccCCchheEEEEEEeCCCCHHHHHHHHHHHHHHhCCc----eEEEcCCcC
Confidence 344457889999999999987421 2245668888877775544444443 34456788983 688865433
Q ss_pred C--CcccccccccceeeecC---eeeeeeehh----hhcCCcccCcceeeehhhhHHHHHHHhCCCcccee
Q 001359 189 E--SPVLGAWGLGWEIWMDG---MEITQFTYF----QQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKI 250 (1092)
Q Consensus 189 e--~p~lgawglgwevw~~g---meitqftyf----qq~gg~~~~~~~~eitygleri~m~~q~~~~~~~~ 250 (1092)
. .|..-| +|+++| .||--+-.| .+--|++...+..|| |||||+|..=|++++-|+
T Consensus 414 p~~~P~~~~-----~i~~~g~~w~eiG~~G~l~Pevl~~~gi~~~v~~~el--~le~l~m~~~~~~dir~l 477 (489)
T PRK04172 414 PFTEPSVEV-----EVYHEGLGWVELGGAGIFRPEVLEPLGIDVPVLAWGL--GIERLAMLRLGLDDIRDL 477 (489)
T ss_pred CCCCCeEEE-----EEEECCCCeEEEEeccccCHHHHHHCCCCCceEEEEE--cHHHHHHHHhCCcHHHHH
Confidence 2 555444 344444 444433222 122345544445554 889999999999998776
No 42
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=82.61 E-value=4.9 Score=48.10 Aligned_cols=160 Identities=18% Similarity=0.292 Sum_probs=102.0
Q ss_pred HHHHHHHHHHHHhhcCceeeeccccc-------ccc--cc-----C---CHHH---------Hhhh------cCCCcceE
Q 001359 76 FQQAIQRLQEYWASVGCSVMQCSNTE-------VGA--GT-----M---NPLT---------FLRV------LGPEPWNV 123 (1092)
Q Consensus 76 ~q~~i~~l~~~w~~~gc~~~~p~~~e-------~ga--gt-----~---~p~t---------~~~~------l~~~~~~~ 123 (1092)
...+...+.+|....|+.-..++... +|. |+ + .... +++. ..+.|-++
T Consensus 206 ~s~Le~aIR~~f~~~GF~EV~TPtLt~ee~~e~~g~~~g~~i~~~my~ideel~LRpsLtPsLlr~la~n~k~~~~P~RI 285 (417)
T PRK09537 206 LGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRVDKNFCLRPMLAPGLYNYLRKLDRILPDPIKI 285 (417)
T ss_pred HHHHHHHHHHHHHHCCCEEEECCeeecHHHHHHhCCCCcccchhhheeeCCceEehhhhHHHHHHHHHhhhhcccCCeeE
Confidence 46778888999999999988887772 121 10 1 1112 2222 24779999
Q ss_pred EeecCCCCCCCCCCCCCCccccceeeeEEEEcCCC---cchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccc
Q 001359 124 AYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDP---GNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGW 200 (1092)
Q Consensus 124 ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p---~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgw 200 (1092)
.|+-++.|.... |. .++..++|+-+.+==+. .++..+--+.|+.|||+ .+.+++++.-| |=+=
T Consensus 286 FEIG~VFR~E~~--g~--~hlrEf~Ql~~~iiGs~~~f~dL~~lleeLL~~LGI~-----f~i~s~~~fi~-----GR~a 351 (417)
T PRK09537 286 FEIGPCYRKESD--GK--EHLEEFTMVNFCQMGSGCTRENLENIIDDFLKHLGID-----YEIIGDNCMVY-----GDTI 351 (417)
T ss_pred EEEeceEecCCC--CC--CCcceEEEEEEEEeCCchHHHHHHHHHHHHHHHCCCC-----cEEecCCccee-----cCeE
Confidence 999999998753 32 47889999988764332 24566667789999984 56666654433 3333
Q ss_pred eeeecCeee--eeeeh--hhhcCCcccCcceeeehhhhHHHHHHHhCCCccceee
Q 001359 201 EIWMDGMEI--TQFTY--FQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQ 251 (1092)
Q Consensus 201 evw~~gmei--tqfty--fqq~gg~~~~~~~~eitygleri~m~~q~~~~~~~~~ 251 (1092)
+|+++|.|| -=|-- -..-=|++..-+..|| |||||+|...|++||.+..
T Consensus 352 dI~~g~~el~~G~fGEi~VLe~fGI~~PVva~EI--dLerL~~~~~g~~~ir~~~ 404 (417)
T PRK09537 352 DIMHGDLELSSAVVGPIPLDREWGIDKPWIGAGF--GLERLLKVKHGYKNIKRAS 404 (417)
T ss_pred EEEeCCEEEeeEEEEEEehhhhcCCCCceEEEEE--eHHHHHHHHhCcHHHHHhh
Confidence 444444443 21111 1222355555556665 7899999999999987653
No 43
>PRK10119 putative hydrolase; Provisional
Probab=82.44 E-value=9.5 Score=42.33 Aligned_cols=102 Identities=18% Similarity=0.138 Sum_probs=63.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchhhcC---hhhhHHHHHHHHHh--CCCCHH---
Q 001359 737 KLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEF---TSLAGVMACHYALR--DGYSQQ--- 808 (1092)
Q Consensus 737 kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV~EF---PELQGiMG~yYA~~--~GE~~~--- 808 (1092)
.-|-=++.++||.++|..||+.-+.+. ..+.-||.|--..-...-..+- ++..--+..-+-+. .|-+++
T Consensus 22 ~~~HD~~Hi~RV~~lA~~Ia~~e~~D~---~vv~lAAlLHDv~d~~k~~~~~~~~~~~~a~~a~~~L~~~~~g~~~~~i~ 98 (231)
T PRK10119 22 DAAHDICHFRRVWATAQKLAADDDVDM---LVVLTACYFHDIVSLAKNHPQRHRSSILAAEETRRILREDFPDFPAEKIE 98 (231)
T ss_pred CCccChHHHHHHHHHHHHHHHhcCCCH---HHHHHHHHHhhcchhhhcCccccchhhHHHHHHHHHHHHcccCcCHHHHH
Confidence 444558899999999999998776553 5677788886542110000010 11112222223333 577775
Q ss_pred -HHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHH
Q 001359 809 -IAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTL 844 (1092)
Q Consensus 809 -VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtL 844 (1092)
|..+|..|=. ++..-|.|..|.||.=|||||.|
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 4555655543 44456899999999999999986
No 44
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=80.40 E-value=16 Score=43.87 Aligned_cols=118 Identities=13% Similarity=0.159 Sum_probs=83.1
Q ss_pred cchhhhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeecccCccCcchhhhhcCCcccccccc
Q 001359 387 RLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFDQ 466 (1092)
Q Consensus 387 ~~lLlEIGtEELPa~~l~~a~~ql~~~~~~~L~~~~L~~~~I~~f~TPRRLav~V~~l~~~q~d~~~e~kGPpv~~Afd~ 466 (1092)
.-+.+++-.+++|+-.+.+=++-..+.+.+.|+.++...=...+++.-.. +.++-.+...+-...+...|||+
T Consensus 280 ~~~~~~f~~p~~v~Dil~pQl~r~~~~i~~~L~~~gF~v~r~~~~~~~~~-~~l~~el~~~~lp~~~~h~GPpv------ 352 (408)
T TIGR03671 280 TLLAIVFRTPDVVDDILYPQLERSGRSLVKLLEREGFEVLRYGVWADENT-CYLLLELESAELPRVKLHVGPPV------ 352 (408)
T ss_pred EEEEEEeCCCCCCccchhHHHHHHHHHHHHHHHHCCCEEEEeeeecCCCe-EEEEEEeeccccCCceeeeCCCc------
Confidence 45777888899999999998888899999999999886655566766666 55565677777778889999999
Q ss_pred CCCCc-HHHHHHHHHCCCCccCceEEEeCCeeEEEEEEEecchhHHHHHHHHH
Q 001359 467 QGNPT-KAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDV 518 (1092)
Q Consensus 467 dG~pT-kAa~GFak~~Gv~~~~L~~~~~~kgeYl~~~k~~~G~~t~eiL~~il 518 (1092)
++ ..+++|.+++.-...--.+ +++. +++.+..+-..+.++|.+.+
T Consensus 353 ---~~~~~a~~F~~k~~~~~~gp~I---~~~r-~~~~~~R~~~~~~~~l~~~~ 398 (408)
T TIGR03671 353 ---WVRDHAEKFIEKYEDVDYGPFI---EGDR-LYVEKERKYTTAEDLLRDEL 398 (408)
T ss_pred ---cchhHHHHHHHHhccCCCCCEe---eCCE-EEEEEeeecccHHHHHHHHh
Confidence 33 5789999998321111122 2333 44455555677777776554
No 45
>COG1713 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]
Probab=78.63 E-value=8 Score=41.71 Aligned_cols=108 Identities=18% Similarity=0.169 Sum_probs=79.1
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH---hhhhccccc-------------hhhcChh-hhHHHHHHHHHh-
Q 001359 741 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAAS---LAMSDLATS-------------VVMEFTS-LAGVMACHYALR- 802 (1092)
Q Consensus 741 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~---LaKaDL~T~-------------MV~EFPE-LQGiMG~yYA~~- 802 (1092)
-++.+.|+.+.|..||+..+.|.+ .+.-||. +||..=... .-.++|+ |.|-.|.|++++
T Consensus 18 R~~H~l~V~~~A~~LA~~y~~d~~---kA~~AgilHD~aK~~p~~~~~~~~~~~~~~~~~~~~~~~llH~~vgay~~~~~ 94 (187)
T COG1713 18 RFEHCLGVAETAIELAEAYGLDPE---KAYLAGILHDIAKELPEQKLLKIAKKYGLELDLERESPLLLHGKVGAYLLKEE 94 (187)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCHH---HHHHHHHHHHHHhhCCHHHHHHHHHHhCCCchhhccChHHHHHHHHHHHHHHH
Confidence 367899999999999999999874 3555543 355433222 2345555 689999999998
Q ss_pred CC-CCHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHHhhhcCCCCCCCCCh--hhhhHHHH
Q 001359 803 DG-YSQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDP--FGLRRISY 868 (1092)
Q Consensus 803 ~G-E~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG~F~iG~~PTGSkDP--fALRRaAl 868 (1092)
-| ++++|=.||+-|--|+..- |..+.+|=|||||. =|-..| --+|+.|+
T Consensus 95 fGi~De~VL~AI~~HTtg~~~m-----t~ldkIiyiAD~iE------------p~R~~pgv~~~R~~a~ 146 (187)
T COG1713 95 FGIKDEEVLSAIEYHTTGRKQM-----TLLDKILYVADKIE------------PGRGFPGVDKIRQIAL 146 (187)
T ss_pred hCCCcHHHHHHHHHhccCCCcc-----chhhheeeeecccc------------CCCCCCCchhHHHHHH
Confidence 55 6779999999999998544 67799999999986 344555 55666554
No 46
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=77.70 E-value=6.7 Score=48.81 Aligned_cols=90 Identities=19% Similarity=0.264 Sum_probs=63.3
Q ss_pred CChHHHHHHHhhhhhhccCCCCCCcCCCCc---ccCCCHHHHHHHHHHHHHhhhcCCC---CCHHHHHHHHhhhchHHhh
Q 001359 956 QLFPKVVEAYSRPTRIVRGKDVDTALEVDE---TAFETIEEKALWTVYLSAKNKIHPG---INVDDFIEISSELVQPLED 1029 (1092)
Q Consensus 956 ~~f~~l~~a~KRv~NIlkk~~~~~~~~vd~---~ll~e~~E~~L~~a~~~~~~~~~~~---~~~~~~~~~l~~L~~~Id~ 1029 (1092)
....=+.=||.|+..|++|.+.. ...... ..+.++.|.+|...+.....-+..+ ..-...-..|.+|....+.
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 55567888999999999975422 111221 4788999999999887775444332 1122234456888899999
Q ss_pred hhccccccCCCHH-HHhh
Q 001359 1030 FFNHVFVMVKKES-ERTG 1046 (1092)
Q Consensus 1030 FFD~VmVm~eD~~-IR~N 1046 (1092)
|++++-|+.++.. +|..
T Consensus 533 fY~~~~Vl~~~~~~~~~a 550 (577)
T COG0018 533 FYNACPVLGAENEELRAA 550 (577)
T ss_pred HHhhCCcCCCCcHHHHHH
Confidence 9999999987655 8987
No 47
>COG2206 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]
Probab=72.57 E-value=21 Score=41.48 Aligned_cols=102 Identities=22% Similarity=0.259 Sum_probs=75.4
Q ss_pred HHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccc---cch--------hhcC--hhhhHHHHHHHHHhCC-CCH
Q 001359 742 LDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLA---TSV--------VMEF--TSLAGVMACHYALRDG-YSQ 807 (1092)
Q Consensus 742 ~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~---T~M--------V~EF--PELQGiMG~yYA~~~G-E~~ 807 (1092)
+--+.|+..++..||+++|+++++...+..||.|-...-. +.+ -.|| -....++|..++...+ .++
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 4468999999999999999999888888889888754422 111 1333 3445789999999888 444
Q ss_pred H-HHHHHHhhc------CCCC-CCCCCCCcchhhHHHHhhhHHHHH
Q 001359 808 Q-IAEALLEIN------LPRF-SGDVLPKTDVGTVLAVADRLDTLV 845 (1092)
Q Consensus 808 ~-VA~AI~EhY------lPr~-agD~LP~t~~G~iLSLADKlDtLv 845 (1092)
. .+.|+.-|. .|++ .|+++ +..+.|+|+||=.|.++
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 3 445555444 5766 46777 56899999999999997
No 48
>PRK01611 argS arginyl-tRNA synthetase; Reviewed
Probab=69.66 E-value=6.6 Score=47.82 Aligned_cols=107 Identities=19% Similarity=0.194 Sum_probs=64.6
Q ss_pred HHHHHHHhhhhhhccCCCCCCcCCCCcccCCCHHHHHHHHHHHHHhhhcCCC---CCHHHHHHHHhhhchHHhhhhcccc
Q 001359 959 PKVVEAYSRPTRIVRGKDVDTALEVDETAFETIEEKALWTVYLSAKNKIHPG---INVDDFIEISSELVQPLEDFFNHVF 1035 (1092)
Q Consensus 959 ~~l~~a~KRv~NIlkk~~~~~~~~vd~~ll~e~~E~~L~~a~~~~~~~~~~~---~~~~~~~~~l~~L~~~Id~FFD~Vm 1035 (1092)
.-+.=++.|+..|+++.+.. ........+.++.|+.|...+..+...+..+ .+.......+.+|....+.|+++.-
T Consensus 391 ~yvqYa~aR~~sil~k~~~~-~~~~~~~~l~~~~e~~Ll~~L~~~~~~v~~a~~~~~p~~l~~yl~~la~~f~~fY~~~~ 469 (507)
T PRK01611 391 PYVQYAHARICSILRKAAEA-GIDLLLALLTEEEEKELIKKLAEFPEVVESAAEELEPHRIANYLYELAGAFHSFYNRVL 469 (507)
T ss_pred HHHHHHHHHHHHHHHhhhcc-CccccccccCCHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHCC
Confidence 34555777999999863211 1111113477899999998888776555432 2344445667888899999999876
Q ss_pred ccCCCHH-HHhhhhhhHHhhHHHHHHHHhhhccch
Q 001359 1036 VMVKKES-ERTGLRCSRKLQTFQKALWICRFCLDF 1069 (1092)
Q Consensus 1036 Vm~eD~~-IR~N~~Ll~~L~ll~~i~~~f~~vaDf 1069 (1092)
..+|++ +++. ||+ ++.....+......++-.
T Consensus 470 -l~~~~~~~~~~-Rl~-L~~a~~~vl~~~l~lLgi 501 (507)
T PRK01611 470 -LKDEEEELRNA-RLA-LVKATAQVLKNGLDLLGI 501 (507)
T ss_pred -CCCChHHHHHH-HHH-HHHHHHHHHHHHHHhcCC
Confidence 556655 7666 333 334444443443333333
No 49
>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=67.73 E-value=49 Score=37.09 Aligned_cols=166 Identities=22% Similarity=0.361 Sum_probs=98.8
Q ss_pred chHHHHHHHHHHHHhhcCceeeeccccc--------cccccCCH----------------------------HHHhhhc-
Q 001359 74 PTFQQAIQRLQEYWASVGCSVMQCSNTE--------VGAGTMNP----------------------------LTFLRVL- 116 (1092)
Q Consensus 74 ~~~q~~i~~l~~~w~~~gc~~~~p~~~e--------~gagt~~p----------------------------~t~~~~l- 116 (1092)
.-.+.++.++.+++...|+..+..+.+| ++.---|| +..+++|
T Consensus 17 hp~~~~~~~i~~~~~~~Gf~e~~~~~v~s~~~nFD~Ln~p~dHpaR~~~Dtfyi~~p~~~~~~~~vLRThts~~~~~~l~ 96 (247)
T PF01409_consen 17 HPITKFIREIRDIFVGMGFQEVEGPEVESEFYNFDALNIPQDHPARDMQDTFYISNPYSAEEDYSVLRTHTSPGQLRTLN 96 (247)
T ss_dssp SHHHHHHHHHHHHHHCTTSEEESTTSEEEHHHHTGGGTSTTTSCGGCGTTSEBSCSSSBCECSSEEE-SSTHHHHHHHHT
T ss_pred CHHHHHHHHHHHHHHHCCCeEeeCCeEEeeHHHHHhhCcCCCccccccccceeeeccccccchhhhhhhhhhHHHHHHHH
Confidence 3489999999999999999988865543 22222233 2234556
Q ss_pred --CCCcceEEeecCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHH---HHHHHHhc-CCCCCCCceeEecCCC--
Q 001359 117 --GPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDL---FIRSLSAL-GIDVTEHDIRFVEDNW-- 188 (1092)
Q Consensus 117 --~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~q~l---yl~sl~~~-gi~~~~hdirfved~w-- 188 (1092)
.+.|+++..+-.+.|+++- ..+.+-.+||.=.++==..-++.+| .-.=++.| |++ =.+||.+.--
T Consensus 97 ~~~~~p~kif~iG~VyR~D~~----D~th~~~f~Qleg~~~~~~~~f~~Lk~~l~~l~~~lfG~~---~~~r~~ps~fPf 169 (247)
T PF01409_consen 97 KHRPPPIKIFEIGKVYRRDEI----DATHLPEFHQLEGLVVDKNVTFEDLKGTLEELLKELFGID---VKVRFRPSYFPF 169 (247)
T ss_dssp TTSHSSEEEEEEEEEESSSCS----BSSBESEEEEEEEEEEETTE-HHHHHHHHHHHHHHHHTTT---EEEEEEECEETT
T ss_pred HhcCCCeEEEecCceEecCCc----ccccCccceeEeeEEEecccchhHHHHHHHHHHHHHhhcc---cceEeecCCCCc
Confidence 7789999999999999773 2355666777665443233455443 34445777 974 2588877542
Q ss_pred CCccccc---c----cccc-eeeecCeeeeeeehhhhcCCcc--cCcceeeehhhhHHHHHHHhCCCccceee
Q 001359 189 ESPVLGA---W----GLGW-EIWMDGMEITQFTYFQQAGSLQ--LSPVSVEITYGLERILMLLQGVDHFKKIQ 251 (1092)
Q Consensus 189 e~p~lga---w----glgw-evw~~gmeitqftyfqq~gg~~--~~~~~~eitygleri~m~~q~~~~~~~~~ 251 (1092)
-.|..-+ | +-|| ||--=||= -. .. -.-.|++ +.-.+. --|||||||...|++++-++-
T Consensus 170 tePs~e~~i~~~~~~~~~wiEvgg~G~v-hP-~V-l~~~gid~~~~~~A~--G~GleRlam~~~gi~diR~~~ 237 (247)
T PF01409_consen 170 TEPSREADIYCGVCKGGGWIEVGGCGMV-HP-EV-LENWGIDEEYPGFAF--GLGLERLAMLKYGIPDIRLLY 237 (247)
T ss_dssp EEEEEEEEEEEECTTTTCEEEEEEEEEE--H-HH-HHHTT--TTSEEEEE--EEEHHHHHHHHHT-SSGGHHH
T ss_pred ccCCeEEEEEEeeccCCCceEEeecccc-cH-hh-hhccCcCccceEEEe--cCCHHHHHHHHcCCchHHHHh
Confidence 3344322 2 4455 33222331 10 11 2345773 333333 359999999999999987653
No 50
>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=66.11 E-value=19 Score=38.52 Aligned_cols=58 Identities=19% Similarity=0.230 Sum_probs=43.1
Q ss_pred CCCcceEEeecCCCCCCCCCCCCCCccccceeee--EEEEcC--CC---cchHHHHHHHHHhcCCC
Q 001359 117 GPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQF--QVILKP--DP---GNSQDLFIRSLSALGID 175 (1092)
Q Consensus 117 ~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~--qvi~kp--~p---~~~q~lyl~sl~~~gi~ 175 (1092)
.+-|.+++|+.+|.|-.-+-. .-.-|+..++|- .++..| +. ..+.+++.+.|+.||++
T Consensus 85 ~~lP~r~~~~g~~fR~E~~~~-~gl~R~reF~q~e~~~~~~~~~~~~~~~e~~~~~~~~l~~lgl~ 149 (235)
T cd00670 85 RALPLRLDQIGPCFRHEPSGR-RGLMRVREFRQVEYVVFGEPEEAEEERREWLELAEEIARELGLP 149 (235)
T ss_pred hhcCeeeeeecccccCCCCCC-CCChhheeeeeceEEEEcCHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 456999999999999765522 223588889885 456666 22 46778999999999984
No 51
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=63.98 E-value=24 Score=42.85 Aligned_cols=130 Identities=16% Similarity=0.183 Sum_probs=88.1
Q ss_pred cchhhhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccccceeeecccCccCcchhhhhcCCcccccccc
Q 001359 387 RLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPRRLVVFVESLCQKQSENEFEARGPPVSKAFDQ 466 (1092)
Q Consensus 387 ~~lLlEIGtEELPa~~l~~a~~ql~~~~~~~L~~~~L~~~~I~~f~TPRRLav~V~~l~~~q~d~~~e~kGPpv~~Afd~ 466 (1092)
.-+.+++..+++|+..+.+=++-..+.+.+.|+.++...=...+++.--+-++++ .+...+-...+...|||+
T Consensus 283 ~~~~v~f~~p~~v~Dil~pQl~r~~~~i~~~L~~~gF~v~~~~~~~d~~~~~l~~-el~~~~lp~~~~h~GPpv------ 355 (447)
T PRK13300 283 TVLALEFPRPDIVEDILYPQLERSLRSIVKLLEREGFEVLRSGAWADEDRAYLLL-ELEVAELPNVKLHIGPPV------ 355 (447)
T ss_pred eEEEEEeCCCCCCccchhHHHHHHHHHHHHHHHHCCCEEEEeeeecCCCeEEEEE-EeecccCCCeeeeeCCCc------
Confidence 5588888999999999999999999999999999998665556676645555544 455555577888999999
Q ss_pred CCCCcHH-HHHHHHHCCCCccCceEEEeCCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCccccc
Q 001359 467 QGNPTKA-VEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRW 533 (1092)
Q Consensus 467 dG~pTkA-a~GFak~~Gv~~~~L~~~~~~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRW 533 (1092)
+++. ++.|.+++.-+..-.. ++++.|+. .+..+-..+.++|. ...+.+....|..+.
T Consensus 356 ---~~~~~a~~F~~k~~~~~~g~~---I~~~r~~~-~~~R~~~~~~~~l~---~~~~~~~~lgk~i~~ 413 (447)
T PRK13300 356 ---WVREHAENFIEKYEDSVYGPF---IEGDRLYV-ERERKYTTAEELLE---SDALLKVSLGKNVLE 413 (447)
T ss_pred ---CchhhHHHHHHHhccCCCCeE---EeCCEEEE-EEeeccCcHHHHHh---hhhhhccchhhhhhh
Confidence 3344 8999999844322222 23444444 44444567777776 133445555554444
No 52
>COG1011 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=60.68 E-value=7.4 Score=40.97 Aligned_cols=87 Identities=26% Similarity=0.523 Sum_probs=59.9
Q ss_pred HHHhhhcCCCcceEEeecCCC-CCCCCCCCCCCccccceeeeEE------EEcCCCcchHHHHHHHHHhcCCCCCCCcee
Q 001359 110 LTFLRVLGPEPWNVAYVEPSI-RPDDSRYGENPNRLQRHTQFQV------ILKPDPGNSQDLFIRSLSALGIDVTEHDIR 182 (1092)
Q Consensus 110 ~t~~~~l~~~~~~~ayv~p~~-rp~d~ryg~npnrl~~~~q~qv------i~kp~p~~~q~lyl~sl~~~gi~~~~hdir 182 (1092)
..+|+.|+.+ ++++=+-..- .-...+-..-+ |..|+..-+ +.||+| ++|-..++.+|++ .-++-
T Consensus 105 ~~~L~~l~~~-~~l~ilTNg~~~~~~~~l~~~g--l~~~Fd~v~~s~~~g~~KP~~----~~f~~~~~~~g~~--p~~~l 175 (229)
T COG1011 105 LEALKELGKK-YKLGILTNGARPHQERKLRQLG--LLDYFDAVFISEDVGVAKPDP----EIFEYALEKLGVP--PEEAL 175 (229)
T ss_pred HHHHHHHHhh-ccEEEEeCCChHHHHHHHHHcC--ChhhhheEEEecccccCCCCc----HHHHHHHHHcCCC--cceEE
Confidence 4567777777 7777765421 11111111111 344444443 358887 6888999999998 45699
Q ss_pred EecCCCCCcccccccccce-eeec
Q 001359 183 FVEDNWESPVLGAWGLGWE-IWMD 205 (1092)
Q Consensus 183 fved~we~p~lgawglgwe-vw~~ 205 (1092)
||.|+.+|=..||--+||. ||++
T Consensus 176 ~VgD~~~~di~gA~~~G~~~vwi~ 199 (229)
T COG1011 176 FVGDSLENDILGARALGMKTVWIN 199 (229)
T ss_pred EECCChhhhhHHHHhcCcEEEEEC
Confidence 9999999999999999998 5876
No 53
>PLN02286 arginine-tRNA ligase
Probab=59.82 E-value=58 Score=40.75 Aligned_cols=88 Identities=18% Similarity=0.220 Sum_probs=56.7
Q ss_pred CCChHHHHHHHhhhhhhccCCCCCC-cC-CCCcccCCCHHHHHHHHHHHHHhhhcCCC---CCHHHHHHHHhhhchHHhh
Q 001359 955 GQLFPKVVEAYSRPTRIVRGKDVDT-AL-EVDETAFETIEEKALWTVYLSAKNKIHPG---INVDDFIEISSELVQPLED 1029 (1092)
Q Consensus 955 ~~~f~~l~~a~KRv~NIlkk~~~~~-~~-~vd~~ll~e~~E~~L~~a~~~~~~~~~~~---~~~~~~~~~l~~L~~~Id~ 1029 (1092)
.....-|.=||.|+..|++|.+... .. ..++..|.++.|++|-..+......+..+ ..-......|.+|....+.
T Consensus 455 g~t~pYlQYahAR~~SIlrKa~~~~~~~~~~~~~~l~~~~E~~L~~~l~~fp~vv~~a~~~~~P~~l~~Yl~~LA~~F~~ 534 (576)
T PLN02286 455 GNTAVYLLYAHARICSIIRKSGKDIDELKKTGKIVLDHPDERALGLHLLQFPEVVEEACTDLLPNRLCEYLYNLSEKFTK 534 (576)
T ss_pred CCChHHHHHHHHHHHHHHHhccCccccccccccccCCCHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHH
Confidence 3444467889999999999753210 00 01223478999999998887775444321 1222234556889999999
Q ss_pred hhccccccCCCHH
Q 001359 1030 FFNHVFVMVKKES 1042 (1092)
Q Consensus 1030 FFD~VmVm~eD~~ 1042 (1092)
|+++.-|..+++.
T Consensus 535 fY~~~~Vl~~~~~ 547 (576)
T PLN02286 535 FYSNCKVNGSEEE 547 (576)
T ss_pred HHhcCccCCCCch
Confidence 9988888875433
No 54
>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=58.21 E-value=7.3 Score=48.51 Aligned_cols=60 Identities=25% Similarity=0.467 Sum_probs=49.3
Q ss_pred cccccceeeecCeeee-----------eeehhhhcCCccc----------------CcceeeehhhhHHHHHHHhCCCcc
Q 001359 195 AWGLGWEIWMDGMEIT-----------QFTYFQQAGSLQL----------------SPVSVEITYGLERILMLLQGVDHF 247 (1092)
Q Consensus 195 awglgwevw~~gmeit-----------qftyfqq~gg~~~----------------~~~~~eitygleri~m~~q~~~~~ 247 (1092)
+.+--|+..|||+||- |-.-|.|.|=-+- -|+.+=|..|++||.|.|-|-+||
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 6778899999999985 8888888773222 277888999999999999999999
Q ss_pred ceeeeCC
Q 001359 248 KKIQYAD 254 (1092)
Q Consensus 248 ~~~~~~~ 254 (1092)
-|+.-=+
T Consensus 545 RDVIaFP 551 (583)
T TIGR00459 545 RDVIAFP 551 (583)
T ss_pred hheeecC
Confidence 9985433
No 55
>COG2024 Phenylalanyl-tRNA synthetase alpha subunit (archaeal type) [Translation, ribosomal structure and biogenesis]
Probab=52.67 E-value=17 Score=43.07 Aligned_cols=130 Identities=21% Similarity=0.443 Sum_probs=85.8
Q ss_pred CCcceEEeecCCCCCCCCCCCCCCccccceeeeEEEEcC---CCcchHHHHHHHHHhcCCCCCCCceeEecCCCCC----
Q 001359 118 PEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVILKP---DPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWES---- 190 (1092)
Q Consensus 118 ~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp---~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~---- 190 (1092)
+-|.+..=+--|.|-.- +|+-.||..||-=--++=- +-++=.-.==+-|+.+|. .+.||+-|+=.|
T Consensus 205 ~~PlklFSIDRCFRREQ---~ED~shLmtYhSASCVvvde~vtvD~GKaVAEglL~qfGF----e~F~FrpDEK~SKYYv 277 (536)
T COG2024 205 DPPLKLFSIDRCFRREQ---REDASHLMTYHSASCVVVDEDVTVDDGKAVAEGLLRQFGF----EKFRFRPDEKKSKYYV 277 (536)
T ss_pred CCCceeeehhHHhhhhh---hcchhhhhhhccceEEEEcCcccccccHHHHHHHHHHhCc----cceeeccccccccccC
Confidence 45677777777766543 4777889888865433321 112222233345788897 789999999776
Q ss_pred -----------cccc----cccccceeeecCeeeeeeehhhhcC----CcccCcceeeehhhhHHHHHHHhCCCccceee
Q 001359 191 -----------PVLG----AWGLGWEIWMDGMEITQFTYFQQAG----SLQLSPVSVEITYGLERILMLLQGVDHFKKIQ 251 (1092)
Q Consensus 191 -----------p~lg----awglgwevw~~gmeitqftyfqq~g----g~~~~~~~~eitygleri~m~~q~~~~~~~~~ 251 (1092)
|-|+ -+|=|| .||.-|-.+--.. ||+| ...-+--|.||+||.|-|.+.|-.+.
T Consensus 278 P~TQTEVyAyHPkL~gs~~kysdgW------iEiATFGlYSP~ALaeY~Id~--pVMNLGlGVERlaMIl~g~~DVR~mv 349 (536)
T COG2024 278 PGTQTEVYAYHPKLVGSIEKYSDGW------IEIATFGLYSPIALAEYGIDY--PVMNLGLGVERLAMILHGADDVRSMV 349 (536)
T ss_pred CCccceEEEecccccccccccCCCc------EEEEeecccChHHHHHcCCCC--ceeecchhHHHHHHHHhCchHHhhhh
Confidence 5555 456677 5888887765443 5554 33456789999999999999988655
Q ss_pred eCCCCceecccccchhhhhc
Q 001359 252 YADGITYGELFLENEKEMSA 271 (1092)
Q Consensus 252 ~~~~~~yg~~~~~~e~e~s~ 271 (1092)
|-+++ |++.|.
T Consensus 350 ------Ypqi~---ew~lSD 360 (536)
T COG2024 350 ------YPQIY---EWRLSD 360 (536)
T ss_pred ------ccccc---ccccch
Confidence 44554 666553
No 56
>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=50.32 E-value=9.7 Score=39.62 Aligned_cols=45 Identities=31% Similarity=0.606 Sum_probs=38.4
Q ss_pred cCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccce-eeecC
Q 001359 155 KPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWE-IWMDG 206 (1092)
Q Consensus 155 kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwe-vw~~g 206 (1092)
||+| +.|..-++.+|+++ .++-||+|++ +=..||-..||. ||++-
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 8886 57999999999876 5689999999 789999999998 67763
No 57
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.
Probab=47.70 E-value=33 Score=41.95 Aligned_cols=124 Identities=16% Similarity=0.306 Sum_probs=76.2
Q ss_pred CCcceEEeecCCCCCCCCCCCCCCccccceeeeEEEE-cC--CCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcc--
Q 001359 118 PEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVIL-KP--DPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPV-- 192 (1092)
Q Consensus 118 ~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~-kp--~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~-- 192 (1092)
+-|.++..+--|.|++.. ++++++-.|||.=.++ -+ +-.|+..+--.=|+.+|. -++||..++=.||.
T Consensus 205 ~~PiRIFsIGRVfRrD~~---~DaTHl~eFhQlEGLVVdedVSf~DLKgvLe~LLr~LG~----~~vRFRPsekrskyYF 277 (533)
T TIGR00470 205 KLPLKLFSIDRCFRREQR---EDRSHLMTYHSASCVVVDEEVSVDDGKAVAEGLLAQFGF----TKFRFRPDEKKSKYYI 277 (533)
T ss_pred CCCeEEEeeeeEEecCCC---CCCccCceeeeEEEEEECCCCCHHHHHHHHHHHHHHhCC----ceEEeccCcCCCCCcC
Confidence 679999999999998732 2458899999998544 33 335666555556677885 55888877442221
Q ss_pred ------cccc--c-ccce-eeecCeeeeeeehhhhcCCcccCcceeeehhhhHHHHHHHhCCCccceeeeC
Q 001359 193 ------LGAW--G-LGWE-IWMDGMEITQFTYFQQAGSLQLSPVSVEITYGLERILMLLQGVDHFKKIQYA 253 (1092)
Q Consensus 193 ------lgaw--g-lgwe-vw~~gmeitqftyfqq~gg~~~~~~~~eitygleri~m~~q~~~~~~~~~~~ 253 (1092)
.=++ + -||. |-.=|| |.- +.+. -.|++..-...+ -|+|||||..-|++++-++.+-
T Consensus 278 PFTEaEVdV~~~k~~gWiEIgG~Gm-VhP-eVL~-~~GId~PV~AFG--IGVERlAMi~ygi~DIR~l~~p 343 (533)
T TIGR00470 278 PETQTEVYAYHPKLGEWIEVATFGV-YSP-IALA-KYNIDVPVMNLG--LGVERLAMILYGYEDVRAMVYP 343 (533)
T ss_pred CCceEEEEEEccCCCceEEEEeccc-cCH-HHHH-HcCCCCceEEEE--ecHHHHHHHHhCCcHHHhhccc
Confidence 1111 1 2553 222222 110 1111 235555333444 5999999999999999887664
No 58
>PRK09449 dUMP phosphatase; Provisional
Probab=47.61 E-value=13 Score=39.27 Aligned_cols=47 Identities=30% Similarity=0.538 Sum_probs=39.8
Q ss_pred EcCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccce-eeec
Q 001359 154 LKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWE-IWMD 205 (1092)
Q Consensus 154 ~kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwe-vw~~ 205 (1092)
.||+| +.|..-++.+|+.+. .++-||+|+.++=..||.-.||- ||++
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 38887 789999999998653 56999999998889999999997 7876
No 59
>PLN02530 histidine-tRNA ligase
Probab=47.16 E-value=1.7e+02 Score=35.87 Aligned_cols=54 Identities=17% Similarity=0.210 Sum_probs=37.6
Q ss_pred CCcceEEeecCCCCCCCCCCCCCCccccceeee--EEEEcCCCc---chHHHHHHHHHhcCCC
Q 001359 118 PEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQF--QVILKPDPG---NSQDLFIRSLSALGID 175 (1092)
Q Consensus 118 ~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~--qvi~kp~p~---~~q~lyl~sl~~~gi~ 175 (1092)
+.|.+.+|++|+.|..-. .-.|..+|||. =+|-.+++. .+..+-.++|+.+||+
T Consensus 162 ~~P~r~~y~g~vfR~e~~----q~gr~REf~Q~giEiiG~~~~~aDaEvi~l~~~~l~~lgl~ 220 (487)
T PLN02530 162 SLPLKWFAIGQCWRYERM----TRGRRREHYQWNMDIIGVPGVEAEAELLAAIVTFFKRVGIT 220 (487)
T ss_pred CCCeEEEEEcCEEcCcCC----CCCCccceEEcCeeEeCCCCcchhHHHHHHHHHHHHHcCCC
Confidence 689999999999885331 11245677884 346677763 3556778899999974
No 60
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=46.84 E-value=52 Score=39.95 Aligned_cols=129 Identities=23% Similarity=0.364 Sum_probs=82.1
Q ss_pred HHHhhhcC-CCcceEEeecCCCCCCCCCCCCCC-ccccceeee--EEEEcCCC-----cchHHHHHHHHHhcCCCCCCCc
Q 001359 110 LTFLRVLG-PEPWNVAYVEPSIRPDDSRYGENP-NRLQRHTQF--QVILKPDP-----GNSQDLFIRSLSALGIDVTEHD 180 (1092)
Q Consensus 110 ~t~~~~l~-~~~~~~ayv~p~~rp~d~ryg~np-nrl~~~~q~--qvi~kp~p-----~~~q~lyl~sl~~~gi~~~~hd 180 (1092)
...+|+-. .=|.++|=+-.|.|-.-+ |-+- =|+..++|- .+.+.|.- ...++++..=|..+|+++..--
T Consensus 175 ~~~~~syr~dLPlr~aq~g~~~RnE~s--~~~gL~RvReF~q~e~hiF~~peq~~~e~~~~l~~~~~~l~~lG~~~~~~~ 252 (456)
T PRK04173 175 KNVLRTARKKLPFGIAQIGKSFRNEIT--PRNFIFRTREFEQMELEFFVKPGTDNEWFAYWIELRKNWLLDLGIDPENLR 252 (456)
T ss_pred HHHHHhccccCCeeeeEEchhHhCccC--CCCCceeeceeeeeEEEEEECcChHHHHHHHHHHHHHHHHHHcCCCccceE
Confidence 34567777 679999999999998876 4333 488888884 46777763 3456778888899999753211
Q ss_pred eeE---------ecCCCCCcccccccccc-eee--ecCeee----------eeeehhh-hcCCcccCcceeeehhhhHHH
Q 001359 181 IRF---------VEDNWESPVLGAWGLGW-EIW--MDGMEI----------TQFTYFQ-QAGSLQLSPVSVEITYGLERI 237 (1092)
Q Consensus 181 irf---------ved~we~p~lgawglgw-evw--~~gmei----------tqftyfq-q~gg~~~~~~~~eitygleri 237 (1092)
++- -.+.|+--.+-.+|.+| |+. .+|-.. -.++|+. ..+|-.-.|+.++.+.|+|||
T Consensus 253 ~s~~~~~e~~~ys~~~wd~e~~~~~g~~~~e~~g~~~~~dydL~~~~~~s~~dl~y~~~~~~~~~~~P~vi~~siGieRl 332 (456)
T PRK04173 253 FREHLPEELAHYSKATWDIEYKFPFGRFWGELEGIANRTDYDLSRHSKHSGEDLSYFDDETTGEKYIPYVIEPSAGLDRL 332 (456)
T ss_pred EEecCcchhhccHHHHHhHHHhCCCCCcEEEEeeeeccchhhcccchhhcCCCeEEEecCCCCceeeeEEEEecccHHHH
Confidence 111 12347766665667778 333 222111 1233432 335555679999999999995
Q ss_pred HHH
Q 001359 238 LML 240 (1092)
Q Consensus 238 ~m~ 240 (1092)
.+.
T Consensus 333 ~~a 335 (456)
T PRK04173 333 LLA 335 (456)
T ss_pred HHH
Confidence 333
No 61
>COG2316 Predicted hydrolase (HD superfamily) [General function prediction only]
Probab=45.91 E-value=4.2e+02 Score=28.70 Aligned_cols=141 Identities=17% Similarity=0.186 Sum_probs=89.5
Q ss_pred HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhccccchhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhcCCC
Q 001359 741 MLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSDLATSVVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPR 820 (1092)
Q Consensus 741 l~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaDL~T~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr 820 (1092)
+--.+--+++..+++|..+|-|+ +.-.-++.|-..| -+.-+-=||=.|.-|-.|-+..|-+++|++||.-|-.=.
T Consensus 48 L~kHcla~eavMr~lARe~gEDE---Ekw~~~GlLHD~D--Ye~tqgdpEeHgl~g~eiL~~edv~eeil~ai~~H~~~~ 122 (212)
T COG2316 48 LQKHCLAVEAVMRWLAREWGEDE---EKWAVTGLLHDFD--YELTQGDPEEHGLWGVEILREEDVSEEILDAIMGHAAYT 122 (212)
T ss_pred HHHHHHHHHHHHHHHHHHhCccH---HHHHHHhhhhhcc--HHhhcCChhhcCccceehHhhcCCCHHHHHHHHHhhhhh
Confidence 34446667788889999988665 3455566665554 222233379999999999999999999999999987544
Q ss_pred CCCCCCCCcchhhHHHHhhhHHHHHHhhhcCCCCCCCCChhhhhHHHHHHHHHHHhCCCCCCHHHHHHHHHhhCCCCcCc
Q 001359 821 FSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDPFGLRRISYGLVQILIEKDKNLDLELALRLAADVQPITVDA 900 (1092)
Q Consensus 821 ~agD~LP~t~~G~iLSLADKlDtLvG~F~iG~~PTGSkDPfALRRaAlGIIrILie~~l~l~L~~li~~a~~~~~~~~~~ 900 (1092)
+. -|.|+.-..|--+| .+.| +|..|+-.-+.+ +-
T Consensus 123 ~~---~~et~~e~aL~AvD---~~tG---------------------------------------li~AaALirp~K-~~ 156 (212)
T COG2316 123 GT---PRETRLEQALFAVD---ELTG---------------------------------------LIQAAALIRPDK-DV 156 (212)
T ss_pred cC---CcccHHHHHHHhhc---cchh---------------------------------------HHHHHHHhCCCC-cc
Confidence 42 25566655554433 2222 233333222211 01
Q ss_pred cchhhHHHHHHHHHHHHHHhcCCCHHHHHHhhcC
Q 001359 901 STINDVHQFVTRRLEQFLVDKGISPEIVRSVLSE 934 (1092)
Q Consensus 901 ~~~~ev~~F~~~RL~~~L~d~G~~~diV~AVL~~ 934 (1092)
+++ =++|+..|++.-=-..|++-|-|+-+=..
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 13689999987655779999999875444
No 62
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=44.11 E-value=16 Score=38.41 Aligned_cols=86 Identities=19% Similarity=0.286 Sum_probs=54.4
Q ss_pred HHHhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeEEE------EcCCCcchHHHHHHHHHhcCCCCCCCceeE
Q 001359 110 LTFLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVI------LKPDPGNSQDLFIRSLSALGIDVTEHDIRF 183 (1092)
Q Consensus 110 ~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi------~kp~p~~~q~lyl~sl~~~gi~~~~hdirf 183 (1092)
..+|+.|...-++++-+--+.+..-..+-..-..+..|+..=+. -||+| ++|+.-++.+|+++ .++-|
T Consensus 90 ~e~L~~l~~~g~~~~i~Sn~~~~~~~~~~~~~~~l~~~fd~v~~s~~~~~~KP~p----~~~~~~~~~~~~~p--~~~l~ 163 (199)
T PRK09456 90 IAIMHKLREQGHRVVVLSNTNRLHTTFWPEEYPEVRAAADHIYLSQDLGMRKPEA----RIYQHVLQAEGFSA--ADAVF 163 (199)
T ss_pred HHHHHHHHhCCCcEEEEcCCchhhHHHHHhhchhHHHhcCEEEEecccCCCCCCH----HHHHHHHHHcCCCh--hHeEE
Confidence 34666665555777766555443321111111123333322111 38887 57889999999876 56899
Q ss_pred ecCCCCCccccccccccee
Q 001359 184 VEDNWESPVLGAWGLGWEI 202 (1092)
Q Consensus 184 ved~we~p~lgawglgwev 202 (1092)
|+|...+ ..||--.||-+
T Consensus 164 vgD~~~d-i~aA~~aG~~~ 181 (199)
T PRK09456 164 FDDNADN-IEAANALGITS 181 (199)
T ss_pred eCCCHHH-HHHHHHcCCEE
Confidence 9999887 99999999975
No 63
>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=41.57 E-value=15 Score=38.71 Aligned_cols=82 Identities=21% Similarity=0.332 Sum_probs=54.5
Q ss_pred HHHhhhcCCCcceEEeecCCCCCC-C---CCCCCCCccccceeeeEEE------EcCCCcchHHHHHHHHHhcCCCCCCC
Q 001359 110 LTFLRVLGPEPWNVAYVEPSIRPD-D---SRYGENPNRLQRHTQFQVI------LKPDPGNSQDLFIRSLSALGIDVTEH 179 (1092)
Q Consensus 110 ~t~~~~l~~~~~~~ayv~p~~rp~-d---~ryg~npnrl~~~~q~qvi------~kp~p~~~q~lyl~sl~~~gi~~~~h 179 (1092)
..+|..|...-++++=|=.+.+.. . .+.| |..|+.+-+. .||+|. .|+..++.+|+++ .
T Consensus 100 ~~~L~~L~~~g~~~~i~Tn~~~~~~~~~l~~~~-----l~~~f~~i~~~~~~~~~KP~~~----~~~~~~~~~~~~~--~ 168 (221)
T TIGR02253 100 RDTLMELRESGYRLGIITDGLPVKQWEKLERLG-----VRDFFDAVITSEEEGVEKPHPK----IFYAALKRLGVKP--E 168 (221)
T ss_pred HHHHHHHHHCCCEEEEEeCCchHHHHHHHHhCC-----hHHhccEEEEeccCCCCCCCHH----HHHHHHHHcCCCh--h
Confidence 346666655556776665554321 1 1111 2334444332 388775 6889999999876 5
Q ss_pred ceeEecCCCCCccccccccccee
Q 001359 180 DIRFVEDNWESPVLGAWGLGWEI 202 (1092)
Q Consensus 180 dirfved~we~p~lgawglgwev 202 (1092)
++-+|+|++++=..||--.||-+
T Consensus 169 ~~~~igDs~~~di~~A~~aG~~~ 191 (221)
T TIGR02253 169 EAVMVGDRLDKDIKGAKNLGMKT 191 (221)
T ss_pred hEEEECCChHHHHHHHHHCCCEE
Confidence 79999999999999999999874
No 64
>COG3437 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]
Probab=40.91 E-value=86 Score=37.17 Aligned_cols=116 Identities=25% Similarity=0.284 Sum_probs=74.4
Q ss_pred hcccCcccccCCCCHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHhhhhc-------------cccchhhcChhhhH
Q 001359 727 GQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLGINEDMLQIVQEAASLAMSD-------------LATSVVMEFTSLAG 793 (1092)
Q Consensus 727 ~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~~~~~~~~~~~RAA~LaKaD-------------L~T~MV~EFPELQG 793 (1092)
+.|...+ ..+=+...+.++|+..+++.||+.+|+++++.+.+.-||.|---= ..|.==.|-....=
T Consensus 173 ~~L~~~~-E~R~~etg~H~~Rv~~~~~~lAe~lgLse~~v~~i~~AapLHDIGKvaiPD~ILlKpg~Lt~ee~~imk~H~ 251 (360)
T COG3437 173 EELAALL-EVRDYETGDHLERVAQYSELLAELLGLSEEEVDLIKKAAPLHDIGKVAIPDSILLKPGKLTSEEFEIMKGHP 251 (360)
T ss_pred HHHHHHH-HhcccchhhHHHHHHHHHHHHHHHhCCCHHHHHHHHhccchhhcccccCChHHhcCCCCCCHHHHHHHhcch
Confidence 3333333 455667789999999999999999999998888888888765321 22222222222333
Q ss_pred HHHHHHHHhCCCC-----HHHHHHHHhhc----CCCC-CCCCCCCcchhhHHHHhhhHHHHHH
Q 001359 794 VMACHYALRDGYS-----QQIAEALLEIN----LPRF-SGDVLPKTDVGTVLAVADRLDTLVG 846 (1092)
Q Consensus 794 iMG~yYA~~~GE~-----~~VA~AI~EhY----lPr~-agD~LP~t~~G~iLSLADKlDtLvG 846 (1092)
+.|..- +..-+. .+||.-=.|+| .|.+ .||++|- .|.+++|||-.|-|+.
T Consensus 252 ~~G~~i-l~~s~~~mq~a~eIa~~HHErwDGsGYPdgLkGd~IPl--~arI~aiADvfDAL~s 311 (360)
T COG3437 252 ILGAEI-LKSSERLMQVAAEIARHHHERWDGSGYPDGLKGDEIPL--SARIVAIADVFDALVS 311 (360)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccch--hHHHHHHHHHHHHHhc
Confidence 455543 222221 23444444555 5554 6888886 5899999999999874
No 65
>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=40.68 E-value=14 Score=38.18 Aligned_cols=42 Identities=26% Similarity=0.475 Sum_probs=34.3
Q ss_pred EcCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCccccccccccee
Q 001359 154 LKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEI 202 (1092)
Q Consensus 154 ~kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwev 202 (1092)
.||+| +.|+.-++.+|+++ +++-||+|...+ ..+|.-.|+.+
T Consensus 140 ~KP~p----~~~~~~~~~~~~~~--~~~l~vgD~~~d-i~aA~~~G~~~ 181 (184)
T TIGR01993 140 PKPSP----QAYEKALREAGVDP--ERAIFFDDSARN-IAAAKALGMKT 181 (184)
T ss_pred CCCCH----HHHHHHHHHhCCCc--cceEEEeCCHHH-HHHHHHcCCEE
Confidence 48887 57888899999877 568899999765 88888888864
No 66
>PF12917 HD_2: HD containing hydrolase-like enzyme ; PDB: 3MZO_B.
Probab=40.63 E-value=84 Score=34.85 Aligned_cols=124 Identities=18% Similarity=0.213 Sum_probs=67.1
Q ss_pred cccCCCCHHHHHHHHHHHHHHHHH---HhCCChhHHHHHHHHH-----HhhhhccccchhhcChhhhHHHHHHHHHhCCC
Q 001359 734 FHEKLGTMLDKTMRVQNMVRKLSL---DLGINEDMLQIVQEAA-----SLAMSDLATSVVMEFTSLAGVMACHYALRDGY 805 (1092)
Q Consensus 734 F~~kLGSl~DK~~Ri~~La~~La~---~l~~~~~~~~~~~RAA-----~LaKaDL~T~MV~EFPELQGiMG~yYA~~~GE 805 (1092)
|.-.==|+...+-++..+|..|+. ..|-+-+-....++|. ..---|.-|-+=+-=|+|.-..+.+=....-+
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 444456899999999999999986 4443322122234432 23334777777777888887766653321100
Q ss_pred --CHHHHHHHHhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHHhhhcCCCCCCCCCh
Q 001359 806 --SQQIAEALLEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFAAGCQPSSTNDP 860 (1092)
Q Consensus 806 --~~~VA~AI~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG~F~iG~~PTGSkDP 860 (1092)
..++-.-..+.|.|+-..+. =.|..|.+|++|||||.+.=||+ ++=+|+.+|
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 FIKKEIPEEFQEAYRRRLKEGK-DDTLEGQIVKAADKIDALYECFG--EIQKGNPEK 156 (215)
T ss_dssp HHHHHS-GGGHHHHHHHHS----SSSHHHHHHHHHHHHHHHHHHHH--HHHTT-S-T
T ss_pred HHHhhCCHHHHHHHHHHhhcCC-cccHHHHHHHHHHHHHHHHHHHH--HHHcCCCcH
Confidence 00111123445555555332 24789999999999999999985 666777776
No 67
>PRK10748 flavin mononucleotide phosphatase; Provisional
Probab=39.86 E-value=19 Score=39.05 Aligned_cols=83 Identities=20% Similarity=0.342 Sum_probs=56.3
Q ss_pred HHhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeEEEE------cCCCcchHHHHHHHHHhcCCCCCCCceeEe
Q 001359 111 TFLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVIL------KPDPGNSQDLFIRSLSALGIDVTEHDIRFV 184 (1092)
Q Consensus 111 t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~------kp~p~~~q~lyl~sl~~~gi~~~~hdirfv 184 (1092)
.+|..|... .+++-+=-+.+.. +-..|.+|+.+-+.. ||.| +.|+..++.+|+++ +++-+|
T Consensus 120 ~~L~~L~~~-~~l~i~Tn~~~~~------~~~gl~~~fd~i~~~~~~~~~KP~p----~~~~~a~~~~~~~~--~~~~~V 186 (238)
T PRK10748 120 DTLKQLAKK-WPLVAITNGNAQP------ELFGLGDYFEFVLRAGPHGRSKPFS----DMYHLAAEKLNVPI--GEILHV 186 (238)
T ss_pred HHHHHHHcC-CCEEEEECCCchH------HHCCcHHhhceeEecccCCcCCCcH----HHHHHHHHHcCCCh--hHEEEE
Confidence 466677544 6666664432211 113344555443322 7766 57888899999765 679999
Q ss_pred cCCCCCcccccccccce-eeecC
Q 001359 185 EDNWESPVLGAWGLGWE-IWMDG 206 (1092)
Q Consensus 185 ed~we~p~lgawglgwe-vw~~g 206 (1092)
.|++.+=..||--.||- ||++.
T Consensus 187 GD~~~~Di~~A~~aG~~~i~v~~ 209 (238)
T PRK10748 187 GDDLTTDVAGAIRCGMQACWINP 209 (238)
T ss_pred cCCcHHHHHHHHHCCCeEEEEcC
Confidence 99999999999999997 67765
No 68
>KOG3109 consensus Haloacid dehalogenase-like hydrolase [General function prediction only]
Probab=38.36 E-value=32 Score=38.30 Aligned_cols=106 Identities=21% Similarity=0.313 Sum_probs=69.2
Q ss_pred chHHHHHHHHHHHHhhcCceeeeccccccccccCCHHHHhhhcCCCcc--eEEeecCCCCCCCCCCCCCCccccceeeeE
Q 001359 74 PTFQQAIQRLQEYWASVGCSVMQCSNTEVGAGTMNPLTFLRVLGPEPW--NVAYVEPSIRPDDSRYGENPNRLQRHTQFQ 151 (1092)
Q Consensus 74 ~~~q~~i~~l~~~w~~~gc~~~~p~~~e~gagt~~p~t~~~~l~~~~~--~~ayv~p~~rp~d~ryg~npnrl~~~~q~q 151 (1092)
+-.-++++.|.+= +-|++...| --|-...|+-||=+-+ .+.|.+- .||+ -.+
T Consensus 103 ~~LRnlLL~l~~r---~k~~FTNa~-------k~HA~r~Lk~LGieDcFegii~~e~----------~np~------~~~ 156 (244)
T KOG3109|consen 103 PVLRNLLLSLKKR---RKWIFTNAY-------KVHAIRILKKLGIEDCFEGIICFET----------LNPI------EKT 156 (244)
T ss_pred HHHHHHHHhCccc---cEEEecCCc-------HHHHHHHHHHhChHHhccceeEeec----------cCCC------CCc
Confidence 4456666666421 134444433 2366777788877654 2333332 1233 578
Q ss_pred EEEcCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccceeeecCeeeee
Q 001359 152 VILKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIWMDGMEITQ 211 (1092)
Q Consensus 152 vi~kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwevw~~gmeitq 211 (1092)
||+||+|+ -|=.-.+..||+-. +..-|++|+-. -..+|--+||--|+=|.|--|
T Consensus 157 ~vcKP~~~----afE~a~k~agi~~p-~~t~FfDDS~~-NI~~ak~vGl~tvlv~~~~~~ 210 (244)
T KOG3109|consen 157 VVCKPSEE----AFEKAMKVAGIDSP-RNTYFFDDSER-NIQTAKEVGLKTVLVGREHKI 210 (244)
T ss_pred eeecCCHH----HHHHHHHHhCCCCc-CceEEEcCchh-hHHHHHhccceeEEEEeeecc
Confidence 99999986 45567788899833 34788888755 477889999999999998764
No 69
>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=37.98 E-value=13 Score=38.47 Aligned_cols=22 Identities=27% Similarity=0.622 Sum_probs=15.2
Q ss_pred CCCcc-cccccccceeeecCeee
Q 001359 188 WESPV-LGAWGLGWEIWMDGMEI 209 (1092)
Q Consensus 188 we~p~-lgawglgwevw~~gmei 209 (1092)
.++|+ -|.|.+|+.=||+||.|
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 70
>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=37.10 E-value=24 Score=40.54 Aligned_cols=57 Identities=25% Similarity=0.449 Sum_probs=43.1
Q ss_pred cccccceeeecCeeee-----------eeehhhhcCCc--c-------------c-CcceeeehhhhHHHHHHHhCCCcc
Q 001359 195 AWGLGWEIWMDGMEIT-----------QFTYFQQAGSL--Q-------------L-SPVSVEITYGLERILMLLQGVDHF 247 (1092)
Q Consensus 195 awglgwevw~~gmeit-----------qftyfqq~gg~--~-------------~-~~~~~eitygleri~m~~q~~~~~ 247 (1092)
.+.-.||+-++|+||. |-.-|+..|-. + . -|.++=+.-|+||+.|++=|.+||
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 55666665421 1 1 467777889999999999999999
Q ss_pred ceee
Q 001359 248 KKIQ 251 (1092)
Q Consensus 248 ~~~~ 251 (1092)
.|+.
T Consensus 325 rdv~ 328 (335)
T PF00152_consen 325 RDVI 328 (335)
T ss_dssp GGGS
T ss_pred Hhee
Confidence 9875
No 71
>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=36.61 E-value=49 Score=33.95 Aligned_cols=23 Identities=30% Similarity=0.622 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCC
Q 001359 337 MRSLARQCAQLWLKTRKSLGHPL 359 (1092)
Q Consensus 337 ~r~l~~~~~~~~~~~~~~~~~~~ 359 (1092)
-++||+.|+++|.+.|..+|+..
T Consensus 55 p~~~~~~~v~aw~~~R~~~g~~~ 77 (132)
T PF10847_consen 55 PDEMAEELVRAWKQYRNSLGHSM 77 (132)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCc
Confidence 46789999999999999999864
No 72
>TIGR00094 tRNA_TruD_broad tRNA pseudouridine synthase, TruD family. MJ11364 is a strong partial match from 50 to 230 aa.
Probab=35.74 E-value=41 Score=39.81 Aligned_cols=61 Identities=15% Similarity=0.286 Sum_probs=45.2
Q ss_pred CCccCceEEEe------CCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccchhhhH
Q 001359 483 VPIDSLVTKAA------GKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSRPIRWI 546 (1092)
Q Consensus 483 v~~~~L~~~~~------~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~RPIrWI 546 (1092)
-+++|..+.|. ++|+|+++...+.|.+|.+++..|-..+ ++| +|.+.|. .+.+.+-=.+|+
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 45777766554 4699999999999999999999875544 555 6888885 555555555555
No 73
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=35.29 E-value=2.9e+02 Score=32.80 Aligned_cols=166 Identities=22% Similarity=0.350 Sum_probs=98.4
Q ss_pred hHHHHHHHHHHHHhhcCceeeeccccc--------cccccCCHH-----HH----------------hhhc--CCCcceE
Q 001359 75 TFQQAIQRLQEYWASVGCSVMQCSNTE--------VGAGTMNPL-----TF----------------LRVL--GPEPWNV 123 (1092)
Q Consensus 75 ~~q~~i~~l~~~w~~~gc~~~~p~~~e--------~gagt~~p~-----t~----------------~~~l--~~~~~~~ 123 (1092)
-.+.++..+.++....|..+...+.+| ++-.--||+ || +|.| ++.|+++
T Consensus 109 Pl~~~~~~Ir~if~~mGF~ev~gpeIes~~~NFdaLn~P~dHPaR~~~DTfyI~~~~lLRThTSp~qir~L~~~~~Piri 188 (339)
T PRK00488 109 PITQTIEEIEDIFVGMGFEVAEGPEIETDYYNFEALNIPKDHPARDMQDTFYIDDGLLLRTHTSPVQIRTMEKQKPPIRI 188 (339)
T ss_pred HHHHHHHHHHHHHHhCCCEEEeCCccccHHHHHHHhCCCCCCcccccCceEEEcCCceeeccCcHHHHHHHHhcCCCeEE
Confidence 378889999999999999998876665 344444664 22 3334 6789999
Q ss_pred EeecCCCCCCCCCCCCCCccccceeeeEEEE-cC--CCcchHHHHHHHHHhc-CCCCCCCceeEecC-------CCCCcc
Q 001359 124 AYVEPSIRPDDSRYGENPNRLQRHTQFQVIL-KP--DPGNSQDLFIRSLSAL-GIDVTEHDIRFVED-------NWESPV 192 (1092)
Q Consensus 124 ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~-kp--~p~~~q~lyl~sl~~~-gi~~~~hdirfved-------~we~p~ 192 (1092)
..+-.+.|.++- +..+.-.+||.=.++ -+ +-.+++..--.=++.+ | ....+||.-+ -+|=-.
T Consensus 189 f~~G~VyR~D~~----DatH~~~FhQleglvvd~~vtf~dLK~~L~~fl~~~fg---~~~~~R~rpsyFPFTePS~Evdv 261 (339)
T PRK00488 189 IAPGRVYRNDSD----DATHSPMFHQVEGLVVDKNISFADLKGTLEDFLKAFFG---EDVKIRFRPSYFPFTEPSAEVDV 261 (339)
T ss_pred EEeeeEEEcCCC----CcccCcceeeEEEEEEeCCCCHHHHHHHHHHHHHHHcC---CCCeEEecCCCCCCCCCceEEEE
Confidence 999999887752 346677788887433 22 2233333333334555 5 3355775432 222111
Q ss_pred ----cc------cccccc-eeeecCeeeeeeehhhhcCCcccCccee-eehhhhHHHHHHHhCCCcccee
Q 001359 193 ----LG------AWGLGW-EIWMDGMEITQFTYFQQAGSLQLSPVSV-EITYGLERILMLLQGVDHFKKI 250 (1092)
Q Consensus 193 ----lg------awglgw-evw~~gmeitqftyfqq~gg~~~~~~~~-eitygleri~m~~q~~~~~~~~ 250 (1092)
-| .-|.|| ||-==||= .=..+. .+|++.+-.++ =.--|||||||..-|++++-++
T Consensus 262 ~~~~~~g~gc~~ck~~~WiEilG~Gmv--~p~vl~-~~gid~~~~~G~AfG~GleRlaMl~ygi~DiR~~ 328 (339)
T PRK00488 262 SCFKCGGKGCRVCKGTGWLEILGCGMV--HPNVLR-NVGIDPEEYSGFAFGMGIERLAMLKYGIDDIRLF 328 (339)
T ss_pred EEeccCCCcccccCCCCceEEeccCcc--CHHHHH-HcCCCcccceEEEEeecHHHHHHHHhCCcHHHHH
Confidence 11 125677 22222441 112223 45666654444 3457999999999999887654
No 74
>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=34.35 E-value=23 Score=36.88 Aligned_cols=43 Identities=30% Similarity=0.575 Sum_probs=36.9
Q ss_pred EcCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCccccccccccee
Q 001359 154 LKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEI 202 (1092)
Q Consensus 154 ~kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwev 202 (1092)
-||+| ++|..-++.+|+++ .++-+|+|++++=..+|.-.||-+
T Consensus 159 ~KP~~----~~~~~~~~~~~~~~--~~~~~IgD~~~~Di~~A~~aG~~~ 201 (203)
T TIGR02252 159 EKPDP----KIFQEALERAGISP--EEALHIGDSLRNDYQGARAAGWRA 201 (203)
T ss_pred CCCCH----HHHHHHHHHcCCCh--hHEEEECCCchHHHHHHHHcCCee
Confidence 39988 78999999999876 569999999988899999888864
No 75
>COG1639 Predicted signal transduction protein [Signal transduction mechanisms]
Probab=33.45 E-value=2.6e+02 Score=32.46 Aligned_cols=129 Identities=17% Similarity=0.115 Sum_probs=80.2
Q ss_pred chhhhchhhhHhhhhcccchhhHHhhhcCChHHHHhcccCcccccCCCCHHHHHHHHHHHHHHHHHHhC-CChhHHHHHH
Q 001359 692 EMVVRKGNEAVLRARYEDAKFFYEMDTRKKFADFQGQLKGILFHEKLGTMLDKTMRVQNMVRKLSLDLG-INEDMLQIVQ 770 (1092)
Q Consensus 692 ~~~Vi~GNErVLrARL~DA~FFy~eDlK~~Le~~v~kLk~VvF~~kLGSl~DK~~Ri~~La~~La~~l~-~~~~~~~~~~ 770 (1092)
...++=|=..|++==+++|+--+..+.+ ..-.+.=-++|++.+...++..||..+| .+. +.+-
T Consensus 81 ~Ai~rLG~~~v~NLv~a~a~~~~~~~~~-------------~~~~~~~~~w~~a~~~A~ia~~La~~~g~~~~---~~~y 144 (289)
T COG1639 81 EAIVRLGIGLVINLVLALAEQAIQSVNS-------------SSAEDRQLFWDTAIETAMIAEGLARALGRADS---DEAY 144 (289)
T ss_pred HHHHHHhHHHHHHHHHHHHHHhhccCCC-------------chHHHHHHHHHHHHHHHHHHHHHHHHhCcccH---HHHH
Confidence 4555668888877666654222222222 1222333479999999999999999998 333 2233
Q ss_pred HHHHhhh-------------------hcccc--------chhhcChhhhHHHHHHHHHhCCCCHHHHHHHHhhcCCCCCC
Q 001359 771 EAASLAM-------------------SDLAT--------SVVMEFTSLAGVMACHYALRDGYSQQIAEALLEINLPRFSG 823 (1092)
Q Consensus 771 RAA~LaK-------------------aDL~T--------~MV~EFPELQGiMG~yYA~~~GE~~~VA~AI~EhYlPr~ag 823 (1092)
-|+.|-+ .+..+ +.-+=|+ .-.+|.+-+++=|.|+++.++|.-|+.|.+.+
T Consensus 145 ~~gLLh~lG~l~ll~~~~~~~~~~~~~~~~~~~~~~~~~e~~~i~~--h~~Iga~llr~W~fp~~l~e~i~~~~~~~~~~ 222 (289)
T COG1639 145 TAGLLHNLGILVLLTDFPDHCELLDYLLALNNDELLALDEELGIFG--HASIGAYLLRRWNFPDDLIEAIRFHHNPSTEG 222 (289)
T ss_pred HHHHHHHccHHHHHHHhHHHHHHHHHHHHhccCcccchHHHhcccc--chHHHHHHHHHcCCCHHHHHHHHHhhcccccc
Confidence 3333322 22222 1111222 33789999999999999999999999988887
Q ss_pred CCCCCcchhhHHHHhhh
Q 001359 824 DVLPKTDVGTVLAVADR 840 (1092)
Q Consensus 824 D~LP~t~~G~iLSLADK 840 (1092)
..+ +...++..+|+-
T Consensus 223 ~~~--~~~~li~~~a~~ 237 (289)
T COG1639 223 ARL--KYLDLILVLANL 237 (289)
T ss_pred cch--HHHHHHHHHHHH
Confidence 665 555555555543
No 76
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=33.15 E-value=2.7e+02 Score=32.47 Aligned_cols=113 Identities=12% Similarity=0.101 Sum_probs=75.6
Q ss_pred ccccCCCCHHHHHHHHHHHHHHHHHHhC-CChhHHHHHHHHHHhh---hhccccc-hhhcChhhhHH------HHH----
Q 001359 733 LFHEKLGTMLDKTMRVQNMVRKLSLDLG-INEDMLQIVQEAASLA---MSDLATS-VVMEFTSLAGV------MAC---- 797 (1092)
Q Consensus 733 vF~~kLGSl~DK~~Ri~~La~~La~~l~-~~~~~~~~~~RAA~La---KaDL~T~-MV~EFPELQGi------MG~---- 797 (1092)
.=|.-.|=+++.+--+.++|..+|.... ++. +.+.-+|.|. |.+=.+. ...||+. .|- ||.
T Consensus 152 ~HHay~GGLleHtl~v~~~~~~l~~~y~~~n~---dll~agalLHDiGKi~E~~~~~~~~yT~-eG~LlGHi~lg~~~i~ 227 (314)
T PRK13480 152 NHHEFVSGLAYHVVSMLRLAKSICDLYPSLNK---DLLYAGIILHDLGKVIELSGPVSTTYTL-EGNLLGHISIMVNEIA 227 (314)
T ss_pred cccccccHHHHHHHHHHHHHHHHHHhccccCH---HHHHHHHHHHHhhhHHHhcCCCccCccc-cCEeccHHHHHHHHHH
Confidence 3467899999999999999999998763 333 3455555554 3332222 2345553 443 222
Q ss_pred HHHHhCCCCHHHHHHH-----HhhcCCCCCCCCCCCcchhhHHHHhhhHHHHHHhhh
Q 001359 798 HYALRDGYSQQIAEAL-----LEINLPRFSGDVLPKTDVGTVLAVADRLDTLVGLFA 849 (1092)
Q Consensus 798 yYA~~~GE~~~VA~AI-----~EhYlPr~agD~LP~t~~G~iLSLADKlDtLvG~F~ 849 (1092)
..|..-|-+++....+ .-|-.+-+-.-..|.|+.+.+|..||.||.=+..|.
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 2344456566655443 345566666677999999999999999999998884
No 77
>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=31.22 E-value=12 Score=31.96 Aligned_cols=18 Identities=28% Similarity=0.528 Sum_probs=16.0
Q ss_pred CCCCCCCChhhhhHHHHH
Q 001359 852 CQPSSTNDPFGLRRISYG 869 (1092)
Q Consensus 852 ~~PTGSkDPfALRRaAlG 869 (1092)
-+|||..-||-|||..++
T Consensus 27 DIPtgk~sPyilRRtt~~ 44 (49)
T PF10490_consen 27 DIPTGKTSPYILRRTTLA 44 (49)
T ss_pred cCCCCCCCceEEEeeccc
Confidence 589999999999998764
No 78
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=30.14 E-value=2.3e+02 Score=34.55 Aligned_cols=127 Identities=17% Similarity=0.178 Sum_probs=87.1
Q ss_pred cchhhhhcccCCChHhHHHHHHHHHHHHHHHHHhCCCCCCcceeecccc-cceeeecccCccCcchhhhhcCCccccccc
Q 001359 387 RLFVLEIGTEEMPPQDVVNASQQLKDLMLQLLNKQKLSHGEVQAFGTPR-RLVVFVESLCQKQSENEFEARGPPVSKAFD 465 (1092)
Q Consensus 387 ~~lLlEIGtEELPa~~l~~a~~ql~~~~~~~L~~~~L~~~~I~~f~TPR-RLav~V~~l~~~q~d~~~e~kGPpv~~Afd 465 (1092)
.-+.+.++..++|+..+-+=++-+.+.+.+.|++++...=...+++--. |..|+++ +....-...+..+|||+
T Consensus 284 ~v~~l~~~~pd~vdDilypQl~r~~~~l~r~Le~~gF~vl~~~~~~D~~~~~~v~~E-~~~~~l~~i~~r~GPp~----- 357 (443)
T COG1746 284 HVLALVFPKPDLVDDILYPQLERTARSLFRALEEEGFRVLRSGVWSDESERIYVLLE-LESKELPRIELRVGPPV----- 357 (443)
T ss_pred eEEEEEeCCCCCCcchhhHHHHHHHHHHHHHHHHcCCEEeeeeeeecCCcceEEEEE-EecccccceeeecCCCc-----
Confidence 5588999999999999999999999999999999987653443344333 7777665 45555577788999998
Q ss_pred cCCCCc-HHHHHHHHHCCCCccCceEEEeCCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCccccc
Q 001359 466 QQGNPT-KAVEGFCQRYAVPIDSLVTKAAGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRW 533 (1092)
Q Consensus 466 ~dG~pT-kAa~GFak~~Gv~~~~L~~~~~~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRW 533 (1092)
+| -|.. |.+|+++.. ...|.|+...+.. ....+.+.+++.+=|.+.+++|...=
T Consensus 358 ----~~e~a~r-F~~k~~~~~-------~~~g~~~~~~r~~--~~~~~~~~~i~~~~l~~~s~gk~v~~ 412 (443)
T COG1746 358 ----WTEHAVR-FIEKYDVRW-------REGGPLAVEDRLY--VTIVRVLEDILRKPLGNHSLGKNVKD 412 (443)
T ss_pred ----cchhHHH-HHHhcccce-------eecCcccccccee--eehhhhHHHHHhCcccccccccchhh
Confidence 33 4444 999995542 2234444433111 11223777777777778888886553
No 79
>KOG1576 consensus Predicted oxidoreductase [Energy production and conversion]
Probab=27.73 E-value=30 Score=39.60 Aligned_cols=67 Identities=22% Similarity=0.289 Sum_probs=49.0
Q ss_pred hcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHHHHHHHHhcCCCC----CCCceeEe--cCCC
Q 001359 115 VLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDLFIRSLSALGIDV----TEHDIRFV--EDNW 188 (1092)
Q Consensus 115 ~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~q~lyl~sl~~~gi~~----~~hdirfv--ed~w 188 (1092)
++..=|-..-|+-- .=||||..|+|+..| |.+-+.+---+||+.|++|- .-|||-|+ +|-=
T Consensus 89 al~~vPR~aYyIaT----KvgRy~ld~~~~Fdf---------sadkvreSv~rSlerLqldyvDilqiHDvefap~ld~v 155 (342)
T KOG1576|consen 89 ALKDVPREAYYIAT----KVGRYELDYANMFDF---------SADKVRESVKRSLERLQLDYVDILQIHDVEFAPNLDIV 155 (342)
T ss_pred HHhhCChhheeeee----eeeecccCccccccc---------hHHHHHHHHHHHHHHhCCceeEEEEeecccccccccHH
Confidence 34445555556543 349999999999988 57788888899999999884 56999999 5544
Q ss_pred CCcccc
Q 001359 189 ESPVLG 194 (1092)
Q Consensus 189 e~p~lg 194 (1092)
=|-||-
T Consensus 156 l~Etlp 161 (342)
T KOG1576|consen 156 LNETLP 161 (342)
T ss_pred HHHHHH
Confidence 444443
No 80
>TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit. Most phenylalanyl-tRNA synthetases are heterodimeric, with 2 alpha (pheS) and 2 beta (pheT) subunits. This model describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this model. An interesting feature of the alignment of all sequences captured by this model is a deep split between non-spirochete bacterial examples and all other examples; supporting this split is a relative deletion of about 50 residues in the former set between two motifs well conserved throughout the alignment.
Probab=26.85 E-value=1e+03 Score=27.38 Aligned_cols=162 Identities=17% Similarity=0.297 Sum_probs=90.2
Q ss_pred hHHHHHHHHHHHHhhcCceeeeccccccc--------cccCCHHH---------------------HhhhcCC---Ccce
Q 001359 75 TFQQAIQRLQEYWASVGCSVMQCSNTEVG--------AGTMNPLT---------------------FLRVLGP---EPWN 122 (1092)
Q Consensus 75 ~~q~~i~~l~~~w~~~gc~~~~p~~~e~g--------agt~~p~t---------------------~~~~l~~---~~~~ 122 (1092)
..+.++.++.+.-...|......|..+-- -..-||+. .++++-. .|.+
T Consensus 73 p~~~~~~~ir~~l~~~Gf~Ev~~~~~~s~~~~fd~l~~~~~hpar~~~d~~~l~d~~vLRtsl~p~ll~~l~~N~~~pir 152 (294)
T TIGR00468 73 PLTRVIDEIRDIFLGLGFTEEKGPEVETDFWNFDALNIPQDHPARDMQDTFYIKDRLLLRTHTTAVQLRTMEENEKPPIR 152 (294)
T ss_pred HHHHHHHHHHHHHHHCCCEEeeCCceeccHHHHHHhCCCCCCcchhhccceeecCCcceecccHHHHHHHHHhcCCCCce
Confidence 36888889999999999998877776543 12223321 2333322 6688
Q ss_pred EEeecCCCCCCCCCCCCCCccccceeeeEEEEcCCCcchHHH--HHHHH-HhcCCCCCCCceeEecCCCC--Cccccccc
Q 001359 123 VAYVEPSIRPDDSRYGENPNRLQRHTQFQVILKPDPGNSQDL--FIRSL-SALGIDVTEHDIRFVEDNWE--SPVLGAWG 197 (1092)
Q Consensus 123 ~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp~p~~~q~l--yl~sl-~~~gi~~~~hdirfved~we--~p~lgawg 197 (1092)
+.-+-.+.||++- +..++-.++|.=.+.--..-++-+| .+++| +.+|++ -.+||...... .|+.-|.
T Consensus 153 lFEiGrVfr~d~~----d~~~~pef~ql~gl~~~~~~~f~dLKg~le~ll~~l~~~---~~~~~~~~~~p~~~Ps~e~~- 224 (294)
T TIGR00468 153 IFSPGRVFRNDTV----DATHLPEFHQVEGLVIDKNVSFTNLKGFLEEFLKKMFGE---TEIRFRPSYFPFTEPSAEID- 224 (294)
T ss_pred EEEecceEEcCCC----CCccCChhhEEEEEEECCCCCHHHHHHHHHHHHHHhCCC---cceeeccCCCCCCCCCEEEE-
Confidence 8888888888531 1122224444433332122344444 45554 778875 26788654432 4444332
Q ss_pred ccceeee-cCe---eeeeeehh----hhcCCccc--CcceeeehhhhHHHHHHHhCCCcccee
Q 001359 198 LGWEIWM-DGM---EITQFTYF----QQAGSLQL--SPVSVEITYGLERILMLLQGVDHFKKI 250 (1092)
Q Consensus 198 lgwevw~-~gm---eitqftyf----qq~gg~~~--~~~~~eitygleri~m~~q~~~~~~~~ 250 (1092)
|+| +|. ||--+--+ .+-.|++- .....| -|||||||..=|++++-++
T Consensus 225 ----i~~~~g~~w~eiG~~G~vhP~Vl~~~gi~~~~~v~afe--l~lerl~m~~~~i~dir~~ 281 (294)
T TIGR00468 225 ----VYCWEGKTWLEVLGAGMFRPEVLEPMGIDPTYPGFAWG--IGIERLAMLKYGIDDIRDL 281 (294)
T ss_pred ----EEEeCCCccEEEEEeccCcHHHHHHCCCCCCCeEEEEE--eeHHHHHHHHhCCcHHHHH
Confidence 222 343 44422211 12234544 224445 4899999999998887665
No 81
>PLN02563 aminoacyl-tRNA ligase
Probab=26.68 E-value=80 Score=41.99 Aligned_cols=25 Identities=16% Similarity=0.332 Sum_probs=20.2
Q ss_pred ccCCCcchHHHHHHHHHHHHhhcCc
Q 001359 68 RQKASVPTFQQAIQRLQEYWASVGC 92 (1092)
Q Consensus 68 ~~~~~~~~~q~~i~~l~~~w~~~gc 92 (1092)
++.....+|+++=.+.|+||.+.+.
T Consensus 74 ~~~~~~y~~~~iE~kwq~~W~e~~~ 98 (963)
T PLN02563 74 PAAKRAYPFHEIEPKWQRYWEENRT 98 (963)
T ss_pred cccCCCCCHHHHHHHHHHHHHhCCC
Confidence 3445557899999999999998873
No 82
>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=26.49 E-value=1.1e+02 Score=34.25 Aligned_cols=49 Identities=14% Similarity=0.272 Sum_probs=36.2
Q ss_pred CCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccchhhh
Q 001359 494 GKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSRPIRW 545 (1092)
Q Consensus 494 ~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~RPIrW 545 (1092)
++|+|+++...+.|.+|.+++..+-..+ +++ ||.+.|. .+.+-+-=.+|
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 6899999999999999999998875444 566 6788885 44444443444
No 83
>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=25.37 E-value=30 Score=41.92 Aligned_cols=20 Identities=25% Similarity=0.660 Sum_probs=17.2
Q ss_pred hhhHHHHHHHhCCCccceee
Q 001359 232 YGLERILMLLQGVDHFKKIQ 251 (1092)
Q Consensus 232 ygleri~m~~q~~~~~~~~~ 251 (1092)
-|+||+.|++=|.+||.|..
T Consensus 423 iGieRlvm~l~g~~~Irdv~ 442 (453)
T TIGR00457 423 LGFERLLAYITGLENIRDAI 442 (453)
T ss_pred ehHHHHHHHHhCCCcHhhhc
Confidence 45699999999999999863
No 84
>PRK00984 truD tRNA pseudouridine synthase D; Reviewed
Probab=24.05 E-value=1.1e+02 Score=35.99 Aligned_cols=61 Identities=13% Similarity=0.233 Sum_probs=44.4
Q ss_pred CccCceEEE------eCCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccchhhhHH
Q 001359 484 PIDSLVTKA------AGKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSRPIRWIM 547 (1092)
Q Consensus 484 ~~~~L~~~~------~~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~RPIrWIv 547 (1092)
+++|..+.| .++|+|+++...+.|.+|.+++..|-..+ +++ +|.+-|. .+.+.+-=.+|+.
T Consensus 23 ~peDF~V~E~~~~~~~~~G~~~~~~l~K~~~~T~~~~~~lar~l--~i~-~~~i~yAG~KDk~AvT~Q~~s 90 (341)
T PRK00984 23 NPEDFVVREILGFEPSGEGEHLLVRIRKRGWNTLFVARALAKFL--GIS-LRDVGYAGLKDRHAVTTQWFS 90 (341)
T ss_pred CccceeEEeccCCCCCCCcCEEEEEEEECCCCHHHHHHHHHHHh--CCC-hhheeecccCcCCeeeEEEEE
Confidence 467766555 35899999999999999999998875444 666 6888885 5555555555543
No 85
>PF06159 DUF974: Protein of unknown function (DUF974); InterPro: IPR010378 This is a family of uncharacterised eukaryotic proteins.
Probab=23.91 E-value=53 Score=36.76 Aligned_cols=30 Identities=27% Similarity=0.589 Sum_probs=24.4
Q ss_pred cceEEeecCCCCCCCCCCCCCCccccceeeeEEEEcC
Q 001359 120 PWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQVILKP 156 (1092)
Q Consensus 120 ~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qvi~kp 156 (1092)
-+.|.|..|. ++||| +-.+..+||||| .||
T Consensus 86 ~c~VsY~~~~--~~~g~----~~tfRK~ykF~v-~~P 115 (249)
T PF06159_consen 86 VCTVSYTDPT--ETSGE----RRTFRKFYKFQV-LNP 115 (249)
T ss_pred EEEEEEecCc--ccCCc----cceEeeeeEEeC-CCC
Confidence 3789999997 66776 788999999999 554
No 86
>cd02575 PseudoU_synth_EcTruD PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruD makes the highly phylogenetically conserved psi13 in tRNAs.
Probab=23.54 E-value=1.3e+02 Score=34.23 Aligned_cols=60 Identities=12% Similarity=0.234 Sum_probs=42.8
Q ss_pred CccCceEEEe------CCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccchhhhH
Q 001359 484 PIDSLVTKAA------GKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSRPIRWI 546 (1092)
Q Consensus 484 ~~~~L~~~~~------~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~RPIrWI 546 (1092)
+++|..+.|. ++|+|+++...+.|.+|.+++..+-..+ +++ +|.+.|. .+.+.+-=.+|+
T Consensus 6 ~peDF~V~Ei~~~~~~g~Ge~l~~~l~K~~~~T~~ai~~LAr~l--gi~-~~~igyAGlKDk~AvT~Q~~ 72 (253)
T cd02575 6 TPEDFQVEEVLGYEPSGEGEHLLLHIRKTGLNTREVAKELAKAL--GVK-ERDVGYAGLKDRHAVTTQWF 72 (253)
T ss_pred CCcccEEEeecCCCcCCCCCEEEEEEEECCCCHHHHHHHHHHHh--CCC-hhheeecccccCceeeEEEE
Confidence 4667665553 5799999999999999999998775443 555 5888885 555555444544
No 87
>PRK14869 putative manganese-dependent inorganic pyrophosphatase; Provisional
Probab=23.21 E-value=2.1e+02 Score=35.33 Aligned_cols=28 Identities=21% Similarity=0.577 Sum_probs=18.7
Q ss_pred HHHHHHHHhCcceeEEECCCCCccccEEEEEc
Q 001359 656 DLLTVVMKKHQKYFALTDDKGRLLPYFIAVAN 687 (1092)
Q Consensus 656 EVLit~Mk~HQKYFpv~d~~GkLlp~FI~VsN 687 (1092)
+++-..++.+.++|||.|.+|++ +++-.
T Consensus 268 ~~~~~m~~~~~~~~PVvd~~g~l----vGiit 295 (546)
T PRK14869 268 DVKEVMLKSRYRSYPVVDEDGKV----VGVIS 295 (546)
T ss_pred HHHHHHHhcCCCceEEEcCCCCE----EEEEE
Confidence 44444455566899999988863 55544
No 88
>cd02577 PSTD1 PSTD1: Pseudouridine synthase, a subgroup of the TruD family. This group consists of several hypothetical archeal pseudouridine synthases assigned to the TruD family of psuedouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). The TruD family is comprised of proteins related to Escherichia coli TruD.
Probab=22.65 E-value=1.5e+02 Score=34.59 Aligned_cols=61 Identities=10% Similarity=0.187 Sum_probs=44.4
Q ss_pred CccCceEEEe------CCeeEEEEEEEecchhHHHHHHHHHHHHHhcCCCCcccccC-CCCcccchhhhHH
Q 001359 484 PIDSLVTKAA------GKTEYVYARVKETARLALEVLSEDVPSIISKLSFPKSMRWN-SQVMFSRPIRWIM 547 (1092)
Q Consensus 484 ~~~~L~~~~~------~kgeYl~~~k~~~G~~t~eiL~~il~~~I~~L~fpKsMRWg-~~~~F~RPIrWIv 547 (1092)
.++|..+.|. ++|+|+.+...+.+.+|.+++..+-..+ +++ ++.+.|. .+.+.+-=.+|+.
T Consensus 6 ~peDF~V~Ei~~~~~~~~g~y~~f~l~K~n~dT~~ai~~lar~l--~i~-~~~i~~AG~KDk~AvT~Q~vs 73 (319)
T cd02577 6 YPEDFIVEEITPFDIGKKGKYLIYLLEKKNWDTLDAVRRIAKAL--GIS-RKRIGYAGTKDKHAVTTQYIS 73 (319)
T ss_pred CCCceEEEEecCCCCCCCCCEEEEEEEECCCCHHHHHHHHHHHh--CCC-hhheeeccccccccceEEEEE
Confidence 4667666554 4899999999999999999999875544 565 6888885 5555555555544
No 89
>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=22.16 E-value=45 Score=40.13 Aligned_cols=23 Identities=26% Similarity=0.507 Sum_probs=19.6
Q ss_pred hhhHHHHHHHhCCCccceeeeCC
Q 001359 232 YGLERILMLLQGVDHFKKIQYAD 254 (1092)
Q Consensus 232 ygleri~m~~q~~~~~~~~~~~~ 254 (1092)
-|+||+.|++=|.+||.|+.+-+
T Consensus 398 iGidRL~m~l~g~~~Irdv~~FP 420 (428)
T TIGR00458 398 LGAERFVMFLLGLKNIREAVLFP 420 (428)
T ss_pred ecHHHHHHHHcCCCchheEEecc
Confidence 35599999999999999987754
No 90
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=22.05 E-value=1.5e+02 Score=35.04 Aligned_cols=76 Identities=24% Similarity=0.326 Sum_probs=52.1
Q ss_pred CceeeeccccccccccCCHHHHhhhcCCCcceEEeecCCCCCCCCCCCCCCccccceeeeEE--EEcCCC---cchHHHH
Q 001359 91 GCSVMQCSNTEVGAGTMNPLTFLRVLGPEPWNVAYVEPSIRPDDSRYGENPNRLQRHTQFQV--ILKPDP---GNSQDLF 165 (1092)
Q Consensus 91 gc~~~~p~~~e~gagt~~p~t~~~~l~~~~~~~ayv~p~~rp~d~ryg~npnrl~~~~q~qv--i~kp~p---~~~q~ly 165 (1092)
|-.+.-++|+-+... -++..-...|.+.+|+.++.|.....-| |...++|.-+ |-.+++ ..+..+.
T Consensus 74 g~~l~LRpd~T~~~a-----r~~~~~~~~p~r~~~~g~vfR~e~~~~g----r~ref~Q~g~ei~g~~~~~~d~E~i~~~ 144 (412)
T PRK00037 74 GRSLTLRPEGTAPVV-----RAVIEHKLQPFKLYYIGPMFRYERPQKG----RYRQFHQFGVEVIGSDSPLADAEVIALA 144 (412)
T ss_pred CCEEEecCCCcHHHH-----HHHHhCCCCCeEEEEEcCccccCCCCCC----cccceEEcCeeeeCCCCcchhHHHHHHH
Confidence 666666666433322 2222222389999999999997755433 7788888665 556666 5677899
Q ss_pred HHHHHhcCCC
Q 001359 166 IRSLSALGID 175 (1092)
Q Consensus 166 l~sl~~~gi~ 175 (1092)
.++|+.+|++
T Consensus 145 ~~~l~~lg~~ 154 (412)
T PRK00037 145 ADILKALGLK 154 (412)
T ss_pred HHHHHHcCCC
Confidence 9999999984
No 91
>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=20.11 E-value=67 Score=32.39 Aligned_cols=43 Identities=30% Similarity=0.501 Sum_probs=33.9
Q ss_pred EcCCCcchHHHHHHHHHhcCCCCCCCceeEecCCCCCcccccccccceee
Q 001359 154 LKPDPGNSQDLFIRSLSALGIDVTEHDIRFVEDNWESPVLGAWGLGWEIW 203 (1092)
Q Consensus 154 ~kp~p~~~q~lyl~sl~~~gi~~~~hdirfved~we~p~lgawglgwevw 203 (1092)
-||+| +.|..-++.+|+++ .++-||+|...+ ..+|-..||.+.
T Consensus 139 ~KP~~----~~~~~~~~~~~~~~--~~~~~vgD~~~d-i~aA~~~G~~~i 181 (183)
T TIGR01509 139 GKPDP----DIYLLALKKLGLKP--EECLFVDDSPAG-IEAAKAAGMHTV 181 (183)
T ss_pred CCCCH----HHHHHHHHHcCCCc--ceEEEEcCCHHH-HHHHHHcCCEEE
Confidence 37765 56777799999975 568999999865 888888998654
Done!