Query 044953
Match_columns 213
No_of_seqs 117 out of 730
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 08:25:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044953.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044953hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02734 glycyl-tRNA synthetas 100.0 3.7E-73 8.1E-78 553.4 15.6 209 1-212 369-683 (684)
2 KOG2298 Glycyl-tRNA synthetase 100.0 1.1E-72 2.4E-77 529.0 8.3 193 1-197 303-599 (599)
3 COG0423 GRS1 Glycyl-tRNA synth 100.0 1.4E-68 3E-73 506.5 12.1 191 2-196 276-557 (558)
4 TIGR00389 glyS_dimeric glycyl- 100.0 2.1E-61 4.6E-66 463.1 13.1 166 1-168 270-465 (551)
5 PRK14894 glycyl-tRNA synthetas 100.0 8.2E-54 1.8E-58 406.4 10.1 119 1-140 217-336 (539)
6 PRK04173 glycyl-tRNA synthetas 99.9 5E-28 1.1E-32 228.2 9.9 133 2-170 239-373 (456)
7 cd00774 GlyRS-like_core Glycyl 99.8 1.2E-22 2.6E-27 177.7 -3.0 95 2-133 160-254 (254)
8 cd00770 SerRS_core Seryl-tRNA 99.2 1.9E-11 4E-16 109.7 6.9 106 2-161 188-296 (297)
9 PRK03991 threonyl-tRNA synthet 99.2 7.8E-11 1.7E-15 115.6 8.6 78 110-193 453-595 (613)
10 TIGR00408 proS_fam_I prolyl-tR 99.1 2E-10 4.3E-15 109.3 10.3 108 2-167 179-289 (472)
11 PRK08661 prolyl-tRNA synthetas 99.0 3.5E-09 7.5E-14 100.9 10.3 110 2-168 184-295 (477)
12 TIGR00414 serS seryl-tRNA synt 98.9 9.3E-10 2E-14 103.5 5.0 107 2-161 309-417 (418)
13 cd02426 Pol_gamma_b_Cterm C-te 98.4 6.4E-07 1.4E-11 71.8 5.5 51 130-186 3-53 (128)
14 TIGR00409 proS_fam_II prolyl-t 98.3 9.7E-07 2.1E-11 86.2 6.2 48 111-168 434-481 (568)
15 cd00670 Gly_His_Pro_Ser_Thr_tR 98.2 2.4E-06 5.1E-11 72.2 6.1 85 2-133 141-235 (235)
16 PRK05431 seryl-tRNA synthetase 98.2 1.5E-06 3.2E-11 82.1 4.8 106 2-162 307-416 (425)
17 PRK12444 threonyl-tRNA synthet 98.2 9.7E-06 2.1E-10 79.6 9.9 45 110-168 503-549 (639)
18 TIGR00418 thrS threonyl-tRNA s 98.1 1.3E-05 2.8E-10 77.2 9.9 44 111-168 433-478 (563)
19 cd00858 GlyRS_anticodon GlyRS 98.1 4E-06 8.7E-11 65.6 4.9 35 132-169 1-35 (121)
20 PRK14938 Ser-tRNA(Thr) hydrola 98.1 3.4E-06 7.3E-11 79.3 4.8 35 124-168 248-282 (387)
21 PLN02837 threonine-tRNA ligase 98.1 9.4E-06 2E-10 79.8 8.0 128 2-168 383-524 (614)
22 PRK14799 thrS threonyl-tRNA sy 97.8 4.9E-05 1.1E-09 74.2 6.9 70 110-193 400-534 (545)
23 PRK12305 thrS threonyl-tRNA sy 97.6 0.00038 8.2E-09 67.4 9.3 70 110-193 438-572 (575)
24 PRK09194 prolyl-tRNA synthetas 97.4 0.00036 7.8E-09 67.9 6.7 46 111-168 429-476 (565)
25 PLN02908 threonyl-tRNA synthet 96.9 0.004 8.6E-08 62.3 8.9 66 112-192 556-684 (686)
26 PRK00413 thrS threonyl-tRNA sy 96.9 0.0019 4.1E-08 63.3 6.1 70 111-194 502-636 (638)
27 PRK12325 prolyl-tRNA synthetas 96.6 0.0054 1.2E-07 58.1 6.6 65 111-187 306-372 (439)
28 cd00862 ProRS_anticodon_zinc P 96.1 0.0056 1.2E-07 52.4 3.5 17 152-168 2-18 (202)
29 PLN02678 seryl-tRNA synthetase 96.0 0.015 3.2E-07 55.9 6.5 106 2-161 314-423 (448)
30 PLN02320 seryl-tRNA synthetase 93.2 0.24 5.2E-06 48.5 6.6 117 2-161 370-490 (502)
31 KOG4163 Prolyl-tRNA synthetase 90.6 0.28 6.1E-06 47.7 3.8 23 169-191 427-449 (551)
32 cd00778 ProRS_core_arch_euk Pr 89.7 0.95 2E-05 40.0 6.1 50 2-54 173-224 (261)
33 COG0441 ThrS Threonyl-tRNA syn 89.4 0.78 1.7E-05 45.8 5.9 43 112-168 451-495 (589)
34 cd00779 ProRS_core_prok Prolyl 89.0 1.4 3.1E-05 38.7 6.8 50 2-54 167-217 (255)
35 PRK00037 hisS histidyl-tRNA sy 82.2 2.2 4.7E-05 39.5 4.7 15 120-134 299-313 (412)
36 KOG2509 Seryl-tRNA synthetase 80.3 1.1 2.4E-05 43.4 2.1 94 2-140 323-420 (455)
37 cd00768 class_II_aaRS-like_cor 78.5 4.7 0.0001 32.6 5.0 57 2-59 127-185 (211)
38 KOG2324 Prolyl-tRNA synthetase 75.4 2.3 4.9E-05 40.8 2.6 47 122-178 300-347 (457)
39 COG0172 SerS Seryl-tRNA synthe 74.7 7.3 0.00016 37.7 5.9 53 2-57 310-364 (429)
40 PRK00960 seryl-tRNA synthetase 51.1 44 0.00096 33.1 6.5 53 2-54 389-454 (517)
41 cd00861 ProRS_anticodon_short 50.7 15 0.00033 26.3 2.5 11 160-170 1-11 (94)
42 CHL00201 syh histidine-tRNA sy 46.0 31 0.00067 32.7 4.4 28 169-197 397-424 (430)
43 TIGR00470 sepS O-phosphoseryl- 44.8 26 0.00056 34.9 3.7 44 2-49 254-301 (533)
44 COG0124 HisS Histidyl-tRNA syn 38.1 54 0.0012 31.7 4.8 21 115-136 307-327 (429)
45 cd00772 ProRS_core Prolyl-tRNA 36.6 1.3E+02 0.0028 26.6 6.7 47 2-50 173-220 (264)
46 COG1240 ChlD Mg-chelatase subu 35.8 77 0.0017 29.0 5.1 56 117-192 83-151 (261)
47 PLN02882 aminoacyl-tRNA ligase 35.1 30 0.00065 37.4 2.7 27 70-96 900-926 (1159)
48 COG0016 PheS Phenylalanyl-tRNA 32.3 72 0.0016 30.0 4.5 43 2-49 238-283 (335)
49 PTZ00427 isoleucine-tRNA ligas 32.0 37 0.0008 36.9 2.8 27 70-96 1025-1051(1205)
50 PF14153 Spore_coat_CotO: Spor 31.4 17 0.00037 31.3 0.2 35 151-185 126-180 (185)
51 PF02662 FlpD: Methyl-viologen 31.3 26 0.00057 27.8 1.3 22 2-23 84-105 (124)
52 cd00860 ThrRS_anticodon ThrRS 28.7 60 0.0013 22.7 2.7 17 169-185 73-89 (91)
53 PF13659 Methyltransf_26: Meth 27.3 59 0.0013 23.8 2.5 21 116-136 2-22 (117)
54 PF00098 zf-CCHC: Zinc knuckle 26.7 27 0.00058 19.0 0.4 11 22-32 7-17 (18)
55 COG1908 FrhD Coenzyme F420-red 25.6 33 0.00071 28.3 0.9 22 2-23 85-106 (132)
56 PF00639 Rotamase: PPIC-type P 25.5 1.1E+02 0.0024 22.3 3.7 38 171-208 9-46 (95)
57 COG1504 Uncharacterized conser 22.7 63 0.0014 26.2 2.0 54 37-96 6-59 (121)
58 PRK07080 hypothetical protein; 22.5 48 0.001 31.0 1.5 17 122-138 285-302 (317)
59 PF03129 HGTP_anticodon: Antic 22.0 46 0.001 23.9 1.0 21 169-189 74-94 (94)
60 COG0378 HypB Ni2+-binding GTPa 20.4 1.1E+02 0.0024 27.0 3.1 74 19-92 77-166 (202)
No 1
>PLN02734 glycyl-tRNA synthetase
Probab=100.00 E-value=3.7e-73 Score=553.40 Aligned_cols=209 Identities=82% Similarity=1.311 Sum_probs=200.8
Q ss_pred ChhHHHhCCCCCCceeeccCCccccccccceeeEEEecCCceEEEEeeecCcchhhccC-----------cccCCceEEE
Q 044953 1 YLFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSHGWIECVGIADRSTYDLHAH-----------TKFSETREVE 69 (213)
Q Consensus 1 ~~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~GW~E~~GiAdR~~yDL~~H-----------~~~~~p~~~~ 69 (213)
|+||.+|||++++||||||+++||||||+||||+||+|||||+|||||||||||||++| .++++|++++
T Consensus 369 ~~fl~~iGi~~~~lRfRqh~~~EmAHYA~dcwD~E~~~~~GWiE~vG~AdRs~yDL~~H~~~Sg~~L~~~~~~~ep~~~~ 448 (684)
T PLN02734 369 YLFLTKLGIDKERLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIADRSAYDLKAHSDKSKVPLVAHEKFAEPREVE 448 (684)
T ss_pred HHHHHHcCCCHHHeeecccCcHHHhhhhhccEeEEEecCCCcEEEEEeccccccchHHHHHhhCCCeEEEeccCCcceee
Confidence 57999999999999999999999999999999999999999999999999999999999 5677899999
Q ss_pred EEEEecchhhhhhhhcccHHHHHHHHH----------------------------------hcccccccccccccceeee
Q 044953 70 KLVIAPVKKELGLAFKGSQKNVVEALE----------------------------------KNMLLISKEKKKEHQRVFI 115 (213)
Q Consensus 70 ~~~~~~~~~~~g~~fk~~~~~~~~~l~----------------------------------~~~~~~~~~~~~~~~e~~i 115 (213)
++.+.+||+.+|++||+|++.++++|+ ++|++|+..++++++++||
T Consensus 449 ~~~~~~~~~~~g~~fk~~~~~v~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i 528 (684)
T PLN02734 449 VLVIVPNKKELGLAFKGDQKVVVEALEAMNEKEAMEMKAKLESKGEAEFYVCTLGKEVEIKKNMVSISKEKKKEHQRVFT 528 (684)
T ss_pred eEEEecchhhhhHHHHHHHHHHHHHHHhcchhHHHHHHHhhhhcCceeeeecccCcceeechhheeeeeeeeeecCceec
Confidence 999999999999999999999999877 5788999999999999999
Q ss_pred eeeeeccCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee---------------------------
Q 044953 116 PLVIEPSFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL--------------------------- 168 (213)
Q Consensus 116 PhVIEPSfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL--------------------------- 168 (213)
||||||||||||||||+|||+|++| ++|++|++|+|||.|||+||+|+||
T Consensus 529 P~VIEPS~GIgRIl~AilE~s~~~~---~~De~R~~L~~Pp~IAP~qVaIlPL~~~ee~~~~A~eLa~~LR~~GIrVelD 605 (684)
T PLN02734 529 PSVIEPSFGIGRIIYCLFEHSFYTR---PGDEQLNVFRFPPLVAPIKCTVFPLVQNQQLNAVAKVISKELTAAGISHKID 605 (684)
T ss_pred CceEecCccHHHHHHHHHHHHhccc---cCCCcceEEecCcccCCcEEEEEEecCChHHHHHHHHHHHHHHhCCCEEEEE
Confidence 9999999999999999999999998 5678899999999999999999999
Q ss_pred ----------------------------------cCCcccccccHHHHHHHHHHhhcCCccHHHHhhhCCCeecccCC
Q 044953 169 ----------------------------------RDSKDQIRVSVDEAASVIKAVTDGQTTWEDVWSSYPHHCSESAD 212 (213)
Q Consensus 169 ----------------------------------Rds~~QvR~~i~~l~~~i~~l~~~~~~w~~~~~~~p~~~~~~~~ 212 (213)
|||++|+|++++++.+.|.++++|..+|+++.++||.|++|+++
T Consensus 606 d~~~SIGKRyrrADeiGIPf~ItIG~dgtVTIRdRdsgeQ~rV~ldeLv~~I~~li~~~~~w~~~~~~~~~~~~~~~~ 683 (684)
T PLN02734 606 ITGTSIGKRYARTDELGVPFAVTVDSDGSVTIRERDSKDQVRVPVEEVASVVKDLTDGRMTWEDVTAKYPAHSSAADD 683 (684)
T ss_pred CCCCCHhHHHHHHHHcCCCEEEEECCCCeEEEEECCCCceEEeeHHHHHHHHHHHHcCCCCHHHHHhhCccccccccC
Confidence 89999999999999999999999999999999999999998764
No 2
>KOG2298 consensus Glycyl-tRNA synthetase and related class II tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-72 Score=528.96 Aligned_cols=193 Identities=59% Similarity=0.924 Sum_probs=188.6
Q ss_pred ChhHHHhCCCCCCceeeccCCccccccccceeeEEEecCCceEEEEeeecCcchhhccC-----------cccCCceEEE
Q 044953 1 YLFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSHGWIECVGIADRSTYDLHAH-----------TKFSETREVE 69 (213)
Q Consensus 1 ~~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~GW~E~~GiAdR~~yDL~~H-----------~~~~~p~~~~ 69 (213)
|+||.+|||++++||||||+.|||||||+||||+|++||||||||||||||+||||++| +++.+|++++
T Consensus 303 ~~fL~~lGid~~rlRFRqH~~nEMAHYA~DCWDaEi~tSYGWIEcVG~ADRs~yDL~~Hs~~t~~~Lv~~~kl~ePkeve 382 (599)
T KOG2298|consen 303 YLFLNKLGIDKERLRFRQHMANEMAHYAFDCWDAEIKTSYGWIECVGCADRAAYDLSTHSRASKVWLVAELRLREPKEVE 382 (599)
T ss_pred HHHHHHhCcchhhcchHHHhhhhhhhhhccccchhhhhccCcEEEeeccchhheeeecCccccCCceeehhhcCCcceEE
Confidence 68999999999999999999999999999999999999999999999999999999999 7899999999
Q ss_pred EEEEecchhhhhhhhcccHHHHHHHHH----------------------------hcccccccccccccceeeeeeeeec
Q 044953 70 KLVIAPVKKELGLAFKGSQKNVVEALE----------------------------KNMLLISKEKKKEHQRVFIPLVIEP 121 (213)
Q Consensus 70 ~~~~~~~~~~~g~~fk~~~~~~~~~l~----------------------------~~~~~~~~~~~~~~~e~~iPhVIEP 121 (213)
.+.+.+||+.+|++||+++|.++++|. ++++.+++.+++++.+.|+|+||||
T Consensus 383 ~~~i~~~kk~~g~~fk~~ak~v~~~l~~~s~~e~~~~~~~L~~~g~~~~~v~~l~k~~v~i~~~~k~~hV~e~~P~VIEP 462 (599)
T KOG2298|consen 383 FAVIPPNKKELGCAFKKDAKGVNETLIFPSGKELIETLENLGDHGLLHMYVVNLSKLHVRIKRKTKVPHVREVNPDVIEP 462 (599)
T ss_pred EEEeccchhhcchhhhhcccchhHHhhcCCHHHHHHHHHHhhcCCcEEEEEEecccceeeeeeeeeeeeEEeecCCcccc
Confidence 999999999999999999999999998 8899999999999999999999999
Q ss_pred cCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee---------------------------------
Q 044953 122 SFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL--------------------------------- 168 (213)
Q Consensus 122 SfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL--------------------------------- 168 (213)
|||||||||+++||||+ | .+|++|+||+|||.||||||+|+||
T Consensus 463 SfGiGRI~Y~l~EHsF~-R---~~de~R~~~sfpp~vAPiK~~v~pls~n~ef~pv~~~ls~~L~~~gis~kvdds~~SI 538 (599)
T KOG2298|consen 463 SFGIGRISYQLTEHSFT-R---KGDEQRKVLSFPPLVAPIKVALDPLSPNLEFRPVCQGLSNELTENGISVKVDDSSSSI 538 (599)
T ss_pred cchhhHHHHHHHhhhhc-c---CcccccceeccCccccceEEEEEeccCchhHHHHHHHHHHHHHhCCCeEEecCCCCcH
Confidence 99999999999999999 6 6789999999999999999999999
Q ss_pred --------------------------------cCCcccccccHHHHHHHHHHhhcCCccHH
Q 044953 169 --------------------------------RDSKDQIRVSVDEAASVIKAVTDGQTTWE 197 (213)
Q Consensus 169 --------------------------------Rds~~QvR~~i~~l~~~i~~l~~~~~~w~ 197 (213)
||||+|||+.+++++++|.+++.|..+|+
T Consensus 539 GrrYAr~DElgipFgiTvDfdtlk~~tVTlReRdS~~QvR~~i~e~~s~v~~~~~g~~~w~ 599 (599)
T KOG2298|consen 539 GRRYARTDELGIPFGVTVDFDTLKNGTVTLRERDSTMQVRMHISKLKSFLIKYISGAKNWE 599 (599)
T ss_pred hhhhhccccccCceEEEEchhhhcCceEEEeecccHHHHHhhHHHHHHHHHHHhcccccCC
Confidence 99999999999999999999999999995
No 3
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-68 Score=506.51 Aligned_cols=191 Identities=48% Similarity=0.822 Sum_probs=179.3
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecC-CceEEEEeeecCcchhhccCc-----------ccCCceEEE
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECS-HGWIECVGIADRSTYDLHAHT-----------KFSETREVE 69 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~-~GW~E~~GiAdR~~yDL~~H~-----------~~~~p~~~~ 69 (213)
.||.+|||++++||||||+++||||||++|||+||+|+ |||+||+||||||||||++|+ +|++|++++
T Consensus 276 ~fl~~lGI~~e~lRfrqh~~~E~AHYa~~twD~E~~~~~~gWiE~~GiAdRtdYDL~~H~k~s~~~l~v~~~~~ePk~v~ 355 (558)
T COG0423 276 FFLEDLGIDPEKLRFRQHLPEELAHYSKDTWDAEYKFPFGGWIELVGIADRTDYDLSRHSKFSGEDLTVFREYDEPKEVE 355 (558)
T ss_pred HHHHHcCCCHHHhhhhhcChHHHhhhhhcceeEEEecCCCceEEEEEeecccccchhhhhhhccccceeeeccCCcceee
Confidence 57889999999999999999999999999999999999 789999999999999999994 478999999
Q ss_pred EEEEecchhhhhhhhcccHHHHHHHHH---------------hcccccccccccccceeeeeeeeeccCCchHHHHHHHH
Q 044953 70 KLVIAPVKKELGLAFKGSQKNVVEALE---------------KNMLLISKEKKKEHQRVFIPLVIEPSFGIGRIIYCLYE 134 (213)
Q Consensus 70 ~~~~~~~~~~~g~~fk~~~~~~~~~l~---------------~~~~~~~~~~~~~~~e~~iPhVIEPSfGldRilyalLe 134 (213)
.+.+.+|++.+|+.||++|++|++.++ ++++.|+.++ ++++++||||||||||||||++||+|+
T Consensus 356 ~~~~~~~~~~~gp~~k~~a~~v~~~~se~~~~~~~~~~~~~~~~~~~i~~~~-~~~~e~~iP~VIEPSfGidRi~y~~l~ 434 (558)
T COG0423 356 RWHSKVDLKFLGPEFKKDAKKVAEALSELEELEKELNGYEVSKDLVIIEEVE-KVTGEKYIPHVIEPSFGIDRIFYALLE 434 (558)
T ss_pred eeecccchhhcChhhhhhHHHHhhhhhhhhhhhhccCccccccchhheeeee-eccCceecCceeccCCCchHHHHHHHH
Confidence 999999999999999999999998775 6677787777 899999999999999999999999999
Q ss_pred hhhcccCCCCCCcceeEEecCCCCCCceEEEeee----------------------------------------------
Q 044953 135 HSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL---------------------------------------------- 168 (213)
Q Consensus 135 ~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL---------------------------------------------- 168 (213)
|||+++ ++++.|.||+|||.|||||||||||
T Consensus 435 ~ay~~e---e~~e~R~vLrl~p~lAPikvaVlPL~~k~~l~~~a~~i~~~L~~~~~~v~yDdsGsIGrRYrR~DEIGtPf 511 (558)
T COG0423 435 HAYTEE---EVEEKRIVLRLPPDLAPIKVAVLPLVKKDELVEIAKEIFEKLRELGFNVDYDDSGSIGRRYRRQDEIGTPF 511 (558)
T ss_pred Hhhccc---ccccceeEEecCcccCceEEEEEeeecccchhHHHHHHHHHHHhcCceEEecCCCcHhhhhhhccccCCce
Confidence 999988 5557899999999999999999999
Q ss_pred ------------------cCCcccccccHHHHHHHHHHhhcCCccH
Q 044953 169 ------------------RDSKDQIRVSVDEAASVIKAVTDGQTTW 196 (213)
Q Consensus 169 ------------------Rds~~QvR~~i~~l~~~i~~l~~~~~~w 196 (213)
||||+|||++|+||++.|..++.|...|
T Consensus 512 cVTvD~eTleD~tVTiReRDs~~QvRv~i~el~~~l~~~~~~~~~~ 557 (558)
T COG0423 512 CVTVDFETLEDNTVTIRERDSMEQVRVKIEELADYLRELIKGGFEW 557 (558)
T ss_pred EEEecCCcccCCcEEEeecCchheeeeeHHHHHHHHHHHhcccccc
Confidence 9999999999999999999999876555
No 4
>TIGR00389 glyS_dimeric glycyl-tRNA synthetase, dimeric type. This model describes a glycyl-tRNA synthetase distinct from the two alpha and two beta chains of the tetrameric E. coli glycyl-tRNA synthetase. This enzyme is a homodimeric class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes His, Ser, Pro, and this set of glycyl-tRNA synthetases.
Probab=100.00 E-value=2.1e-61 Score=463.13 Aligned_cols=166 Identities=50% Similarity=0.853 Sum_probs=157.5
Q ss_pred ChhHHHhCCCCCCceeeccCCccccccccceeeEEEecCCceEEEEeeecCcchhhccC-----------cccCCceEEE
Q 044953 1 YLFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSHGWIECVGIADRSTYDLHAH-----------TKFSETREVE 69 (213)
Q Consensus 1 ~~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~GW~E~~GiAdR~~yDL~~H-----------~~~~~p~~~~ 69 (213)
++||.++||++++||||||+++||||||+||||+||+|||||+||+||||||||||++| .++++|++++
T Consensus 270 ~~fl~~~Gi~~~~lrfrqh~~~e~AHYa~~~~D~e~~~~~Gw~E~~G~a~R~~yDL~~H~~~s~~~l~~~~~~~~p~~~~ 349 (551)
T TIGR00389 270 KQFLLEIGINPDKLRFRQHDKNEMAHYAKDCWDFEFLTPYGWIECVGIADRGDYDLTQHSKFSGKSLSVFDKLDEPREVT 349 (551)
T ss_pred HHHHHHhCCCHHHeeecccCcHHHhhhccccEeEEEecCCCcEEEEEeccccccChHHHHHhhCCCeEEEeecCCCceeE
Confidence 47999999999999999999999999999999999999999999999999999999999 5677899999
Q ss_pred EEEEecchhhhhhhhcccHHHHHHHHH-------------------hcccccccccccccceeeeeeeeeccCCchHHHH
Q 044953 70 KLVIAPVKKELGLAFKGSQKNVVEALE-------------------KNMLLISKEKKKEHQRVFIPLVIEPSFGIGRIIY 130 (213)
Q Consensus 70 ~~~~~~~~~~~g~~fk~~~~~~~~~l~-------------------~~~~~~~~~~~~~~~e~~iPhVIEPSfGldRily 130 (213)
.+.+.+||+.+||+||+|++.+++.|+ ++|+.|+..++++++++++|||||||||+||+++
T Consensus 350 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~VIepS~GIdRIi~ 429 (551)
T TIGR00389 350 KWEIEPNKKKFGPKFRKDAKKIESNLSEDDLEEREEELDKNEVELDKDLVEIEMVTEVVHGEKYIPHVIEPSFGIDRIIY 429 (551)
T ss_pred EEEEecchhhhhhhhHhHHHHHHHhhcHHHHHHHHhhhhccceecchhhhhheeeeeccCCcEecceEEEcccCHHHHHH
Confidence 999999999999999999999999775 7899999999999999999999999999999999
Q ss_pred HHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee
Q 044953 131 CLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL 168 (213)
Q Consensus 131 alLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL 168 (213)
|+|+|+|.++. .++++|+||+|||.|||+||+|+|+
T Consensus 430 ALle~~~~e~~--~~~~~r~vL~lp~~lAP~kV~VIpl 465 (551)
T TIGR00389 430 ALLEHSYQEEV--LDGEEREVLRLPPHLAPIKVAVLPL 465 (551)
T ss_pred HHHHhhCcccc--ccccccceeccCCccCCceEEEEEe
Confidence 99999999762 2346799999999999999999999
No 5
>PRK14894 glycyl-tRNA synthetase; Provisional
Probab=100.00 E-value=8.2e-54 Score=406.44 Aligned_cols=119 Identities=26% Similarity=0.465 Sum_probs=104.0
Q ss_pred ChhHHHhCCCCCCceeeccCCccccccccceeeEEEecC-CceEEEEeeecCcchhhccCcccCCceEEEEEEEecchhh
Q 044953 1 YLFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECS-HGWIECVGIADRSTYDLHAHTKFSETREVEKLVIAPVKKE 79 (213)
Q Consensus 1 ~~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~-~GW~E~~GiAdR~~yDL~~H~~~~~p~~~~~~~~~~~~~~ 79 (213)
++||.+|||++++||||||+++||||||++|||+||+|| |||+||+||||||||||++|++.++.... ...+.+|+.
T Consensus 217 ~~fl~~iGi~~~~lrfr~h~~~ElAHYa~~~~D~e~~~p~~Gw~E~~Gia~RtdyDL~~H~~~s~~~~l-~~~~~~~~~- 294 (539)
T PRK14894 217 LAWWEQIGIPRSRITIYDVPPDELAHYSKRTFDLMYDYPNIGVQEIEGIANRTDYDLGSHSKDQEQLNL-TARVNPNED- 294 (539)
T ss_pred HHHHHHhCCCHHHeeeeecCcHHhhhhhhccEEEEEECCCCCeEEEEEeecccccCHHHHhhhcccCCc-eeeeccccC-
Confidence 479999999999999999999999999999999999997 89999999999999999999998873111 125666663
Q ss_pred hhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeeccCCchHHHHHHHHhhhccc
Q 044953 80 LGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPSFGIGRIIYCLYEHSFYTR 140 (213)
Q Consensus 80 ~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPSfGldRilyalLe~sf~~r 140 (213)
++ ++|.+|++ +++++|+|||||||||+||++||+|+|||+++
T Consensus 295 -s~--------------~~l~~~~~----~~~~~~iP~ViEpS~G~dR~~~a~l~~~y~~~ 336 (539)
T PRK14894 295 -ST--------------ARLTYFDQ----ASGRHVVPYVIEPSAGVGRCMLAVMCEGYAEE 336 (539)
T ss_pred -CC--------------ceEEEEec----cCCcccCCceeecCcchhHHHHHHHHHHHhhh
Confidence 22 67778764 58899999999999999999999999999987
No 6
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=99.95 E-value=5e-28 Score=228.16 Aligned_cols=133 Identities=40% Similarity=0.762 Sum_probs=117.4
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecCCc--eEEEEeeecCcchhhccCcccCCceEEEEEEEecchhh
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSHG--WIECVGIADRSTYDLHAHTKFSETREVEKLVIAPVKKE 79 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~G--W~E~~GiAdR~~yDL~~H~~~~~p~~~~~~~~~~~~~~ 79 (213)
.||..+|+++.++||++|.++|++||+..|||+|+.++.| |.|+.|+++|++|||.+|+++++
T Consensus 239 ~~l~~lG~~~~~~~~s~~~~~e~~~ys~~~wd~e~~~~~g~~~~e~~g~~~~~dydL~~~~~~s~--------------- 303 (456)
T PRK04173 239 NWLLDLGIDPENLRFREHLPEELAHYSKATWDIEYKFPFGRFWGELEGIANRTDYDLSRHSKHSG--------------- 303 (456)
T ss_pred HHHHHcCCCccceEEEecCcchhhccHHHHHhHHHhCCCCCcEEEEeeeeccchhhcccchhhcC---------------
Confidence 5889999999999999999999999999999999999999 99999999999999999988876
Q ss_pred hhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeeccCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCC
Q 044953 80 LGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPSFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVA 159 (213)
Q Consensus 80 ~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPSfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lA 159 (213)
.++.+++. ..++++.+||||++|+|++|+++|+|+++|..++ .+++++|++|+||+.||
T Consensus 304 -----------------~dl~y~~~---~~~~~~~~P~vi~~siGieRl~~ail~~~~~~~~-~~~~~~r~~l~~P~~lA 362 (456)
T PRK04173 304 -----------------EDLSYFDD---ETTGEKYIPYVIEPSAGLDRLLLAFLEDAYTEEE-LGGGDKRTVLRLPPALA 362 (456)
T ss_pred -----------------CCeEEEec---CCCCceeeeEEEEecccHHHHHHHHHHHHccccc-ccCCcceeEEECCCcCC
Confidence 44443321 2367899999999999999999999999998752 23467899999999999
Q ss_pred CceEEEeeecC
Q 044953 160 PIKCTVFPLRD 170 (213)
Q Consensus 160 PiKvaVlPLRd 170 (213)
|++|+|+|+-+
T Consensus 363 P~qV~Iipi~~ 373 (456)
T PRK04173 363 PVKVAVLPLVK 373 (456)
T ss_pred CCEEEEEEecC
Confidence 99999999854
No 7
>cd00774 GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. 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 ATP binding and hydrolysis. This alignment contains only sequences from the GlyRS form which homodimerizes. The heterotetramer glyQ is in a different family of class II aaRS. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the N-terminus of the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Pol gamma b stimulates processive DNA synthesis and is functional as a homodimer, which can associate with the catalytic subunit Pol gamma alpha to form a heterotrimer. Despite significant both structural and sequence similarity with Gly
Probab=99.83 E-value=1.2e-22 Score=177.74 Aligned_cols=95 Identities=31% Similarity=0.378 Sum_probs=82.4
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecCCceEEEEeeecCcchhhccCcccCCceEEEEEEEecchhhhh
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSHGWIECVGIADRSTYDLHAHTKFSETREVEKLVIAPVKKELG 81 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~GW~E~~GiAdR~~yDL~~H~~~~~p~~~~~~~~~~~~~~~g 81 (213)
.||.++|++++++||++|.+.|+||||++|||+++.+++||.|++||++|++|||+.|++.+.
T Consensus 160 ~~l~~~G~~~~~~r~~~~~~~e~a~ya~~~~d~~~~~~~~w~e~~Gi~~~~~~~l~~~~~e~a----------------- 222 (254)
T cd00774 160 KWLPKFAQSPENLRLTDHEKEELAHYANETLDYFYAFPHGFLELEGIANRGDRFLQHHPNESA----------------- 222 (254)
T ss_pred HHHHHcCCCccceEEEecccHhhhhhhHHHHHHHHHHhhhHHHHcCCCcchhHHHhCChhhhh-----------------
Confidence 588999999999999999999999999999999999999999999999999999999966654
Q ss_pred hhhcccHHHHHHHHHhcccccccccccccceeeeeeeeeccCCchHHHHHHH
Q 044953 82 LAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPSFGIGRIIYCLY 133 (213)
Q Consensus 82 ~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPSfGldRilyalL 133 (213)
..+..... ...+|+|||||||+|+||+.|+||
T Consensus 223 ---------------~y~~~~~d-----~~~~~~~~~~E~~g~~dR~~~dLl 254 (254)
T cd00774 223 ---------------HYASDCWD-----AEKLYVPGWIEVSGGADRTDYDLL 254 (254)
T ss_pred ---------------chHHhccC-----cceeeCCceEEEeeeechHHhhcC
Confidence 11111111 226889999999999999999985
No 8
>cd00770 SerRS_core Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer.
Probab=99.22 E-value=1.9e-11 Score=109.67 Aligned_cols=106 Identities=16% Similarity=0.281 Sum_probs=86.1
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecCC--ceEEEEeeecCcchhhccC-cccCCceEEEEEEEecchh
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSH--GWIECVGIADRSTYDLHAH-TKFSETREVEKLVIAPVKK 78 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~--GW~E~~GiAdR~~yDL~~H-~~~~~p~~~~~~~~~~~~~ 78 (213)
.++.++||+ .|...+.+.||+|+|+.++|+|...|. +|.|+.+|++++||++++| .++..
T Consensus 188 ~i~~~lgl~---~~~~~~~~~dl~~~~~~~~d~e~~~p~~~~~~e~~s~s~~~d~~s~r~~i~y~~-------------- 250 (297)
T cd00770 188 EILQELGLP---YRVVNICTGDLGFAAAKKYDIEAWMPGQGKYREISSCSNCTDFQARRLNIRYRD-------------- 250 (297)
T ss_pred HHHHHcCCc---EEEEEccCccccCchhhheeeheecCCCCCeEEEEEccCccChhhhhcCcEEec--------------
Confidence 467899998 788899999999999999999988875 7999999999999998887 11111
Q ss_pred hhhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeeccCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCC
Q 044953 79 ELGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPSFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLV 158 (213)
Q Consensus 79 ~~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPSfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~l 158 (213)
+ +.++++|+++|.+++.|++|+|.|+||+ |+.+ ......|..|
T Consensus 251 -------------------------~---~~~~~~~~~~~~~~~~~~~R~l~alle~-~~~~--------~g~v~~P~~l 293 (297)
T cd00770 251 -------------------------K---KDGKKQYVHTLNGTALATPRTIVAILEN-YQTE--------DGSVVIPEVL 293 (297)
T ss_pred -------------------------C---CCCCeeeeeEecccchHHHHHHHHHHHh-CcCC--------CCcEeCchhh
Confidence 1 0145789999999999999999999999 6633 2335577888
Q ss_pred CCc
Q 044953 159 API 161 (213)
Q Consensus 159 APi 161 (213)
+|+
T Consensus 294 ~py 296 (297)
T cd00770 294 RPY 296 (297)
T ss_pred ccc
Confidence 886
No 9
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=99.16 E-value=7.8e-11 Score=115.57 Aligned_cols=78 Identities=26% Similarity=0.487 Sum_probs=69.2
Q ss_pred cceeeeeeeee--ccCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee-------------------
Q 044953 110 HQRVFIPLVIE--PSFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL------------------- 168 (213)
Q Consensus 110 ~~e~~iPhVIE--PSfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL------------------- 168 (213)
.+++-.|++|+ |+.|++|+|+++|||++..+ +++.+|.||+.|||++|.|+|+
T Consensus 453 ~g~~~~Pviih~~~~GsieR~i~aliE~~~~~~------~~g~gl~~P~~lAP~qV~IIpi~e~~~~~A~eIa~~Lr~~G 526 (613)
T PRK03991 453 NGEEKYPIILHCSPTGSIERVIYALLEKAAKEE------EEGKVPMLPTWLSPTQVRVIPVSERHLDYAEEVADKLEAAG 526 (613)
T ss_pred CCCEeeCEEEEECCEeHHHHHHHHHHHHhCCcc------ccCceeEcCccccCceEEEEEeCHHHHHHHHHHHHHHHhCC
Confidence 34556899999 88889999999999998753 3479999999999999999999
Q ss_pred --------------------------------------------cCCcccccccHHHHHHHHHHhhcCC
Q 044953 169 --------------------------------------------RDSKDQIRVSVDEAASVIKAVTDGQ 193 (213)
Q Consensus 169 --------------------------------------------Rds~~QvR~~i~~l~~~i~~l~~~~ 193 (213)
|+|.+|.+++++++.+.|+++++|.
T Consensus 527 irV~lDdr~~slgkKir~A~~~GiP~iIVIG~kEle~g~VtVr~R~t~eq~~v~l~eli~~l~~~~~~~ 595 (613)
T PRK03991 527 IRVDVDDRDESLGKKIRDAGKEWIPYVVVIGDKEMESGKLTVTIREESEKVEMTLEELIERIKEETKGY 595 (613)
T ss_pred CEEEEECCCCCHHHHHHHHHHcCCCEEEEECcchhhCCeEEEEECCCCceEEeeHHHHHHHHHHHHhcC
Confidence 8999999999999999999888764
No 10
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=99.15 E-value=2e-10 Score=109.30 Aligned_cols=108 Identities=22% Similarity=0.283 Sum_probs=76.7
Q ss_pred hhHH-HhCCCCCCceeeccCCccccccccceeeEEEecCCc-eEEEEeeecCcchhhccCcccCCceEEEEEEEecchhh
Q 044953 2 LFLA-CLGIDKERLRFRQHLANEMAHYAANCWDAEIECSHG-WIECVGIADRSTYDLHAHTKFSETREVEKLVIAPVKKE 79 (213)
Q Consensus 2 ~Fl~-~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~G-W~E~~GiAdR~~yDL~~H~~~~~p~~~~~~~~~~~~~~ 79 (213)
.|+. .+||+-... ...+.|+..+|..|||+|..++.| ++||. ++++|.++ +++.
T Consensus 179 ~i~~~~lglp~~~~---~~~~~ek~~ga~~~~~~e~~~~dgr~~q~~-----t~~~Lg~~--~sk~-------------- 234 (472)
T TIGR00408 179 EFIENSLAIPYFVG---RKPEWEKFAGAEYTWAFETIMPDGRTLQIA-----TSHNLGQN--FAKT-------------- 234 (472)
T ss_pred HHHHhccCCeEEEE---ecCchhhcCCccceEEEeEEEcCCCEEEEe-----eeeccccc--ccHh--------------
Confidence 4666 899974333 334457777999999999999888 55665 56667665 5541
Q ss_pred hhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeeccCCc-hHHHHHHHHhhhcccCCCCCCcceeEEecCCCC
Q 044953 80 LGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPSFGI-GRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLV 158 (213)
Q Consensus 80 ~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPSfGl-dRilyalLe~sf~~r~~~~~~~~R~vL~l~p~l 158 (213)
-++.+.++ .++..+||. .|+|+ +|+|.++|++ +.. + +. |.+||.+
T Consensus 235 -----------------f~i~y~~~-----~g~~~~~h~--~s~Gi~eRli~~lie~-~~d------~--~g-l~~P~~i 280 (472)
T TIGR00408 235 -----------------FEIKFETP-----TGDKEYAYQ--TSYGISTRVIGALIAI-HSD------E--KG-LVLPPRV 280 (472)
T ss_pred -----------------cCCEEECC-----CCCEEeeEE--ccccHHHHHHHHHHHH-hCC------C--Cc-eeeChhh
Confidence 12222222 356678886 99999 8999999986 331 1 22 8999999
Q ss_pred CCceEEEee
Q 044953 159 APIKCTVFP 167 (213)
Q Consensus 159 APiKvaVlP 167 (213)
||++|+|+|
T Consensus 281 aP~qV~Iip 289 (472)
T TIGR00408 281 APIQVVIIP 289 (472)
T ss_pred CcceEEEEE
Confidence 999999999
No 11
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=98.96 E-value=3.5e-09 Score=100.91 Aligned_cols=110 Identities=22% Similarity=0.306 Sum_probs=79.9
Q ss_pred hhH-HHhCCCCCCceeeccCCccccccccceeeEEEecCCceEEEEeeecCcchhhccCcccCCceEEEEEEEecchhhh
Q 044953 2 LFL-ACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSHGWIECVGIADRSTYDLHAHTKFSETREVEKLVIAPVKKEL 80 (213)
Q Consensus 2 ~Fl-~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~GW~E~~GiAdR~~yDL~~H~~~~~p~~~~~~~~~~~~~~~ 80 (213)
.|+ ..+||+ .+.-.....|+.++|..|||+|..++-||..-+| ++++|.++ +++.
T Consensus 184 ~i~~~~Lglp---~~~~~~~~~ekf~ga~~~~~ie~~~~dgr~~q~g----t~~~Lg~~--~s~~--------------- 239 (477)
T PRK08661 184 EFFEDYLAIP---VIIGKKTEWEKFAGADYTYTIEAMMPDGKALQAG----TSHYLGQN--FAKA--------------- 239 (477)
T ss_pred HHHHHhcCCe---EEEEecChHHhhCCCcceeEEEEEeCCCCEEEEE----Eecccccc--hhHh---------------
Confidence 456 789998 4555555668999999999999999999888777 55677765 5441
Q ss_pred hhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeeccCCc-hHHHHHHHHhhhcccCCCCCCcceeEEecCCCCC
Q 044953 81 GLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPSFGI-GRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVA 159 (213)
Q Consensus 81 g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPSfGl-dRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lA 159 (213)
-++.+.++ .++ .++|...|+|+ +|+|.|++++--. + +. |.+||.+|
T Consensus 240 ----------------f~i~y~d~-----~g~--~~~v~~~s~G~~~R~i~alie~~~D-------~--~G-l~lP~~iA 286 (477)
T PRK08661 240 ----------------FDIKFQDK-----DGK--LEYVHQTSWGVSTRLIGALIMTHGD-------D--KG-LVLPPKIA 286 (477)
T ss_pred ----------------cCCEEECC-----CCC--EeeeEEecccHHHHHHHHHHHHhCc-------c--CC-CccCcccC
Confidence 12222222 122 34678889999 7999999987221 1 22 78999999
Q ss_pred CceEEEeee
Q 044953 160 PIKCTVFPL 168 (213)
Q Consensus 160 PiKvaVlPL 168 (213)
|++|.|+|+
T Consensus 287 P~qV~Iipi 295 (477)
T PRK08661 287 PIQVVIVPI 295 (477)
T ss_pred CCeEEEEEe
Confidence 999999997
No 12
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=98.93 E-value=9.3e-10 Score=103.45 Aligned_cols=107 Identities=15% Similarity=0.225 Sum_probs=84.4
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecCC--ceEEEEeeecCcchhhccCcccCCceEEEEEEEecchhh
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSH--GWIECVGIADRSTYDLHAHTKFSETREVEKLVIAPVKKE 79 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~--GW~E~~GiAdR~~yDL~~H~~~~~p~~~~~~~~~~~~~~ 79 (213)
.|+..+||+ .|.-.....+|.++|..++|+|..+|. +|.|+.+|++.+||+..++
T Consensus 309 ~i~~~Lglp---~r~v~~~t~dlg~~a~~~ydiE~w~p~~~~~~ev~s~sn~~d~qsrr~-------------------- 365 (418)
T TIGR00414 309 QILQELELP---YRVVNLCSGDLGFSAAKKYDLEVWMPGQNTYREISSCSNCTDFQARRL-------------------- 365 (418)
T ss_pred HHHHHcCCc---eEEEecCccccccCHhhhhhHHHhCCCcCceEEEEEEcCcchHhHHhC--------------------
Confidence 477899998 566667889999999999999998876 8999999999999998776
Q ss_pred hhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeeccCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCC
Q 044953 80 LGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPSFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVA 159 (213)
Q Consensus 80 ~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPSfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lA 159 (213)
++.+.+.. ....+|+++|.+++.|++|+|+|+||+.++.. ...++|..|+
T Consensus 366 ------------------~i~y~~~~---~~~~~~vh~ln~~~~ai~R~i~Aile~~~~~~---------G~i~iP~~l~ 415 (418)
T TIGR00414 366 ------------------NIRYKDKN---KGKNKYVHTLNGTALAIGRTIVAILENYQTED---------GSVEIPEVLR 415 (418)
T ss_pred ------------------CcEEECCC---CCceEEEEeecCcchHHHHHHHHHHHHccCCC---------CCEeCChhcc
Confidence 11111110 12247899999999999999999999965522 4567899999
Q ss_pred Cc
Q 044953 160 PI 161 (213)
Q Consensus 160 Pi 161 (213)
|+
T Consensus 416 py 417 (418)
T TIGR00414 416 KY 417 (418)
T ss_pred cc
Confidence 96
No 13
>cd02426 Pol_gamma_b_Cterm C-terminal domain of mitochondrial DNA polymerase gamma B subunit, which is required for processivity. Polymerase gamma replicates and repairs mitochondrial DNA. The c-terminal domain of its B subunit is strikingly similar to the anticodon-binding domain of glycyl tRNA synthetase.
Probab=98.37 E-value=6.4e-07 Score=71.82 Aligned_cols=51 Identities=14% Similarity=0.151 Sum_probs=34.8
Q ss_pred HHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeeecCCcccccccHHHHHHHH
Q 044953 130 YCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPLRDSKDQIRVSVDEAASVI 186 (213)
Q Consensus 130 yalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPLRds~~QvR~~i~~l~~~i 186 (213)
+|+|.+|..+. ..+..|.+||.|||+||+|+|+.....+++--.++|.+.+
T Consensus 3 ~~~~~~~iE~~------~d~~Gl~~P~~iAP~qV~Iipi~~~~~~~~~~a~~l~~~L 53 (128)
T cd02426 3 LAELSDGRKKG------RQRQVLKLHPCLAPYKVAIDCGKGDTAELRDLCQGLKNEL 53 (128)
T ss_pred hhhhhhhhhcC------CCCcEEECCCCCCCeEEEEEeccCChHHHHHHHHHHHHHH
Confidence 57777777643 4479999999999999999999433333443344444443
No 14
>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.
Probab=98.30 E-value=9.7e-07 Score=86.22 Aligned_cols=48 Identities=15% Similarity=0.267 Sum_probs=39.1
Q ss_pred ceeeeeeeeeccCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee
Q 044953 111 QRVFIPLVIEPSFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL 168 (213)
Q Consensus 111 ~e~~iPhVIEPSfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL 168 (213)
+++-.+++.....||+|+|.|++|+++..+ . |.+|+.|||++|+|+|+
T Consensus 434 g~~~~~~mgcyGIGvsRli~aiie~~~D~~---------G-l~wP~~iAP~qV~Iip~ 481 (568)
T TIGR00409 434 GKNQFMTMGCYGIGVSRLVSAIAEQHHDER---------G-IIWPKAIAPYDVVIVVM 481 (568)
T ss_pred CCEEEEEEeCCcchHHHHHHHHHHHhCccC---------C-CcCChhhCCeEEEEEEc
Confidence 444466666666677899999999998743 2 79999999999999998
No 15
>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=98.22 E-value=2.4e-06 Score=72.21 Aligned_cols=85 Identities=12% Similarity=-0.069 Sum_probs=64.5
Q ss_pred hhHHHhCCCCCCceeeccCCcc--------ccccccceeeEEEecCC--ceEEEEeeecCcchhhccCcccCCceEEEEE
Q 044953 2 LFLACLGIDKERLRFRQHLANE--------MAHYAANCWDAEIECSH--GWIECVGIADRSTYDLHAHTKFSETREVEKL 71 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~E--------mAHYA~dcwD~E~~~~~--GW~E~~GiAdR~~yDL~~H~~~~~p~~~~~~ 71 (213)
.+|.++|++ ++..--...+ .|+|+..++|+|+.++. +|.|+.+++.+.++|...|.....
T Consensus 141 ~~l~~lgl~---~~i~~~~~~~~~~~~~~~~~~~~~~~~d~e~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~~------- 210 (235)
T cd00670 141 EIARELGLP---VRVVVADDPFFGRGGKRGLDAGRETVVEFELLLPLPGRAKETAVGSANVHLDHFGASFKID------- 210 (235)
T ss_pred HHHHHcCCc---EEEEEccChhhccCCccccccccCCceEEEEEecCCCCceeeeEEEeecchhhhhccEEEc-------
Confidence 467788873 3333333334 45999999999999988 799999999999999888733211
Q ss_pred EEecchhhhhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeeccCCchHHHHHHH
Q 044953 72 VIAPVKKELGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPSFGIGRIIYCLY 133 (213)
Q Consensus 72 ~~~~~~~~~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPSfGldRilyalL 133 (213)
..+....||+|.+++|++|+++|+|
T Consensus 211 -------------------------------------~~~~~~~~~~~~~~~~~eR~l~all 235 (235)
T cd00670 211 -------------------------------------EDGGGRAHTGCGGAGGEERLVLALL 235 (235)
T ss_pred -------------------------------------cCCCceeeEEEeCccHHHHHHHHHC
Confidence 1234568999999999999999986
No 16
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=98.20 E-value=1.5e-06 Score=82.13 Aligned_cols=106 Identities=13% Similarity=0.257 Sum_probs=83.6
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecC--CceEEEEeeecCcchhhccC-cccCCceEEEEEEEecchh
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECS--HGWIECVGIADRSTYDLHAH-TKFSETREVEKLVIAPVKK 78 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~--~GW~E~~GiAdR~~yDL~~H-~~~~~p~~~~~~~~~~~~~ 78 (213)
.|+.++|++ .|.-.....+|...|+.++|+|..+| -+|.|++.|++.+||.-.++ .+|..
T Consensus 307 ~i~~~Lglp---yr~v~~~s~dlg~~a~~~~DiE~w~p~~~~~~ev~s~snc~d~qsrr~~i~~~~-------------- 369 (425)
T PRK05431 307 EILQKLELP---YRVVLLCTGDLGFSAAKTYDLEVWLPSQNTYREISSCSNCTDFQARRANIRYRD-------------- 369 (425)
T ss_pred HHHHHcCCc---EEEEEcCCcccCCchHheecHHHhCcccCCeeEEEEecCccchhhhhcCcEEec--------------
Confidence 467899998 67777889999999999999998887 47999999999999966555 11111
Q ss_pred hhhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeecc-CCchHHHHHHHHhhhcccCCCCCCcceeEEecCCC
Q 044953 79 ELGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPS-FGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPL 157 (213)
Q Consensus 79 ~~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPS-fGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~ 157 (213)
+..++...+|.+-.| .+++|+|.|+||+ |+.. ..-+.+|+.
T Consensus 370 -----------------------------~~~~~~~~~htln~t~~a~~R~l~ailE~-~q~~--------~g~i~iP~~ 411 (425)
T PRK05431 370 -----------------------------EGDGKPELVHTLNGSGLAVGRTLVAILEN-YQQA--------DGSVTIPEV 411 (425)
T ss_pred -----------------------------CCCCceeEEEEeCCchhhHHHHHHHHHHH-CCCC--------CCcEECChh
Confidence 013456679999988 8999999999998 5532 245899999
Q ss_pred CCCce
Q 044953 158 VAPIK 162 (213)
Q Consensus 158 lAPiK 162 (213)
|||+.
T Consensus 412 l~py~ 416 (425)
T PRK05431 412 LRPYM 416 (425)
T ss_pred hhccc
Confidence 99985
No 17
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=98.17 E-value=9.7e-06 Score=79.65 Aligned_cols=45 Identities=29% Similarity=0.484 Sum_probs=37.1
Q ss_pred cceeeeeeeeeccC--CchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee
Q 044953 110 HQRVFIPLVIEPSF--GIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL 168 (213)
Q Consensus 110 ~~e~~iPhVIEPSf--GldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL 168 (213)
.+++-+|.||++|+ |++|++.+++++. . ..+|+.+||++|.|+|+
T Consensus 503 ~g~~~~P~i~~~~~~g~ieRli~~L~e~~-~-------------~~~p~~~ap~qV~Ii~~ 549 (639)
T PRK12444 503 KNEKRRPVVIHRAVLGSLDRFLAILIEHF-G-------------GAFPAWLAPVQVKVIPV 549 (639)
T ss_pred CCCccccEEEEECCCCCHHHHHHHHHHhc-C-------------CCCCCccCCceEEEEEc
Confidence 45667999999995 7999999998862 1 15788899999999997
No 18
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=98.14 E-value=1.3e-05 Score=77.21 Aligned_cols=44 Identities=30% Similarity=0.463 Sum_probs=35.3
Q ss_pred ceeeeeeeeeccC--CchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee
Q 044953 111 QRVFIPLVIEPSF--GIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL 168 (213)
Q Consensus 111 ~e~~iPhVIEPSf--GldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL 168 (213)
+.+-+|+||+..| |++|++++++++.- ..+|+.+||++|.|.|+
T Consensus 433 g~~~~p~ii~~Gfa~gieRli~~l~e~~~--------------~~~p~~~~p~~v~vi~~ 478 (563)
T TIGR00418 433 NEEKRPVMIHRAILGSIERFIAILLEKYA--------------GNFPLWLAPVQVVVIPV 478 (563)
T ss_pred CCEEeeEEEEeeccCcHHHHHHHHHHhcc--------------CCCCCcCCCceEEEEEc
Confidence 4456999999988 99999998887521 12677889999999998
No 19
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=98.12 E-value=4e-06 Score=65.60 Aligned_cols=35 Identities=57% Similarity=0.907 Sum_probs=32.4
Q ss_pred HHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeeec
Q 044953 132 LYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPLR 169 (213)
Q Consensus 132 lLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPLR 169 (213)
+|+|||..| ++|+.|-||++|+.|||++|.|+|+-
T Consensus 1 ~~~~~~~~~---~~~~~~~~~~~P~~lap~~v~Ii~~~ 35 (121)
T cd00858 1 LLEHSFRVR---EGDEGRIVLRLPPALAPIKVAVLPLV 35 (121)
T ss_pred Cchheeecc---cCCCccEEEEcCCCcCCcEEEEEecC
Confidence 589999999 78888999999999999999999975
No 20
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=98.09 E-value=3.4e-06 Score=79.30 Aligned_cols=35 Identities=20% Similarity=0.514 Sum_probs=32.4
Q ss_pred CchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee
Q 044953 124 GIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL 168 (213)
Q Consensus 124 GldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL 168 (213)
-+||++|++|+|||.+ .|++|||.|||++|+|+|+
T Consensus 248 ~~~r~~~~~L~~a~~e----------~~~~LPpwLAP~qV~IIpl 282 (387)
T PRK14938 248 DVGLLVYYFLLESIRK----------QPPTLPDWLNPIQVRILPV 282 (387)
T ss_pred EecHHHHHHHHHhhhH----------HhCcCCCccCcceEEEEEe
Confidence 5899999999999983 2999999999999999999
No 21
>PLN02837 threonine-tRNA ligase
Probab=98.09 E-value=9.4e-06 Score=79.84 Aligned_cols=128 Identities=17% Similarity=0.291 Sum_probs=78.7
Q ss_pred hhHHHhCCCCCCceeeccCCccc---ccccccee---------eEEEecCCceEEEEeeecCcchhhccCcccCCceEEE
Q 044953 2 LFLACLGIDKERLRFRQHLANEM---AHYAANCW---------DAEIECSHGWIECVGIADRSTYDLHAHTKFSETREVE 69 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~Em---AHYA~dcw---------D~E~~~~~GW~E~~GiAdR~~yDL~~H~~~~~p~~~~ 69 (213)
.++..+|++.-.+++..+..+.+ ++|.+..- ..+|....|+....| ...|+..|.........-
T Consensus 383 ~~~~~lg~~~~~~~~~t~~~~~~g~~~~w~~~~~~l~~~l~~~~~~~~~~~g~~afyg----pkid~~~~d~~gr~~q~~ 458 (614)
T PLN02837 383 EILKQFGFSKYEINLSTRPEKSVGSDDIWEKATTALRDALDDKGWEYKVDEGGGAFYG----PKIDLKIEDALGRKWQCS 458 (614)
T ss_pred HHHHHcCCCeEEEEecCCchhccCCHHHHHHHHHHHHHHHHHcCCCceeCCCcccccC----cceeeEeeccCCceeeec
Confidence 46788999988888887743222 35543332 235555667766666 566666664443333322
Q ss_pred EEEEecchhhhhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeeccC--CchHHHHHHHHhhhcccCCCCCCc
Q 044953 70 KLVIAPVKKELGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPSF--GIGRIIYCLYEHSFYTRPSKAGDE 147 (213)
Q Consensus 70 ~~~~~~~~~~~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPSf--GldRilyalLe~sf~~r~~~~~~~ 147 (213)
.+.+..|. ++. -++.+.++ .+++..|.+|.++. |++|+|.+++++ |. ++
T Consensus 459 tiqldf~~---~~~-------------f~l~y~~~-----d~~~~~pv~ih~~~~G~~eRlia~Lie~-~~------g~- 509 (614)
T PLN02837 459 TIQVDFNL---PER-------------FDITYVDS-----NSEKKRPIMIHRAILGSLERFFGVLIEH-YA------GD- 509 (614)
T ss_pred ceeEeecc---hhh-------------cCcEEECC-----CCCccCCEEEEcCCccCHHHHHHHHHHH-cC------CC-
Confidence 33333322 121 23333332 34666899999999 999987666663 33 11
Q ss_pred ceeEEecCCCCCCceEEEeee
Q 044953 148 QLNVFRFPPLVAPIKCTVFPL 168 (213)
Q Consensus 148 ~R~vL~l~p~lAPiKvaVlPL 168 (213)
||+.+||++|.|+|+
T Consensus 510 ------~P~~laP~qV~IIpi 524 (614)
T PLN02837 510 ------FPLWLAPVQARVLPV 524 (614)
T ss_pred ------CCCCCCCccEEEEEe
Confidence 899999999999999
No 22
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=97.79 E-value=4.9e-05 Score=74.23 Aligned_cols=70 Identities=17% Similarity=0.367 Sum_probs=58.0
Q ss_pred cceeeeeeeeeccC--CchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee-------------------
Q 044953 110 HQRVFIPLVIEPSF--GIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL------------------- 168 (213)
Q Consensus 110 ~~e~~iPhVIEPSf--GldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL------------------- 168 (213)
.+.+..|.+|+.++ |++|++.++++| |. + .+|+.+||++|.|+|+
T Consensus 400 ~~~~~~pv~ihr~~~GgiERli~iL~e~-~~-------G------~~P~wlaP~qV~Iipi~e~~~~~A~~Ia~~LR~~G 465 (545)
T PRK14799 400 DGIKKRPVMVHRAIYGSIDRFVAILLEH-FK-------G------KLPTWLSSVQVRVLPITDEVNEYAEKVLNDMRKRR 465 (545)
T ss_pred CCCCcccEEEEccCCCCHHHHHHHHHHH-cC-------C------CCCCCCCCceEEEEEcCHHHHHHHHHHHHHHHhCC
Confidence 45566899999755 999999888887 31 1 4788899999999999
Q ss_pred --------------------------------------------cCCcccccccHHHHHHHHHHhhcCC
Q 044953 169 --------------------------------------------RDSKDQIRVSVDEAASVIKAVTDGQ 193 (213)
Q Consensus 169 --------------------------------------------Rds~~QvR~~i~~l~~~i~~l~~~~ 193 (213)
|+|.+|..++++++.+.|.+.+...
T Consensus 466 irVelD~~~~~lgkkir~A~k~gip~viIIG~~E~e~~~VtVR~r~~~eq~~v~l~eli~~l~~~i~~~ 534 (545)
T PRK14799 466 IRAEIDYAGETLSKRIKNAYDQGVPYILIVGKKEASEGTVTVRARGNIEVRNVKFEKFLELLITEIAQR 534 (545)
T ss_pred CEEEEECCCCCHHHHHHHHHHcCCCEEEEEChhHhhcCeEEEEECCCCceEEEcHHHHHHHHHHHHhhc
Confidence 8999999999999999998887754
No 23
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=97.56 E-value=0.00038 Score=67.43 Aligned_cols=70 Identities=27% Similarity=0.467 Sum_probs=56.9
Q ss_pred cceeeeeeeeeccC--CchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee-------------------
Q 044953 110 HQRVFIPLVIEPSF--GIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL------------------- 168 (213)
Q Consensus 110 ~~e~~iPhVIEPSf--GldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL------------------- 168 (213)
.+.+-.|.+|..++ |++|++.+++++ |. + ++|+.+||++|.|+|+
T Consensus 438 ~~~~~~p~~ih~~~~G~~eRl~~~l~e~-~~-------~------~~p~~~~p~~v~Ii~~~~~~~~~a~~i~~~Lr~~g 503 (575)
T PRK12305 438 DGKRQRPVMIHRALFGSIERFIGILTEH-YA-------G------AFPFWLAPVQVVIIPVADAHNEYAEEVAKKLRAAG 503 (575)
T ss_pred CCCccCceEEEccccccHHHHHHHHHHH-hC-------C------CCCCCCCCccEEEEEeChHHHHHHHHHHHHHHHCC
Confidence 34556899999985 699988777664 32 1 5788899999999999
Q ss_pred --------------------------------------------cCCcccccccHHHHHHHHHHhhcCC
Q 044953 169 --------------------------------------------RDSKDQIRVSVDEAASVIKAVTDGQ 193 (213)
Q Consensus 169 --------------------------------------------Rds~~QvR~~i~~l~~~i~~l~~~~ 193 (213)
|+|.+|..++++++.+.|++++++.
T Consensus 504 i~v~~d~~~~~l~kk~~~A~~~g~p~~iivG~~E~~~~~v~vr~~~~~~q~~v~~~~l~~~l~~~~~~~ 572 (575)
T PRK12305 504 IRVEVDTSNERLNKKIRNAQKQKIPYMLVVGDKEVEAGTVSVRTRDGEQLNGMPLDEFIELIKEKIAER 572 (575)
T ss_pred CEEEEECCCCCHHHHHHHHHhcCCCEEEEEechhhhCCEEEEEEcCCCceeeeeHHHHHHHHHHHHhcc
Confidence 7899999999999999998887754
No 24
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=97.38 E-value=0.00036 Score=67.95 Aligned_cols=46 Identities=17% Similarity=0.443 Sum_probs=35.0
Q ss_pred ceeeeeeeeeccCCc--hHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee
Q 044953 111 QRVFIPLVIEPSFGI--GRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL 168 (213)
Q Consensus 111 ~e~~iPhVIEPSfGl--dRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL 168 (213)
+++-.|+. -|||| +|++.|++++..... . |.+|+.+||++|+|.|+
T Consensus 429 g~~~~~~m--~~~gIGv~Rli~al~e~~~d~~---------g-l~~P~~iaP~~v~Iv~~ 476 (565)
T PRK09194 429 GKAQPLIM--GCYGIGVSRLVAAAIEQNHDEK---------G-IIWPKAIAPFDVHIVPV 476 (565)
T ss_pred CCEEeEEE--eeEechHHHHHHHHHHhhcccc---------C-ccCCCccCCceEEEEEC
Confidence 44444444 56555 599999999877532 2 78899999999999998
No 25
>PLN02908 threonyl-tRNA synthetase
Probab=96.92 E-value=0.004 Score=62.27 Aligned_cols=66 Identities=20% Similarity=0.240 Sum_probs=51.8
Q ss_pred eeeeeeeeeccCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee-----------------------
Q 044953 112 RVFIPLVIEPSFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL----------------------- 168 (213)
Q Consensus 112 e~~iPhVIEPSfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL----------------------- 168 (213)
+.+++|.- +..|++|++.++++|. . + ++|+.+||.+|.|+|+
T Consensus 556 ~pv~ihra-i~GsiERli~iL~e~~-~-------g------~~p~wlsp~qv~Vipv~~~~~~~A~~va~~LR~~Gi~ve 620 (686)
T PLN02908 556 RPVMIHRA-ILGSVERMFAILLEHY-A-------G------KWPFWLSPRQAIVVPISEKSQDYAEEVRAQLHAAGFYVD 620 (686)
T ss_pred CCEEEEeC-ceEhHHHHHHHHHHHc-C-------C------CCCCCCCCceEEEEEECHHHHHHHHHHHHHHHHCCCEEE
Confidence 34556554 6679999998888863 1 1 4677899999999999
Q ss_pred ----------------------------------------cCCcccccccHHHHHHHHHHhhcC
Q 044953 169 ----------------------------------------RDSKDQIRVSVDEAASVIKAVTDG 192 (213)
Q Consensus 169 ----------------------------------------Rds~~QvR~~i~~l~~~i~~l~~~ 192 (213)
||+.+|..++++++.+.++++.+.
T Consensus 621 vd~~~~~l~kkir~A~~~g~~~viivG~~E~~~~~V~vr~~~~~~q~~i~l~el~~~l~~~~~~ 684 (686)
T PLN02908 621 VDVTDRKIQKKVREAQLAQYNYILVVGEAEAATGTVNVRTRDNVVHGEKKIEELLTEFKEERAE 684 (686)
T ss_pred EECCCCCHHHHHHHHHHcCCCEEEEECchHHhCCEEEEEECCCCceeeeeHHHHHHHHHHHHhh
Confidence 788899999999998888877653
No 26
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=96.88 E-value=0.0019 Score=63.25 Aligned_cols=70 Identities=27% Similarity=0.463 Sum_probs=57.3
Q ss_pred ceeeeeeeeeccC--CchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee--------------------
Q 044953 111 QRVFIPLVIEPSF--GIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL-------------------- 168 (213)
Q Consensus 111 ~e~~iPhVIEPSf--GldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL-------------------- 168 (213)
++...|.||..++ |++|++.+++++ |. + .+|+.+||++|.|.|+
T Consensus 502 ~~~~~p~~i~~~~~g~~eRli~~l~e~-~~-------~------~~p~~~~p~~v~Ii~~~~~~~~~a~~i~~~Lr~~gi 567 (638)
T PRK00413 502 GEKHRPVMIHRAILGSMERFIGILIEH-YA-------G------AFPTWLAPVQVVVLPITDKHADYAKEVAKKLKAAGI 567 (638)
T ss_pred CCccCcEEEEecceehHHHHHHHHHHH-cC-------C------CCCcccCcceEEEEEeChhHHHHHHHHHHHHHhCCC
Confidence 4556899999887 789998777664 32 1 3688899999999999
Q ss_pred -------------------------------------------cCCcccccccHHHHHHHHHHhhcCCc
Q 044953 169 -------------------------------------------RDSKDQIRVSVDEAASVIKAVTDGQT 194 (213)
Q Consensus 169 -------------------------------------------Rds~~QvR~~i~~l~~~i~~l~~~~~ 194 (213)
|+|.+|..++++++.+.|++++++..
T Consensus 568 ~v~~d~~~~~l~kki~~A~~~g~~~~iiiG~~E~~~~~v~vr~~~~~~q~~i~~~~l~~~i~~~~~~~~ 636 (638)
T PRK00413 568 RVEVDLRNEKIGYKIREAQLQKVPYMLVVGDKEVEAGTVSVRRRGGKDLGTMSLDEFIERLLEEIASRS 636 (638)
T ss_pred EEEEECCCCCHhHHHHHhhccCCCEEEEEcchhhhcCeEEEEECCCCccceeeHHHHHHHHHHHHhhcc
Confidence 78999999999999999999887643
No 27
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=96.57 E-value=0.0054 Score=58.13 Aligned_cols=65 Identities=17% Similarity=0.358 Sum_probs=42.0
Q ss_pred ceeeeeeeeeccCC--chHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeeecCCcccccccHHHHHHHHH
Q 044953 111 QRVFIPLVIEPSFG--IGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPLRDSKDQIRVSVDEAASVIK 187 (213)
Q Consensus 111 ~e~~iPhVIEPSfG--ldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPLRds~~QvR~~i~~l~~~i~ 187 (213)
+++...|. -+|| ++|++.+++++....+ . +.+|+.+||++|.|+|+.++.++......+|.+.++
T Consensus 306 g~~~~i~~--~~~GiGieRli~~l~e~~~d~~---------g-~~~P~~iaP~qV~Iipi~~~~~~~~~~a~~i~~~L~ 372 (439)
T PRK12325 306 GKEVPVHM--GSYGIGVSRLVAAIIEASHDDK---------G-IIWPESVAPFKVGIINLKQGDEACDAACEKLYAALS 372 (439)
T ss_pred CCEEeEEE--eeeECCHHHHHHHHHHHhCccC---------C-CcCCCCcCCeEEEEEecCCCCHHHHHHHHHHHHHHH
Confidence 44444444 5555 5699999999865422 2 458999999999999995433443334444444443
No 28
>cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs.
Probab=96.09 E-value=0.0056 Score=52.38 Aligned_cols=17 Identities=41% Similarity=0.931 Sum_probs=15.9
Q ss_pred EecCCCCCCceEEEeee
Q 044953 152 FRFPPLVAPIKCTVFPL 168 (213)
Q Consensus 152 L~l~p~lAPiKvaVlPL 168 (213)
|.|||.+||++|.|.|+
T Consensus 2 LvlP~~iAP~qVvIipi 18 (202)
T cd00862 2 LVLPPRVAPIQVVIVPI 18 (202)
T ss_pred CcCChhhcCceEEEEEe
Confidence 67999999999999997
No 29
>PLN02678 seryl-tRNA synthetase
Probab=96.05 E-value=0.015 Score=55.95 Aligned_cols=106 Identities=20% Similarity=0.357 Sum_probs=76.4
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecC--CceEEEEeeecCcchhhccC-cccCCceEEEEEEEecchh
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECS--HGWIECVGIADRSTYDLHAH-TKFSETREVEKLVIAPVKK 78 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~--~GW~E~~GiAdR~~yDL~~H-~~~~~p~~~~~~~~~~~~~ 78 (213)
.+|..+|++ +|.-.--..+|..-|..|+|+|..+| -+|.|+.-|+|=+||.=.+- .+|..
T Consensus 314 ~i~~~L~lp---yrvv~~~sgdlg~~a~~~yDiE~W~P~~~~y~EvsS~Snc~D~QaRRl~iryr~-------------- 376 (448)
T PLN02678 314 DFYQSLGIP---YQVVSIVSGALNDAAAKKYDLEAWFPASKTYRELVSCSNCTDYQSRRLEIRYGQ-------------- 376 (448)
T ss_pred HHHHHcCCC---eEEEeecccccCCchhhceeeEeeccccCCceEEeeecccccHhhhcccceecc--------------
Confidence 467889999 77777888999999999999999996 48999999999999854332 22221
Q ss_pred hhhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeecc-CCchHHHHHHHHhhhcccCCCCCCcceeEEecCCC
Q 044953 79 ELGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPS-FGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPL 157 (213)
Q Consensus 79 ~~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPS-fGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~ 157 (213)
. ...+++.-.+|-+==| .-++|+|-|+||+ |++. | . ..+|..
T Consensus 377 --------~-------------------~~~~~~~~~vHTLNgt~lA~~R~l~AiLEn-~Q~~-----d---g-i~iP~v 419 (448)
T PLN02678 377 --------K-------------------KSNEQTKQYVHLLNSTLTATERTLCCILEN-YQTE-----D---G-VRVPEV 419 (448)
T ss_pred --------c-------------------ccCCCCceeEEecCCchhHHHHHHHHHHHh-CcCC-----C---C-eECChh
Confidence 0 0002233455666655 7899999999999 6643 1 3 567777
Q ss_pred CCCc
Q 044953 158 VAPI 161 (213)
Q Consensus 158 lAPi 161 (213)
|-|+
T Consensus 420 L~py 423 (448)
T PLN02678 420 LQPF 423 (448)
T ss_pred hhhh
Confidence 7775
No 30
>PLN02320 seryl-tRNA synthetase
Probab=93.18 E-value=0.24 Score=48.55 Aligned_cols=117 Identities=15% Similarity=0.198 Sum_probs=75.2
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecCC--ceEEEEeeecCcchhhccC-cccCCceEEEEEEEecchh
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSH--GWIECVGIADRSTYDLHAH-TKFSETREVEKLVIAPVKK 78 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~--GW~E~~GiAdR~~yDL~~H-~~~~~p~~~~~~~~~~~~~ 78 (213)
.+|..+||+- |--.--..+|.--|..|+|+|..+|- .|.|+.-|+|=+||.=.+- .+|..
T Consensus 370 ~i~~~LgLpy---rvv~l~tgDLg~~a~kkyDiEvW~P~~~~y~EvsS~SNc~DfQaRRl~iryr~-------------- 432 (502)
T PLN02320 370 DLFTSLGLHF---KTLDMATADLGAPAYRKFDIEAWMPGLGRYGEISSASNCTDYQSRRLGIRYRP-------------- 432 (502)
T ss_pred HHHHHcCCCe---EEEEecCCccchhhhheEEEEEEecCCCcEEEEeeecchhhHhhhcccceecc--------------
Confidence 4688999964 55556778999999999999999974 7999999999999965443 22211
Q ss_pred hhhhhhcccHHHHHHHHHhcccccccccccccceeeeeeeeecc-CCchHHHHHHHHhhhcccCCCCCCcceeEEecCCC
Q 044953 79 ELGLAFKGSQKNVVEALEKNMLLISKEKKKEHQRVFIPLVIEPS-FGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPL 157 (213)
Q Consensus 79 ~~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~~~e~~iPhVIEPS-fGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~ 157 (213)
.. +.-...+. .+...+..-.+|-+==| .-++|+|-|+||+ |++. | .-..+|..
T Consensus 433 --------~~--------~~~~~~~~-~k~~~~~~~~vHTLNgTalAv~R~l~AILEN-yQ~~----d----Gsi~IP~v 486 (502)
T PLN02320 433 --------SE--------PPQTNPKK-GKGSLGPTKFVHTLNATACAVPRMIVCLLEN-YQQE----D----GSVVIPEP 486 (502)
T ss_pred --------cc--------cccccccc-ccccCCCcceeEecccchhHHHHHHHHHHHh-CcCC----C----CcEECChh
Confidence 00 00000000 00001123456776655 5899999999999 7754 1 22556666
Q ss_pred CCCc
Q 044953 158 VAPI 161 (213)
Q Consensus 158 lAPi 161 (213)
|-|+
T Consensus 487 Lrpy 490 (502)
T PLN02320 487 LRPF 490 (502)
T ss_pred hhhh
Confidence 6654
No 31
>KOG4163 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=90.56 E-value=0.28 Score=47.67 Aligned_cols=23 Identities=22% Similarity=0.439 Sum_probs=19.0
Q ss_pred cCCcccccccHHHHHHHHHHhhc
Q 044953 169 RDSKDQIRVSVDEAASVIKAVTD 191 (213)
Q Consensus 169 Rds~~QvR~~i~~l~~~i~~l~~ 191 (213)
||+-...-++.++|...|.+|..
T Consensus 427 Rd~~~K~~v~~~~l~~~v~elLe 449 (551)
T KOG4163|consen 427 RDTGEKKDVSLGDLEKTVKELLE 449 (551)
T ss_pred ccCCcccccCHHHHHHHHHHHHH
Confidence 88888888888888888887765
No 32
>cd00778 ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from archaea, the cytoplasm of eukaryotes and some bacteria.
Probab=89.65 E-value=0.95 Score=39.95 Aligned_cols=50 Identities=14% Similarity=0.005 Sum_probs=38.5
Q ss_pred hhHHHh-CCCCCCceeeccCCccccccccceeeEEEecCCc-eEEEEeeecCcch
Q 044953 2 LFLACL-GIDKERLRFRQHLANEMAHYAANCWDAEIECSHG-WIECVGIADRSTY 54 (213)
Q Consensus 2 ~Fl~~i-Gi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~G-W~E~~GiAdR~~y 54 (213)
.++.++ |++ .|.-.....|+..-|..|||+|...|-| +.||..+.+-++|
T Consensus 173 ~i~~~llgl~---~~~~~~~~~d~~~~a~~~~~ie~~~p~~~~~ev~s~~~l~~~ 224 (261)
T cd00778 173 EFYEDLLAIP---VVKGRKTEWEKFAGADYTYTIEAMMPDGRALQSGTSHNLGQN 224 (261)
T ss_pred HHHHHhCCCe---EEEecCCccccCCCCccceEEEEEeeCCCEEEEEeccccccc
Confidence 356777 998 5666666679999999999999988865 6687777666655
No 33
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=89.40 E-value=0.78 Score=45.84 Aligned_cols=43 Identities=30% Similarity=0.508 Sum_probs=33.6
Q ss_pred eeeeeeee--eccCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeee
Q 044953 112 RVFIPLVI--EPSFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPL 168 (213)
Q Consensus 112 e~~iPhVI--EPSfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPL 168 (213)
++-.|-+| =+..-+.|.+..++|| | .+ .||..+||++|.|+|+
T Consensus 451 ~~~~PvmiHrai~GSiERfi~iLiE~-~-------~G------~~P~WLaPvQv~VipV 495 (589)
T COG0441 451 EKKRPVIIHRAILGSIERFIGILLEH-Y-------AG------ALPTWLAPVQVRVIPV 495 (589)
T ss_pred CccCCEEEEeccchhHHHHHHHHHHh-c-------cC------CCcccCCccEEEEEEe
Confidence 34466666 4566789999999993 1 11 8999999999999999
No 34
>cd00779 ProRS_core_prok Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from prokaryotes and from the mitochondria of eukaryotes.
Probab=88.98 E-value=1.4 Score=38.66 Aligned_cols=50 Identities=12% Similarity=-0.045 Sum_probs=36.2
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecC-CceEEEEeeecCcch
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECS-HGWIECVGIADRSTY 54 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~-~GW~E~~GiAdR~~y 54 (213)
.+|.++||+- +-..--.+.|.-.++.+||+|...| -++.|+..+.+=+||
T Consensus 167 ~il~~Lgl~~---~~~~~~~~~~gg~~s~~~~~e~~~~~~~~~e~~s~~~lg~~ 217 (255)
T cd00779 167 RIFKRLGLPF---VKVEADSGAIGGSLSHEFHVLSPLKITKGIEVGHIFQLGTK 217 (255)
T ss_pred HHHHHcCCcE---EEEEecCCCCCCcccEEEEEEEecCCCCeEEEEeeeecchh
Confidence 4678899942 2222235778777888899998875 568999988887776
No 35
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=82.22 E-value=2.2 Score=39.53 Aligned_cols=15 Identities=27% Similarity=0.448 Sum_probs=11.2
Q ss_pred eccCCchHHHHHHHH
Q 044953 120 EPSFGIGRIIYCLYE 134 (213)
Q Consensus 120 EPSfGldRilyalLe 134 (213)
=-|+|++|++.++.+
T Consensus 299 Gfs~~le~l~~~l~~ 313 (412)
T PRK00037 299 GFAIGVERLLLLLEE 313 (412)
T ss_pred EEEEcHHHHHHHHHh
Confidence 568899998766644
No 36
>KOG2509 consensus Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=80.30 E-value=1.1 Score=43.38 Aligned_cols=94 Identities=17% Similarity=0.284 Sum_probs=68.0
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecCC--ceEEEEeeecCcchhhccC-cccCCceEEEEEEEecchh
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSH--GWIECVGIADRSTYDLHAH-TKFSETREVEKLVIAPVKK 78 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~--GW~E~~GiAdR~~yDL~~H-~~~~~p~~~~~~~~~~~~~ 78 (213)
.|++++||+ .|--.-.+.||-+-|..=+|+|-.||. -|.|++-|+|=+||.=.+= .+|..
T Consensus 323 ef~qsLgip---~rvl~m~S~eLg~aAakKyDiEAWmPgrg~ygEl~ScSNCTDyQSRRL~IRy~~-------------- 385 (455)
T KOG2509|consen 323 EFYQSLGLP---YRVLNMPSGELGAAAAKKYDIEAWMPGRGAYGELVSCSNCTDYQSRRLGIRYGQ-------------- 385 (455)
T ss_pred HHHHHhCCc---eeEecCCchhhCcHHHhhcchhhhcCcccccccccccccchhHHHhhhhhhccc--------------
Confidence 588999998 566777899999999999999999975 4999999999999964332 22221
Q ss_pred hhhhhhcccHHHHHHHHHhcccccccccccc-cceeeeeeeeeccCCchHHHHHHHHhhhccc
Q 044953 79 ELGLAFKGSQKNVVEALEKNMLLISKEKKKE-HQRVFIPLVIEPSFGIGRIIYCLYEHSFYTR 140 (213)
Q Consensus 79 ~~g~~fk~~~~~~~~~l~~~~~~~~~~~~~~-~~e~~iPhVIEPSfGldRilyalLe~sf~~r 140 (213)
. ++. ....|+=.+==.-.-+-|.|-|+||+ |++.
T Consensus 386 --------~-------------------k~~~~~~~yvHtLN~TacA~~R~l~aiLEn-yQ~e 420 (455)
T KOG2509|consen 386 --------K-------------------KTNDGEKKYVHTLNGTACATPRALCAILEN-YQTE 420 (455)
T ss_pred --------c-------------------cccCCccceeeecchhhHhhhHHHHHhHhh-ccCC
Confidence 0 001 22344444444567788999999999 7765
No 37
>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=78.49 E-value=4.7 Score=32.61 Aligned_cols=57 Identities=19% Similarity=0.197 Sum_probs=34.2
Q ss_pred hhHHHhCCCCCCceeeccCCcccc-ccccceeeEEEecCC-ceEEEEeeecCcchhhccC
Q 044953 2 LFLACLGIDKERLRFRQHLANEMA-HYAANCWDAEIECSH-GWIECVGIADRSTYDLHAH 59 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmA-HYA~dcwD~E~~~~~-GW~E~~GiAdR~~yDL~~H 59 (213)
.+|..+|++. .++|....+..+- +++..|+|+++..+- .|.|+..+..+....+..+
T Consensus 127 ~~l~~lg~~~-~~~~~~~~~~~~~~~~~g~~~~i~~~~~~~~~~eig~~g~~~~~~~~~~ 185 (211)
T cd00768 127 ELLRALGIKL-DIVFVEKTPGEFSPGGAGPGFEIEVDHPEGRGLEIGSGGYRQDEQARAA 185 (211)
T ss_pred HHHHHcCCCc-ceEEEecCchhhccccCCceEEEEEEccCCCeEEEeeceeecCchhHhh
Confidence 4678888732 3566522222222 256678999986542 2678888887766555433
No 38
>KOG2324 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=75.41 E-value=2.3 Score=40.82 Aligned_cols=47 Identities=30% Similarity=0.436 Sum_probs=33.8
Q ss_pred cCCchHHHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceE-EEeeecCCccccccc
Q 044953 122 SFGIGRIIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKC-TVFPLRDSKDQIRVS 178 (213)
Q Consensus 122 SfGldRilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKv-aVlPLRds~~QvR~~ 178 (213)
-.||.|++-|.++-.= ++ .=|+.|..|||+|| .|-|=.++++|.-..
T Consensus 300 GIGVtRllaAa~evls-------~~---~~lrwP~~iAPy~vcli~pk~~~~~q~~~e 347 (457)
T KOG2324|consen 300 GIGVTRLLAAAAEVLS-------DD---KGLRWPSLIAPYKVCLIGPKKGSKSQRAQE 347 (457)
T ss_pred eccHHHHHHHHHHHhc-------cc---cccccccccCcceeEEeccCCcchhhhHHH
Confidence 3577899998877311 12 34889999999999 455768899886443
No 39
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=74.68 E-value=7.3 Score=37.70 Aligned_cols=53 Identities=15% Similarity=0.166 Sum_probs=43.1
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecCC--ceEEEEeeecCcchhhc
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSH--GWIECVGIADRSTYDLH 57 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~--GW~E~~GiAdR~~yDL~ 57 (213)
.+|+.|+++. |+-..-..+|-.-|..++|+|...|. -+-|++-|++=+||.=.
T Consensus 310 ~il~~LeLPy---Rvv~lctGDlgf~a~kkYDlEvWlP~q~~yrEisScSnc~DfQaR 364 (429)
T COG0172 310 EVLQELELPY---RVVNLCTGDLGFSAAKKYDLEVWLPGQNKYREISSCSNCTDFQAR 364 (429)
T ss_pred HHHHHhCCCc---eEeeeccCCcCCcccCceeEEEEecCCCCceeeeeeeccccHHHH
Confidence 4678888886 44445556899999999999999997 69999999999998533
No 40
>PRK00960 seryl-tRNA synthetase; Provisional
Probab=51.10 E-value=44 Score=33.11 Aligned_cols=53 Identities=11% Similarity=0.089 Sum_probs=35.1
Q ss_pred hhHHHhCCCCC--------CceeeccCCccccccccceeeEEEecCC-----ceEEEEeeecCcch
Q 044953 2 LFLACLGIDKE--------RLRFRQHLANEMAHYAANCWDAEIECSH-----GWIECVGIADRSTY 54 (213)
Q Consensus 2 ~Fl~~iGi~~~--------~lRfrqh~~~EmAHYA~dcwD~E~~~~~-----GW~E~~GiAdR~~y 54 (213)
.++..+|++-- =++-+.-...+|..=+..++|+|..+|+ .|.||..+.+-+||
T Consensus 389 ~i~~~LgLp~~r~v~~DPFf~~~~k~~~~d~~f~~~~tydiE~wmP~~~~~gk~~ev~S~S~hgd~ 454 (517)
T PRK00960 389 ILAEKLDLEYWREVGDDPFYLEGRGLEDRGIEFPDVPKYEMELWLPYRGDERKWVAVTSANVHGTH 454 (517)
T ss_pred HHHHHcCCCceEEecccccccccCccccccccCccccceeEEEEecCccCCCCEEEEEeeeeccch
Confidence 35677888811 1112222333677777889999999983 49999999876554
No 41
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=50.73 E-value=15 Score=26.27 Aligned_cols=11 Identities=18% Similarity=0.634 Sum_probs=7.0
Q ss_pred CceEEEeeecC
Q 044953 160 PIKCTVFPLRD 170 (213)
Q Consensus 160 PiKvaVlPLRd 170 (213)
|++|+|+|+-+
T Consensus 1 P~qv~i~p~~~ 11 (94)
T cd00861 1 PFDVVIIPMNM 11 (94)
T ss_pred CeEEEEEEcCC
Confidence 66666766644
No 42
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=45.99 E-value=31 Score=32.68 Aligned_cols=28 Identities=11% Similarity=0.099 Sum_probs=20.8
Q ss_pred cCCcccccccHHHHHHHHHHhhcCCccHH
Q 044953 169 RDSKDQIRVSVDEAASVIKAVTDGQTTWE 197 (213)
Q Consensus 169 Rds~~QvR~~i~~l~~~i~~l~~~~~~w~ 197 (213)
+++.+|..++++++.+.+.+|.. .+.|+
T Consensus 397 l~~~~q~~i~~~~~~~~~~~~~~-~~~~~ 424 (430)
T CHL00201 397 LDEQVQENAQYSNFKQEISYLKK-KIAFN 424 (430)
T ss_pred CCCCCcEEEcHHHHHHHHHHHHH-hhhhh
Confidence 45778888999998888888876 34343
No 43
>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=44.79 E-value=26 Score=34.89 Aligned_cols=44 Identities=27% Similarity=0.480 Sum_probs=26.0
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecCC----ceEEEEeee
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSH----GWIECVGIA 49 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~----GW~E~~GiA 49 (213)
.|+..+|+ .++|||...... +-|=..+- +|+.-.. ||+|+.|+-
T Consensus 254 ~LLr~LG~--~~vRFRPsekrs-kyYFPFTE-aEVdV~~~k~~gWiEIgG~G 301 (533)
T TIGR00470 254 GLLAQFGF--TKFRFRPDEKKS-KYYIPETQ-TEVYAYHPKLGEWIEVATFG 301 (533)
T ss_pred HHHHHhCC--ceEEeccCcCCC-CCcCCCce-EEEEEEccCCCceEEEEecc
Confidence 47888987 779999552210 11222221 5555444 899988774
No 44
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=38.08 E-value=54 Score=31.70 Aligned_cols=21 Identities=33% Similarity=0.471 Sum_probs=15.6
Q ss_pred eeeeeeccCCchHHHHHHHHhh
Q 044953 115 IPLVIEPSFGIGRIIYCLYEHS 136 (213)
Q Consensus 115 iPhVIEPSfGldRilyalLe~s 136 (213)
+|.|- =|+|++|++.++....
T Consensus 307 ~pavG-FaiGveRl~~~l~~~~ 327 (429)
T COG0124 307 TPAVG-FAIGVERLILALEEEG 327 (429)
T ss_pred CCcee-EehHHHHHHHHHHHcC
Confidence 55554 3889999999987654
No 45
>cd00772 ProRS_core Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.
Probab=36.62 E-value=1.3e+02 Score=26.60 Aligned_cols=47 Identities=9% Similarity=-0.202 Sum_probs=32.0
Q ss_pred hhHHHhCCCCCCceeeccCCccccccccceeeEEEecCCc-eEEEEeeec
Q 044953 2 LFLACLGIDKERLRFRQHLANEMAHYAANCWDAEIECSHG-WIECVGIAD 50 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~EmAHYA~dcwD~E~~~~~G-W~E~~GiAd 50 (213)
.++.++|.-| .|...-...||---|..++|+|...|.| +.+++-.++
T Consensus 173 ~i~~~l~~lp--~~~~~~~~~d~~~g~~~~~d~e~~~p~~~~~~~~~~~~ 220 (264)
T cd00772 173 EIARDLAAID--FIEGEADEGAKFAGASKSREFEALMEDGKAKQAETGHI 220 (264)
T ss_pred HHHHhcCCcc--EEEEEcCCCccccCCcCCEEEEEECCCCCEeEEEeeee
Confidence 3567788333 5555566678777899999999999966 444444444
No 46
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=35.84 E-value=77 Score=28.95 Aligned_cols=56 Identities=21% Similarity=0.404 Sum_probs=39.4
Q ss_pred eeeec--cCCch-H------HHHHHHHhhhcccCCCCCCcceeEEecCCCCCCceEEEeeecCCccccccc----HHHHH
Q 044953 117 LVIEP--SFGIG-R------IIYCLYEHSFYTRPSKAGDEQLNVFRFPPLVAPIKCTVFPLRDSKDQIRVS----VDEAA 183 (213)
Q Consensus 117 hVIEP--SfGld-R------ilyalLe~sf~~r~~~~~~~~R~vL~l~p~lAPiKvaVlPLRds~~QvR~~----i~~l~ 183 (213)
.|+-- |++.. | +++.+|.+||+.| .||||.+.|.+..++.+| ++.+.
T Consensus 83 fvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~R--------------------dkvavI~F~G~~A~lll~pT~sv~~~~ 142 (261)
T COG1240 83 FVVDASGSMAARRRMAAAKGAALSLLRDAYQRR--------------------DKVAVIAFRGEKAELLLPPTSSVELAE 142 (261)
T ss_pred EEEeCcccchhHHHHHHHHHHHHHHHHHHHHcc--------------------ceEEEEEecCCcceEEeCCcccHHHHH
Confidence 45554 45555 3 4667999999977 258999999999999988 44455
Q ss_pred HHHHHhhcC
Q 044953 184 SVIKAVTDG 192 (213)
Q Consensus 184 ~~i~~l~~~ 192 (213)
+.|..|..|
T Consensus 143 ~~L~~l~~G 151 (261)
T COG1240 143 RALERLPTG 151 (261)
T ss_pred HHHHhCCCC
Confidence 556666554
No 47
>PLN02882 aminoacyl-tRNA ligase
Probab=35.08 E-value=30 Score=37.37 Aligned_cols=27 Identities=22% Similarity=0.176 Sum_probs=25.6
Q ss_pred EEEEecchhhhhhhhcccHHHHHHHHH
Q 044953 70 KLVIAPVKKELGLAFKGSQKNVVEALE 96 (213)
Q Consensus 70 ~~~~~~~~~~~g~~fk~~~~~~~~~l~ 96 (213)
.+.+.||.+.+||+||++.+.+.+++.
T Consensus 900 ~~~~~pn~~~lG~~~~~~~~~v~~~i~ 926 (1159)
T PLN02882 900 SLRAEPNFSVLGKRLGKSMGLVAKEVK 926 (1159)
T ss_pred EEEEeeCchHhchhhhhhHHHHHHHHH
Confidence 678999999999999999999999996
No 48
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=32.30 E-value=72 Score=30.05 Aligned_cols=43 Identities=21% Similarity=0.511 Sum_probs=30.0
Q ss_pred hhHHHhCCCCCCceeeccC-CccccccccceeeEEEecC--CceEEEEeee
Q 044953 2 LFLACLGIDKERLRFRQHL-ANEMAHYAANCWDAEIECS--HGWIECVGIA 49 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~-~~EmAHYA~dcwD~E~~~~--~GW~E~~GiA 49 (213)
.|+.++|-...++|||..- | |-.-.|.+++..+ -||+|+.||-
T Consensus 238 ~f~~~~fg~~~~vRfrpsyFP-----FTEPS~Evdv~~~~~~~WlEi~G~G 283 (335)
T COG0016 238 EFAKKFFGEDVKVRFRPSYFP-----FTEPSAEVDVYCPGCGGWLEILGCG 283 (335)
T ss_pred HHHHHhcCCCcceEeecCCCC-----CCCCeEEEEEEEcCCCCEEEEeccc
Confidence 4778888766699999872 1 2223466666665 5699999983
No 49
>PTZ00427 isoleucine-tRNA ligase, putative; Provisional
Probab=32.03 E-value=37 Score=36.94 Aligned_cols=27 Identities=22% Similarity=0.309 Sum_probs=25.7
Q ss_pred EEEEecchhhhhhhhcccHHHHHHHHH
Q 044953 70 KLVIAPVKKELGLAFKGSQKNVVEALE 96 (213)
Q Consensus 70 ~~~~~~~~~~~g~~fk~~~~~~~~~l~ 96 (213)
.+++.||.+.+|++||++++.+.+++.
T Consensus 1025 ~~~~~pn~~~lG~~~g~~~~~v~~~i~ 1051 (1205)
T PTZ00427 1025 DFSAIPNYKTLGVKLGYNLKKVQNKIK 1051 (1205)
T ss_pred EEEEEechhHhChhhhhhHHHHHHHHH
Confidence 688999999999999999999999997
No 50
>PF14153 Spore_coat_CotO: Spore coat protein CotO
Probab=31.40 E-value=17 Score=31.32 Aligned_cols=35 Identities=23% Similarity=0.598 Sum_probs=28.2
Q ss_pred EEecCCCCCCceEEEeee------------------c--CCcccccccHHHHHHH
Q 044953 151 VFRFPPLVAPIKCTVFPL------------------R--DSKDQIRVSVDEAASV 185 (213)
Q Consensus 151 vL~l~p~lAPiKvaVlPL------------------R--ds~~QvR~~i~~l~~~ 185 (213)
+++||..|+|++|-|.-= + .++..++++++++.++
T Consensus 126 L~~~P~~lp~i~C~i~t~~~~Y~G~I~~~~~~~v~i~~~~~~~~~~i~~~~I~sI 180 (185)
T PF14153_consen 126 LINLPHHLPPIKCEIETKDKSYRGIILSYDEGEVSIMPFNQGEEIEIPIDDITSI 180 (185)
T ss_pred HHhCcccCCCCceEEEeCCceEEEEEEeccCCEEEEeccCCCcceEeehhheeee
Confidence 678999999999988522 3 3489999999998764
No 51
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=31.33 E-value=26 Score=27.83 Aligned_cols=22 Identities=41% Similarity=0.466 Sum_probs=19.0
Q ss_pred hhHHHhCCCCCCceeeccCCcc
Q 044953 2 LFLACLGIDKERLRFRQHLANE 23 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~E 23 (213)
+.|..+||+|++++|.+.-..|
T Consensus 84 ~~L~~~Gi~~eRv~~~~~~~~~ 105 (124)
T PF02662_consen 84 KLLEELGIEPERVRLYWISAPE 105 (124)
T ss_pred HHHHHcCCChhHeEEEEeCccc
Confidence 4688999999999999887665
No 52
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=28.69 E-value=60 Score=22.72 Aligned_cols=17 Identities=35% Similarity=0.323 Sum_probs=9.9
Q ss_pred cCCcccccccHHHHHHH
Q 044953 169 RDSKDQIRVSVDEAASV 185 (213)
Q Consensus 169 Rds~~QvR~~i~~l~~~ 185 (213)
++|.+|..++++++.+.
T Consensus 73 ~~~~~~~~~~~~~~~~~ 89 (91)
T cd00860 73 RDGGDLGSMSLDEFIEK 89 (91)
T ss_pred CCCCccceEcHHHHHHH
Confidence 45566666666665443
No 53
>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A ....
Probab=27.25 E-value=59 Score=23.80 Aligned_cols=21 Identities=19% Similarity=0.460 Sum_probs=18.8
Q ss_pred eeeeeccCCchHHHHHHHHhh
Q 044953 116 PLVIEPSFGIGRIIYCLYEHS 136 (213)
Q Consensus 116 PhVIEPSfGldRilyalLe~s 136 (213)
..|+||..|.|+++++++...
T Consensus 2 ~~vlD~~~G~G~~~~~~~~~~ 22 (117)
T PF13659_consen 2 DRVLDPGCGSGTFLLAALRRG 22 (117)
T ss_dssp EEEEEETSTTCHHHHHHHHHC
T ss_pred CEEEEcCcchHHHHHHHHHHC
Confidence 369999999999999999876
No 54
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=26.71 E-value=27 Score=19.04 Aligned_cols=11 Identities=36% Similarity=0.543 Sum_probs=9.1
Q ss_pred cccccccccee
Q 044953 22 NEMAHYAANCW 32 (213)
Q Consensus 22 ~EmAHYA~dcw 32 (213)
.++-|+|++|+
T Consensus 7 ~~~GH~~~~Cp 17 (18)
T PF00098_consen 7 GEPGHIARDCP 17 (18)
T ss_dssp SCSSSCGCTSS
T ss_pred CCcCcccccCc
Confidence 46789999996
No 55
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=25.60 E-value=33 Score=28.26 Aligned_cols=22 Identities=41% Similarity=0.424 Sum_probs=19.6
Q ss_pred hhHHHhCCCCCCceeeccCCcc
Q 044953 2 LFLACLGIDKERLRFRQHLANE 23 (213)
Q Consensus 2 ~Fl~~iGi~~~~lRfrqh~~~E 23 (213)
+.|..+||.++++|+-++-..|
T Consensus 85 e~l~elgie~eRv~~~wiSa~E 106 (132)
T COG1908 85 ELLKELGIEPERVRVLWISAAE 106 (132)
T ss_pred HHHHHhCCCcceEEEEEEehhh
Confidence 5688999999999999998777
No 56
>PF00639 Rotamase: PPIC-type PPIASE domain; InterPro: IPR000297 Peptidylprolyl isomerase (5.2.1.8 from EC) is an enzyme that accelerates protein folding by catalyzing the cis-trans isomerization of proline imidic peptide bonds in oligopeptides []. It has been reported in bacteria and eukayotes. Synonyms for proteins with this domain are: Peptidylprolyl isomerase, Peptidyl-prolyl cis-trans isomerase, PPIase, rotamase, cyclophilin, FKBP65.; GO: 0016853 isomerase activity; PDB: 2JZV_A 2PV3_B 1M5Y_A 2PV2_B 2PV1_A 1JNS_A 1JNT_A 3KAB_A 2ZR6_A 2XPB_A ....
Probab=25.49 E-value=1.1e+02 Score=22.32 Aligned_cols=38 Identities=11% Similarity=0.336 Sum_probs=26.4
Q ss_pred CcccccccHHHHHHHHHHhhcCCccHHHHhhhCCCeec
Q 044953 171 SKDQIRVSVDEAASVIKAVTDGQTTWEDVWSSYPHHCS 208 (213)
Q Consensus 171 s~~QvR~~i~~l~~~i~~l~~~~~~w~~~~~~~p~~~~ 208 (213)
|.++.--....+-++...|..|..+|+++.++|..-..
T Consensus 9 ~~~~~~~~~~~a~~i~~~l~~g~~~F~~~A~~yS~~~~ 46 (95)
T PF00639_consen 9 SDEEKDAAKKKAEEIYEQLKKGEDSFAELAREYSEDSP 46 (95)
T ss_dssp SCCHHHHHHHHHHHHHHHHHTTSSSHHHHHHHHCSSSC
T ss_pred chhhHHHHHHHHHHHHHHHHhCchhHHHHHHHhCCCcc
Confidence 34444444555666677788899999999999984433
No 57
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=22.71 E-value=63 Score=26.24 Aligned_cols=54 Identities=22% Similarity=0.186 Sum_probs=34.3
Q ss_pred ecCCceEEEEeeecCcchhhccCcccCCceEEEEEEEecchhhhhhhhcccHHHHHHHHH
Q 044953 37 ECSHGWIECVGIADRSTYDLHAHTKFSETREVEKLVIAPVKKELGLAFKGSQKNVVEALE 96 (213)
Q Consensus 37 ~~~~GW~E~~GiAdR~~yDL~~H~~~~~p~~~~~~~~~~~~~~~g~~fk~~~~~~~~~l~ 96 (213)
-|+|||+++.|=-+++ |.-.| .++ .++...-.+.++.-|..-|=+...+-++++
T Consensus 6 ~~~FG~v~i~Gk~f~~--DIvi~--~dG--~v~rr~K~lskrK~GTSHkl~~eEle~~le 59 (121)
T COG1504 6 STSFGSVTIGGKDFEH--DIVIR--PDG--KVERREKELSKRKYGTSHKLALEELEELLE 59 (121)
T ss_pred ccceeeEEECCEeccc--cEEEe--cCC--ceehhhhhhhhhhcCcccccCHHHHHHHHh
Confidence 4699999999987644 44444 443 122333345666777666777777777766
No 58
>PRK07080 hypothetical protein; Validated
Probab=22.55 E-value=48 Score=31.03 Aligned_cols=17 Identities=29% Similarity=0.751 Sum_probs=13.8
Q ss_pred cCCchHHHHHHHHh-hhc
Q 044953 122 SFGIGRIIYCLYEH-SFY 138 (213)
Q Consensus 122 SfGldRilyalLe~-sf~ 138 (213)
-||++|+.||+|.| +|.
T Consensus 285 GFGlER~a~All~~hG~d 302 (317)
T PRK07080 285 GFGLERLALALFRHHGLD 302 (317)
T ss_pred ecCHHHHHHHHHHHhCCC
Confidence 59999999999974 343
No 59
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=22.03 E-value=46 Score=23.89 Aligned_cols=21 Identities=33% Similarity=0.428 Sum_probs=19.0
Q ss_pred cCCcccccccHHHHHHHHHHh
Q 044953 169 RDSKDQIRVSVDEAASVIKAV 189 (213)
Q Consensus 169 Rds~~QvR~~i~~l~~~i~~l 189 (213)
|+|++|.-++++++.+.|+++
T Consensus 74 ~~~~~~~~v~~~el~~~l~~~ 94 (94)
T PF03129_consen 74 RDTGEQETVSLEELIEYLKEN 94 (94)
T ss_dssp TTTTEEEEEECCHHHHHHHHH
T ss_pred CCCCcEEEEEHHHHHHHHhhC
Confidence 799999999999999998864
No 60
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=20.36 E-value=1.1e+02 Score=26.98 Aligned_cols=74 Identities=18% Similarity=0.099 Sum_probs=50.8
Q ss_pred cCCccccccccceeeEEEe-cCCceEEEEe-eecCcchhhccC-------------cccC-CceEEEEEEEecchhhhhh
Q 044953 19 HLANEMAHYAANCWDAEIE-CSHGWIECVG-IADRSTYDLHAH-------------TKFS-ETREVEKLVIAPVKKELGL 82 (213)
Q Consensus 19 h~~~EmAHYA~dcwD~E~~-~~~GW~E~~G-iAdR~~yDL~~H-------------~~~~-~p~~~~~~~~~~~~~~~g~ 82 (213)
|++..|.++|-+=-...+. +..=.+|-+| ++.+.+|||.-| .-.. +|-+.+.=.+.+||.-|-+
T Consensus 77 H~da~m~~~ai~~l~~~~~~~Dll~iEs~GNL~~~~sp~L~d~~~v~VidvteGe~~P~K~gP~i~~aDllVInK~DLa~ 156 (202)
T COG0378 77 HLDASMNLEAIEELVLDFPDLDLLFIESVGNLVCPFSPDLGDHLRVVVIDVTEGEDIPRKGGPGIFKADLLVINKTDLAP 156 (202)
T ss_pred CCcHHHHHHHHHHHhhcCCcCCEEEEecCcceecccCcchhhceEEEEEECCCCCCCcccCCCceeEeeEEEEehHHhHH
Confidence 7777777777543322211 1223589999 999999999998 1222 4666777788899988888
Q ss_pred hhcccHHHHH
Q 044953 83 AFKGSQKNVV 92 (213)
Q Consensus 83 ~fk~~~~~~~ 92 (213)
...-|.+..-
T Consensus 157 ~v~~dlevm~ 166 (202)
T COG0378 157 YVGADLEVMA 166 (202)
T ss_pred HhCccHHHHH
Confidence 7777665443
Done!