Query 021842
Match_columns 307
No_of_seqs 145 out of 1573
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 06:05:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021842.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021842hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02284 glutamine synthetase 100.0 4.9E-77 1.1E-81 568.0 33.3 306 1-307 1-307 (354)
2 PLN03036 glutamine synthetase; 100.0 2.6E-76 5.5E-81 571.7 33.7 306 1-307 61-367 (432)
3 COG0174 GlnA Glutamine synthet 100.0 6.9E-73 1.5E-77 548.7 31.2 283 15-306 12-314 (443)
4 TIGR00653 GlnA glutamine synth 100.0 5.5E-71 1.2E-75 542.2 29.2 291 3-307 2-328 (460)
5 PRK09469 glnA glutamine synthe 100.0 1.4E-69 3E-74 533.1 30.4 291 3-304 5-335 (469)
6 TIGR03105 gln_synth_III glutam 100.0 4.2E-68 9.1E-73 518.9 29.0 284 5-303 2-310 (435)
7 PF00120 Gln-synt_C: Glutamine 100.0 4.5E-55 9.7E-60 401.6 16.2 196 103-303 1-214 (259)
8 KOG0683 Glutamine synthetase [ 100.0 3.4E-46 7.4E-51 345.0 19.1 301 5-307 18-322 (380)
9 COG3968 Uncharacterized protei 99.7 1.8E-17 3.9E-22 157.7 14.0 174 122-300 214-413 (724)
10 PF03951 Gln-synt_N: Glutamine 99.6 3E-14 6.6E-19 109.2 9.8 79 17-97 1-84 (84)
11 TIGR02050 gshA_cyan_rel unchar 98.1 4.1E-05 9E-10 71.6 11.6 127 125-284 1-153 (287)
12 PRK13517 carboxylate-amine lig 97.8 0.00048 1E-08 66.8 13.2 129 123-284 10-164 (373)
13 PRK13516 gamma-glutamyl:cystei 97.7 0.00052 1.1E-08 66.6 13.0 128 123-284 11-165 (373)
14 PLN02611 glutamate--cysteine l 97.6 0.0017 3.7E-08 64.8 14.3 135 120-284 64-243 (482)
15 PRK13518 carboxylate-amine lig 97.4 0.0029 6.2E-08 61.0 12.8 92 187-284 49-166 (357)
16 PRK13515 carboxylate-amine lig 97.2 0.0045 9.7E-08 60.0 12.2 131 123-288 5-161 (371)
17 PF04107 GCS2: Glutamate-cyste 96.9 0.0052 1.1E-07 57.4 9.5 94 186-284 34-156 (288)
18 TIGR02048 gshA_cyano glutamate 96.9 0.0096 2.1E-07 57.8 11.5 91 188-284 31-147 (376)
19 TIGR01436 glu_cys_lig_pln glut 95.4 0.15 3.4E-06 50.6 11.1 91 120-231 18-123 (446)
20 COG2170 Uncharacterized conser 92.2 0.48 1E-05 45.3 7.1 126 124-284 3-156 (369)
21 TIGR03444 gshA_related glutama 90.7 1.1 2.4E-05 43.7 8.1 68 189-257 64-159 (390)
22 PF06877 RraB: Regulator of ri 88.5 3.4 7.3E-05 32.2 8.0 95 106-231 2-98 (104)
23 cd04869 ACT_GcvR_2 ACT domains 88.0 1.4 3E-05 32.4 5.2 65 170-236 11-81 (81)
24 PF13740 ACT_6: ACT domain; PD 84.6 3.2 6.9E-05 30.5 5.7 62 170-234 14-75 (76)
25 COG3572 GshA Gamma-glutamylcys 80.7 1.5 3.3E-05 42.6 3.1 45 189-234 91-136 (456)
26 cd04872 ACT_1ZPV ACT domain pr 78.2 4 8.7E-05 30.7 4.3 67 170-237 13-79 (88)
27 KOG0558 Dihydrolipoamide trans 77.9 2.1 4.5E-05 41.0 3.1 53 169-237 249-302 (474)
28 PRK00194 hypothetical protein; 77.7 4.5 9.7E-05 30.5 4.5 66 170-236 15-80 (90)
29 cd04870 ACT_PSP_1 CT domains f 77.2 6.8 0.00015 28.5 5.2 65 170-236 11-75 (75)
30 TIGR02778 ligD_pol DNA polymer 74.6 26 0.00057 32.1 9.2 56 194-256 113-168 (245)
31 cd04866 LigD_Pol_like_3 LigD_P 69.2 43 0.00093 30.3 9.2 56 194-256 92-147 (223)
32 cd04861 LigD_Pol_like LigD_Pol 68.1 47 0.001 30.1 9.2 56 194-256 97-152 (227)
33 cd04893 ACT_GcvR_1 ACT domains 68.0 18 0.00039 26.5 5.6 64 169-235 12-75 (77)
34 cd04863 MtLigD_Pol_like MtLigD 67.0 51 0.0011 30.0 9.3 56 194-256 101-156 (231)
35 cd04862 PaeLigD_Pol_like PaeLi 66.5 53 0.0011 29.8 9.2 56 194-256 97-152 (227)
36 cd04865 LigD_Pol_like_2 LigD_P 64.3 62 0.0013 29.4 9.2 56 194-256 98-153 (228)
37 PRK11191 RNase E inhibitor pro 59.3 1.1E+02 0.0023 25.7 9.2 93 108-231 12-107 (138)
38 cd04864 LigD_Pol_like_1 LigD_P 59.0 87 0.0019 28.4 9.2 55 194-256 99-153 (228)
39 PF04468 PSP1: PSP1 C-terminal 58.7 14 0.00029 28.3 3.5 59 169-232 25-83 (88)
40 COG3364 Zn-ribbon containing p 57.9 6.5 0.00014 31.0 1.6 24 180-204 55-78 (112)
41 cd04875 ACT_F4HF-DF N-terminal 52.9 35 0.00077 24.4 4.8 60 170-231 11-73 (74)
42 PF03484 B5: tRNA synthetase B 48.8 57 0.0012 23.5 5.3 48 172-230 21-70 (70)
43 cd04882 ACT_Bt0572_2 C-termina 47.9 49 0.0011 22.5 4.8 51 170-231 11-63 (65)
44 smart00874 B5 tRNA synthetase 46.1 49 0.0011 23.6 4.6 48 173-230 22-71 (71)
45 PF14395 COOH-NH2_lig: Phage p 43.8 41 0.00089 31.0 4.6 54 199-254 52-106 (261)
46 PF12224 Amidoligase_2: Putati 43.1 2.2E+02 0.0048 25.3 9.6 82 197-293 77-158 (252)
47 PF01921 tRNA-synt_1f: tRNA sy 39.2 1.7E+02 0.0037 28.4 8.4 144 88-246 24-182 (360)
48 cd02646 R3H_G-patch R3H domain 38.8 36 0.00079 23.7 2.9 30 217-255 28-57 (58)
49 PF09845 DUF2072: Zn-ribbon co 38.3 14 0.00031 30.5 0.8 20 183-203 83-102 (131)
50 COG1384 LysS Lysyl-tRNA synthe 37.6 2.5E+02 0.0054 28.7 9.4 132 89-237 21-170 (521)
51 PRK05972 ligD ATP-dependent DN 37.6 2.1E+02 0.0045 31.2 9.4 76 194-279 683-758 (860)
52 PF11679 DUF3275: Protein of u 37.4 27 0.00058 31.3 2.4 36 89-125 167-205 (214)
53 PRK13011 formyltetrahydrofolat 37.1 74 0.0016 29.7 5.5 66 169-236 18-85 (286)
54 TIGR02776 NHEJ_ligase_prk DNA 37.0 79 0.0017 32.5 6.0 56 194-256 390-445 (552)
55 TIGR01619 hyp_HI0040 conserved 36.2 2.6E+02 0.0056 25.8 8.7 89 111-230 143-239 (249)
56 PRK09633 ligD ATP-dependent DN 35.0 2.3E+02 0.0051 29.5 9.2 56 194-256 431-486 (610)
57 COG3285 Predicted eukaryotic-t 34.3 85 0.0018 29.6 5.2 76 194-279 123-199 (299)
58 cd04908 ACT_Bt0572_1 N-termina 34.3 1.4E+02 0.0031 20.6 5.5 22 170-191 13-34 (66)
59 PRK09632 ATP-dependent DNA lig 33.5 2.7E+02 0.0059 29.9 9.5 55 195-256 135-189 (764)
60 PF14528 LAGLIDADG_3: LAGLIDAD 33.0 83 0.0018 22.6 4.2 36 169-204 31-66 (77)
61 cd04888 ACT_PheB-BS C-terminal 31.0 97 0.0021 21.8 4.2 32 170-201 12-44 (76)
62 PRK06027 purU formyltetrahydro 30.5 1.3E+02 0.0027 28.2 5.9 66 169-236 17-85 (286)
63 cd04889 ACT_PDH-BS-like C-term 29.4 1.3E+02 0.0027 20.0 4.4 42 170-211 10-52 (56)
64 TIGR03884 sel_bind_Methan sele 28.5 1E+02 0.0022 23.0 3.8 29 105-133 26-54 (74)
65 KOG0959 N-arginine dibasic con 27.7 70 0.0015 35.1 4.0 69 222-302 29-104 (974)
66 PF11657 Activator-TraM: Trans 27.1 42 0.00091 28.3 1.8 18 216-233 4-21 (144)
67 cd04871 ACT_PSP_2 ACT domains 26.4 1.3E+02 0.0028 22.4 4.3 62 169-235 11-83 (84)
68 PRK11589 gcvR glycine cleavage 25.4 1.1E+02 0.0024 26.8 4.3 67 169-237 106-178 (190)
69 PF03851 UvdE: UV-endonuclease 25.2 2E+02 0.0042 26.9 6.0 65 170-240 45-111 (275)
70 TIGR00629 uvde UV damage endon 25.0 1.9E+02 0.0041 27.6 6.0 65 170-240 52-118 (312)
71 cd04932 ACT_AKiii-LysC-EC_1 AC 24.9 2.4E+02 0.0052 20.5 5.4 36 170-207 16-51 (75)
72 cd04933 ACT_AK1-AT_1 ACT domai 24.7 2.9E+02 0.0064 20.4 6.4 36 170-207 16-51 (78)
73 cd04916 ACT_AKiii-YclM-BS_2 AC 24.4 1.4E+02 0.003 20.2 3.9 37 170-206 16-52 (66)
74 PRK13895 conjugal transfer pro 24.0 54 0.0012 27.5 1.9 17 217-233 5-21 (144)
75 cd04924 ACT_AK-Arch_2 ACT doma 23.5 2E+02 0.0043 19.3 4.6 37 170-206 16-52 (66)
76 cd04912 ACT_AKiii-LysC-EC-like 22.6 3E+02 0.0064 19.7 5.8 52 170-226 16-67 (75)
77 PF04417 DUF501: Protein of un 22.4 1.5E+02 0.0032 24.7 4.2 40 79-122 4-48 (139)
78 PF07574 SMC_Nse1: Nse1 non-SM 21.7 4.5E+02 0.0099 22.9 7.5 66 169-234 47-120 (200)
79 cd04890 ACT_AK-like_1 ACT doma 21.1 2.7E+02 0.0059 18.7 5.3 33 170-204 15-47 (62)
80 PF09904 HTH_43: Winged helix- 21.1 1E+02 0.0022 23.9 2.7 18 106-123 34-51 (90)
81 PF04677 CwfJ_C_1: Protein sim 20.8 2.6E+02 0.0056 22.6 5.3 55 195-255 52-106 (121)
82 PF01261 AP_endonuc_2: Xylose 20.6 4.2E+02 0.0091 22.0 7.0 66 169-240 70-136 (213)
83 TIGR00467 lysS_arch lysyl-tRNA 20.5 8.2E+02 0.018 25.0 9.9 129 89-236 20-166 (515)
84 KOG3302 TATA-box binding prote 20.2 1.6E+02 0.0035 26.1 4.1 27 99-125 83-109 (200)
85 PF00070 Pyr_redox: Pyridine n 20.0 2.3E+02 0.0049 20.3 4.5 41 94-134 27-67 (80)
No 1
>PLN02284 glutamine synthetase
Probab=100.00 E-value=4.9e-77 Score=567.99 Aligned_cols=306 Identities=90% Similarity=1.473 Sum_probs=273.1
Q ss_pred ChhhHHhhcCCCCCCCCEEEEEEEEEeCCCCcceeEEEEcCCCCCCCCCCCcccccCCccccccCCCCcEEEEeeeeeec
Q 021842 1 MSLLSDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSSTGQAPGEDSEVILYPQAIFKD 80 (307)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~v~~~~~D~~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~g~~~~~~~D~~l~PDt~~~l 80 (307)
|+.++...++++++++..++++|+|+|+.++++|||.+.++.+.+.+++.++|+||||++|+..++++|++++|||++++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~y~wi~~~~~dl~g~~~~~~~~~~~~~~~~~~~fdGssi~~~~~~~sD~~l~PDt~~~~ 80 (354)
T PLN02284 1 MSLLSDLINLNLSDSTDKIIAEYIWIGGSGMDLRSKARTLPGPVTDPSKLPKWNYDGSSTGQAPGEDSEVILYPQAIFKD 80 (354)
T ss_pred CchhhhhHhhcccCcCCeEEEEEEEEEEEecCCCCceEEecccccccccCCceeecCCCCCCccCCCceEEEEccEEEEC
Confidence 56677888889999999999999999999999999999999999888888999999999988777899999999999999
Q ss_pred CCCCCCeEEEEEEEEcCCCCCCCCCHHHHHHHHHHHhhhcCCccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccc
Q 021842 81 PFRRGNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCG 160 (307)
Q Consensus 81 Pw~~~~~a~v~~d~~~~~G~p~~~~PR~~L~~~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (307)
||.++++++|+||++++||+|++.|||++|+|+++++++.|+++++|+|+|||||+.+.....+++.++.+.++++||+.
T Consensus 81 Pw~~~~~~~vlcdv~~~dG~p~~~dPR~vL~r~~~~~~~~g~~~~~G~E~EF~lf~~~~~~~~g~~~~~~~~~~~~y~~~ 160 (354)
T PLN02284 81 PFRGGNNILVMCDAYTPAGEPIPTNKRAKAAKIFSHPDVAAEEPWYGIEQEYTLLQKDVKWPLGWPVGGYPGPQGPYYCG 160 (354)
T ss_pred CCCCCCeEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHhcCCceeEEeceEEEEEecCCcccCCCCCCCcccCCCCcccC
Confidence 99765589999999999999999999999999999999999999999999999998643222333322345567777776
Q ss_pred cCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcC
Q 021842 161 VGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQ 240 (307)
Q Consensus 161 ~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~ 240 (307)
.+.+..+.++++++++++|+++||+|+++|||+|||||||++.|.++|+|||+++++|++||+||++||+.|||||||+.
T Consensus 161 ~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~h~E~apGQ~Ei~l~~~d~l~aAD~~~~~K~vvk~vA~~~Gl~ATFMPKP~~ 240 (354)
T PLN02284 161 VGADKAFGRDIVDAHYKACLYAGINISGINGEVMPGQWEFQVGPVVGISAGDQLWVARYILERITEIAGVVVSFDPKPIP 240 (354)
T ss_pred cchhhHHHHHHHHHHHHHHHHCCCCeEEEEcCcCCCceEEEecCCcHHHHHHHHHHHHHHHHHHHHHhCCEEEEcCCCCC
Confidence 66444456899999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred CCCCCceeeEEEeccCCCCCCCHHHHHHHHHHH-HHHHHHHHhHhCCCCCcCCCCCCCCCCCCCcccC
Q 021842 241 GDWNGAGAHANYSTKSMRNDGGFEVIKKAIEKL-GLRHSEHIAAYGEGNERRLTGKHETADINTFKWV 307 (307)
Q Consensus 241 gd~~GsG~H~H~SL~~g~n~~gls~~~~fiaGl-L~h~~~~~a~~~~nsy~RL~~~~ea~~~~~~~~~ 307 (307)
|+++|||||+|+|||+.+++++.+..+++++|+ |+|+++++++++ ||||||+|++|||....++||
T Consensus 241 ~~~~GSGmH~H~SL~~~~~~gg~~~~~~~l~~~~l~h~~~l~a~~~-NSYkRL~p~~eap~~~~~~wg 307 (354)
T PLN02284 241 GDWNGAGAHTNYSTKSMREDGGYEVIKKAIEKLGLRHKEHIAAYGE-GNERRLTGKHETADINTFSWG 307 (354)
T ss_pred CCCccCcceeecChhhcccCCcHHHHHHHHHHHHHHHHHHhhhhhc-CcHhhcCCCccCcccccceee
Confidence 556999999999999743335667889999999 999999998875 999999999999998888886
No 2
>PLN03036 glutamine synthetase; Provisional
Probab=100.00 E-value=2.6e-76 Score=571.69 Aligned_cols=306 Identities=76% Similarity=1.325 Sum_probs=277.5
Q ss_pred ChhhHHhhcCCCCCCCCEEEEEEEEEeCCCCcceeEEEEcCCCCCCCCCCCcccccCCccccccCCCCcEEEEeeeeeec
Q 021842 1 MSLLSDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSSTGQAPGEDSEVILYPQAIFKD 80 (307)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~v~~~~~D~~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~g~~~~~~~D~~l~PDt~~~l 80 (307)
|+.+++|++++..++++.++++|+|+||.|+++|||++.++.+.+.++++++|+||||++|+.++.++|++++|||++++
T Consensus 61 ~~~~~~~~~~~~~~~~~~~~~~yiw~~g~~~dlrgk~r~~~~~~~~~~~~~~w~fDGSs~g~a~~~~sD~~l~PDTl~~~ 140 (432)
T PLN03036 61 VNRVEDLLNLDTTPYTDRIIAEYIWIGGSGIDLRSKSRTISKPVEHPSELPKWNYDGSSTGQAPGEDSEVILYPQAIFKD 140 (432)
T ss_pred hhhHHHHhhhcccccCCeEEEEEEEeCCCCCCCCCCeEEeCccccccccCCceeeecCccCCCcCCCCCEEEEccEEEEC
Confidence 46688999999999999999999999999999999999999999999999999999999998888899999999999999
Q ss_pred CCCCCCeEEEEEEEEcCCCCCCCCCHHHHHHHHHHHhhhcCCccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccc
Q 021842 81 PFRRGNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCG 160 (307)
Q Consensus 81 Pw~~~~~a~v~~d~~~~~G~p~~~~PR~~L~~~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (307)
||.++++++|+||++++||+|++.|||++|++++++++..|+++++|+|+|||||+.+...+.|++.+..|.++++||++
T Consensus 141 Pw~~~~~a~Vlcd~y~~dG~P~~~dpR~~L~~vl~~~~~~g~~p~~G~E~EF~Lf~~~~~~~~G~~~~~~p~p~g~yy~~ 220 (432)
T PLN03036 141 PFRGGNNILVICDTYTPAGEPIPTNKRHRAAEIFSNKKVVDEVPWFGIEQEYTLLQQNVKWPLGWPVGAYPGPQGPYYCG 220 (432)
T ss_pred CcCCCCeEEEEEEEECCCCCCCCCCHHHHHHHHHHHhcccCCeEEEEeeeEEEEEEcccccccCCCCCCccCCCCCcCCC
Confidence 99765689999999999999999999999999999999999999999999999998653333455444456678888877
Q ss_pred cCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcC
Q 021842 161 VGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQ 240 (307)
Q Consensus 161 ~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~ 240 (307)
.+.+..+.++++++++++|+.+||+|+++|+|+|||||||++.|+++|+|||+++++|++||+||++||++|||||||+.
T Consensus 221 ~~~d~~~~~~i~~~i~~a~~~~GI~Ie~~~~E~gpGQ~Ei~l~~~d~L~aAD~~~l~R~ivk~VA~~~Gl~ATFMPKP~~ 300 (432)
T PLN03036 221 AGADKSFGRDISDAHYKACLYAGINISGTNGEVMPGQWEYQVGPSVGIDAGDHIWCSRYILERITEQAGVVLTLDPKPIE 300 (432)
T ss_pred chhhhhhHHHHHHHHHHHHHHCCCCeEEEEcCcCCCceEEecCCChHHHHHHHHHHHHHHHHHHHHHhCCEEEEcCCcCC
Confidence 66555545899999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCCCCceeeEEEeccCCCCCCCHHHHHHHHHH-HHHHHHHHHhHhCCCCCcCCCCCCCCCCCCCcccC
Q 021842 241 GDWNGAGAHANYSTKSMRNDGGFEVIKKAIEK-LGLRHSEHIAAYGEGNERRLTGKHETADINTFKWV 307 (307)
Q Consensus 241 gd~~GsG~H~H~SL~~g~n~~gls~~~~fiaG-lL~h~~~~~a~~~~nsy~RL~~~~ea~~~~~~~~~ 307 (307)
||++|||||+|+||++.+++++...++++++| +|+|+++++++++ ||||||++++|||....++||
T Consensus 301 gd~~GSGmHiH~Sl~d~r~~gg~~~~~~~i~gl~l~H~~~i~A~~~-NsykRL~~~~ea~~p~~~swG 367 (432)
T PLN03036 301 GDWNGAGCHTNYSTKSMREEGGFEVIKKAILNLSLRHKEHISAYGE-GNERRLTGKHETASIDTFSWG 367 (432)
T ss_pred CCcCCCCceeEechhhccccchHHHHHHHHhhHHHHHHHHHHhhhc-ChhhccCCCccccCCccceEe
Confidence 66799999999999985544566778899998 9999999988866 999999999999999999997
No 3
>COG0174 GlnA Glutamine synthetase [Amino acid transport and metabolism]
Probab=100.00 E-value=6.9e-73 Score=548.72 Aligned_cols=283 Identities=28% Similarity=0.410 Sum_probs=250.0
Q ss_pred CCCEEEEEEEEEeCCCCcceeEEEEcCCCCCCCCCCCc--ccccCCcc-ccccCCCCcEEEEee--eeeecCCCCCCeEE
Q 021842 15 STDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPK--WNYDGSST-GQAPGEDSEVILYPQ--AIFKDPFRRGNNIL 89 (307)
Q Consensus 15 ~~~~~~v~~~~~D~~G~~~rgK~~~~~~~~~~~~~~~~--~~~dgs~~-g~~~~~~~D~~l~PD--t~~~lPw~~~~~a~ 89 (307)
..++.+|+++|+|+.| .+|||++|++.+.+.++.... ..||||++ ||...+++|++++|| |++++||.++++|+
T Consensus 12 ~~~V~~v~~~f~D~~G-~~r~k~ip~~~~~~~~~~~~~~g~~fdgss~~g~~~i~~sDm~l~Pd~~T~~~~Pw~~~~ta~ 90 (443)
T COG0174 12 ENGVKFVDLRFTDLNG-VLRGKTIPAEKPVSVLAQLFEGGVVFDGSSIAGFEGIGESDMVLKPDLSTLVVDPWREGPTAR 90 (443)
T ss_pred hCCceEEEEEEECCCC-CeeeEEEecccchhHHHhhhccCcCcCCccccccCCCCCCCEEEeeccCceeeCCCCCCCcEE
Confidence 3889999999999999 999999998864444444333 34899999 898867999999999 89999999877999
Q ss_pred EEEEEEcCCCCCCCCCHHHHHHHHHHHhhhcCCc-cEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhH
Q 021842 90 VMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEE-PWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWG 168 (307)
Q Consensus 90 v~~d~~~~~G~p~~~~PR~~L~~~~~~~~~~G~~-~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 (307)
|+||+++++|+|+..|||++|+|+++++++.|+. +.+|+|+|||||+.+...... +.+.++++||+..+.+..
T Consensus 91 v~cdv~~~~g~p~~~dPR~vlkr~~~~l~~~G~~~~~~g~E~EFfLfd~~~~~~~~----~~~~~~~~yf~~~~~~~~-- 164 (443)
T COG0174 91 VLCDVYDPDGTPYPRDPRSVLKRALARLKDEGLAPAVVGPELEFFLFDRDGRDPDG----GRPADKGGYFDVAPLDEA-- 164 (443)
T ss_pred EEEEEECCCCCcCCCChHHHHHHHHHHHHhcCCccceeecceeEEEeecccCCccc----CccCCCCcccCccccccH--
Confidence 9999999999999999999999999999999997 599999999999975421110 246778899877776553
Q ss_pred HHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCcee
Q 021842 169 RDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGA 248 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~ 248 (307)
.+++.+|+.+|+++||+|+.+|||+|||||||++++.++|++||+++++|++||+||++||+.|||||||+.| .+||||
T Consensus 165 ~~~~~di~~~l~~~Gi~ie~~hhEva~gQ~EI~~~~~~~l~~AD~~~~~K~vvk~vA~~hG~~aTFMpKP~~g-~~GSGM 243 (443)
T COG0174 165 EDFRRDIVEALEAAGIEIEAIHHEVAPGQFEINLRFDDALKAADQIVIFKYVVKEVAEKHGLTATFMPKPFFG-DNGSGM 243 (443)
T ss_pred HHHHHHHHHHHHHCCCCcEeccccccCCceEEecCCCCHHHHHHHHHHHHHHHHHHHHHhCCeEEEeCCCCCC-CCCCce
Confidence 6999999999999999999999999999999999999999999999999999999999999999999999996 899999
Q ss_pred eEEEeccC--CCC----C-C--CHH-HHHHHHHHHHHHHHHHHhHh--CCCCCcCC-CCCCC-CCCCCCccc
Q 021842 249 HANYSTKS--MRN----D-G--GFE-VIKKAIEKLGLRHSEHIAAY--GEGNERRL-TGKHE-TADINTFKW 306 (307)
Q Consensus 249 H~H~SL~~--g~n----~-~--gls-~~~~fiaGlL~h~~~~~a~~--~~nsy~RL-~~~~e-a~~~~~~~~ 306 (307)
|+|+|||+ |.| + + ++| +++|||||||+|++++++++ ++|||||| +| +| ||++.+++.
T Consensus 244 H~H~Sl~~~dg~nlF~d~~~~~~lS~~~~~~igGilkha~~~~ai~~PtvNSYkRl~vp-~e~AP~~~~wg~ 314 (443)
T COG0174 244 HVHQSLWDKDGGNLFADEDGYAGLSETALHFIGGILKHAPALTAITAPTVNSYKRLGVP-YEWAPTYIAWGV 314 (443)
T ss_pred eEEEEEecCCCCccccCCCCcccHHHHHHHHHHHHHHHHHHHHhHhCCCcchhhhcCCC-cccCcchhcccc
Confidence 99999997 447 2 2 577 89999999999999999999 79999999 66 77 999887653
No 4
>TIGR00653 GlnA glutamine synthetase, type I. Alternate name: glutamate--ammonia ligase. This model represents the dodecameric form, which can be subdivided into 1-alpha and 1-beta forms. The phylogeny of the 1-alpha and 1-beta forms appears polyphyletic. E. coli, Synechocystis PCC6803, Aquifex aeolicus, and the crenarcheon Sulfolobus acidocaldarius have form 1-beta, while Bacillus subtilis, Thermotoga maritima, and various euryarchaea has form 1-alpha. The 1-beta dodecamer from the crenarcheon Sulfolobus acidocaldarius differs from that in E. coli in that it is not regulated by adenylylation.
Probab=100.00 E-value=5.5e-71 Score=542.17 Aligned_cols=291 Identities=21% Similarity=0.275 Sum_probs=246.1
Q ss_pred hhHHhhcCCCCCCCCEEEEEEEEEeCCCCcceeEEEEcCCCCC-CCCCCCcccccCCcc-ccccCCCCcEEEEee--eee
Q 021842 3 LLSDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVS-DPSKLPKWNYDGSST-GQAPGEDSEVILYPQ--AIF 78 (307)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~v~~~~~D~~G~~~rgK~~~~~~~~~-~~~~~~~~~~dgs~~-g~~~~~~~D~~l~PD--t~~ 78 (307)
.+..+|.- .++.+|+++|+|.+| ++|||.+|++.+.+ .+. .+.+|+++++ |+....++|++++|| |++
T Consensus 2 e~~~~l~~-----~~i~~v~~~~~Dl~G-~~rgk~vp~~~~~~~~~~--~G~~~~~~~~~~~~~~~~~D~~l~PD~~Tl~ 73 (460)
T TIGR00653 2 EVFKLIKE-----ENVKFVDLRFTDIKG-KPQHVEIPASALDKEAFE--EGIMFDGSSIRGFQGIEESDMLLKPDPSTAV 73 (460)
T ss_pred hHHHHHHh-----CCCcEEEEEEECCCC-CEeeEEEeHHHhhHHHhc--CCeecccccccccccCCCCcEEEeccCCcce
Confidence 34556654 568889999999999 99999999887653 222 2457888887 775556899999999 799
Q ss_pred ecCCCCCCeEEEEEEEEcC-CCCCCCCCHHHHHHHHHHHhh-hcCCccEEeeeeeEEEeccCCCCCC-------------
Q 021842 79 KDPFRRGNNILVMCDAYTP-AGEPIPTNKRHAAAKIFSHSD-VVAEEPWYGIEQEYTLLQKDVKWPL------------- 143 (307)
Q Consensus 79 ~lPw~~~~~a~v~~d~~~~-~G~p~~~~PR~~L~~~~~~~~-~~G~~~~~g~E~EF~l~~~~~~~~~------------- 143 (307)
++||.++++|+|+||+++. ||+|++.|||++|+|++++++ ++|+++++|+|+|||||+.+.....
T Consensus 74 ~~pw~~~~~a~v~~d~~~~~dg~p~~~~PR~~L~r~~~~l~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~ 153 (460)
T TIGR00653 74 IDPWRAEKTLRVICDVYEPFTGEPYERDPRSIAKRAEEYLKSGIGDTAYFGPEPEFFLFDSVEFGSLANGSFYEVDSEEG 153 (460)
T ss_pred eccCCCCCcEEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHhCCCCceeEEcceEEEEEecCccCcccccceeeeccccc
Confidence 9999765699999999998 999999999999999999999 9999999999999999986432100
Q ss_pred ------CCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHH
Q 021842 144 ------GWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVA 217 (307)
Q Consensus 144 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~ 217 (307)
++ .+..+.+++.||....... ..+++++|++.|+++||+|+++|+|+|||||||++.|.++|+|||+++++
T Consensus 154 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~--~~~~~~~i~~~l~~~Gi~v~~~~~E~gpGQ~Ei~l~~~~~l~aAD~~~~~ 230 (460)
T TIGR00653 154 RWNEESGN-RGYKPRDKGGYFPVAPTDT--AVDIRREMVLYLEQLGFDVEVHHHEVATGQHEIDFKFDTLLKTADDIQTY 230 (460)
T ss_pred cccccCCc-CCCcccCCccccCCCCccc--HHHHHHHHHHHHHHcCCCceeeecCcCCCceeEecCCCCHHHHHHHHHHH
Confidence 10 0112444454555444443 36899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC-CCC---C----CCHH-HHHHHHHHHHHHHHHHHhHh--CC
Q 021842 218 RYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS-MRN---D----GGFE-VIKKAIEKLGLRHSEHIAAY--GE 286 (307)
Q Consensus 218 k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~-g~n---~----~gls-~~~~fiaGlL~h~~~~~a~~--~~ 286 (307)
|++||+||++||++|||||||+. +.+|||+|+|+|||+ |+| + .++| ++++||||||+|++++++++ |+
T Consensus 231 k~~ik~vA~~~G~~ATFmpKP~~-~~~GSG~H~H~Sl~d~g~n~F~d~~~~~~lS~~~~~fiaGiL~h~~~l~a~~~Ptv 309 (460)
T TIGR00653 231 KYVVKNVARKHGKTATFMPKPLF-GDNGSGMHCHQSLWKDGENLFAGEEGYAGLSETALYYIGGILKHAKALAAFTNPTV 309 (460)
T ss_pred HHHHHHHHHHhCCEEEEecccCC-CCCcCceeEEECccCCCeeccCCCCCCcccCHHHHHHHHHHHHHHHHhhhHhcCCC
Confidence 99999999999999999999999 599999999999998 766 1 2466 89999999999999999999 89
Q ss_pred CCCcCCCCCCCCCCCCCcccC
Q 021842 287 GNERRLTGKHETADINTFKWV 307 (307)
Q Consensus 287 nsy~RL~~~~ea~~~~~~~~~ 307 (307)
||||||+|+++||+. .+||
T Consensus 310 NSYkRl~p~~~ap~~--~~WG 328 (460)
T TIGR00653 310 NSYKRLVPGYEAPVY--LAYS 328 (460)
T ss_pred cchhhcCCCCcCcce--eecc
Confidence 999999999999985 5665
No 5
>PRK09469 glnA glutamine synthetase; Provisional
Probab=100.00 E-value=1.4e-69 Score=533.06 Aligned_cols=291 Identities=20% Similarity=0.244 Sum_probs=242.4
Q ss_pred hhHHhhcCCCCCCCCEEEEEEEEEeCCCCcceeEEEEcCCCCC-CCCCCCcccccCCcc-ccccCCCCcEEEEee--eee
Q 021842 3 LLSDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVS-DPSKLPKWNYDGSST-GQAPGEDSEVILYPQ--AIF 78 (307)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~v~~~~~D~~G~~~rgK~~~~~~~~~-~~~~~~~~~~dgs~~-g~~~~~~~D~~l~PD--t~~ 78 (307)
.+..++.. .++.+|++.++|..| ++|||.+|++.+.+ .++. +..|+++++ |+...+++|++++|| |++
T Consensus 5 ~~~~~l~~-----~~i~~v~~~~~Dl~G-~~rgk~ip~~~~~~~~~~~--G~~f~~~~~~g~~~~~~~D~~l~PD~~Tl~ 76 (469)
T PRK09469 5 HVLTMLNE-----HEVKFVDLRFTDTKG-KEQHVTIPAHQVNADFFEE--GKMFDGSSIGGWKGINESDMVLMPDASTAV 76 (469)
T ss_pred HHHHHHHh-----CCCCEEEEEEECCCC-CEeEEEEEHHHhhHHHhcC--CceeccccccccCcCCCCCEEEEEcCCccE
Confidence 34455543 467888889999999 89999999887653 2332 457899887 775556899999999 799
Q ss_pred ecCCCCCCeEEEEEEEEcCC-CCCCCCCHHHHHHHHHHHhhhcCC--ccEEeeeeeEEEeccCCC--CCC----------
Q 021842 79 KDPFRRGNNILVMCDAYTPA-GEPIPTNKRHAAAKIFSHSDVVAE--EPWYGIEQEYTLLQKDVK--WPL---------- 143 (307)
Q Consensus 79 ~lPw~~~~~a~v~~d~~~~~-G~p~~~~PR~~L~~~~~~~~~~G~--~~~~g~E~EF~l~~~~~~--~~~---------- 143 (307)
++||.+.++|+|+||+++.+ |+|++.|||++|||++++++++|+ ++++|+|+|||||++... .+.
T Consensus 77 ~~Pw~~~~~a~v~~d~~~~~~g~p~~~~PR~iLkr~~~~l~~~G~~~~~~~g~ElEF~L~~~~~~~~~~~~~~~~~~~~~ 156 (469)
T PRK09469 77 LDPFFEDSTLIIRCDILEPGTMQGYDRDPRSIAKRAEDYLRSTGIADTVLFGPEPEFFLFDDIRFGSSISGSHVAIDDIE 156 (469)
T ss_pred ECCcCCCCcEEEEEEEEECCCCCcCCcCHHHHHHHHHHHHHHcCCCcceeEecceEEEEEeccccccCccccccccccch
Confidence 99996434999999999985 899999999999999999999999 999999999999985330 000
Q ss_pred -CCCC---------CCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcC-CCceEEEcCCChhhHHHH
Q 021842 144 -GWPI---------GGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVM-PGQWEFQVGPAVGISAGD 212 (307)
Q Consensus 144 -~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~g-pGQ~Ei~l~~~~~l~aaD 212 (307)
.+.. +..+.+.+.||...+.+. ..+++++|+++|+++||+|+++|||+| ||||||++.|.++|+|||
T Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~--~~~~~~~i~~~l~~~Gi~v~~~h~E~g~~GQ~Ei~l~~~d~L~aaD 234 (469)
T PRK09469 157 AAWNSGTKYEGGNKGHRPGVKGGYFPVPPVDS--SQDIRSAMCLVMEEMGLVVEAHHHEVATAGQNEVATRFNTMTKKAD 234 (469)
T ss_pred hcccccccccCCCCCCccCCCccccCCCcccc--hHHHHHHHHHHHHHCCCCcEEeeCCCCCCCeEEEeccCCCHHHHHH
Confidence 0000 012333343554444443 379999999999999999999999999 599999999999999999
Q ss_pred HHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC-CCC---C---CCHH-HHHHHHHHHHHHHHHHHhHh
Q 021842 213 QLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS-MRN---D---GGFE-VIKKAIEKLGLRHSEHIAAY 284 (307)
Q Consensus 213 ~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~-g~n---~---~gls-~~~~fiaGlL~h~~~~~a~~ 284 (307)
+++++|++||+||++||++|||||||+. +.+|||||+|+|||+ |+| + +++| .+++||||||+|++++++++
T Consensus 235 ~~~~~k~~vk~va~~~g~~atFmpKP~~-~~~GsG~H~H~Sl~~~g~N~F~~~~~~~ls~~~~~fiaGlL~h~~~l~a~~ 313 (469)
T PRK09469 235 EIQIYKYVVHNVAHAFGKTATFMPKPMF-GDNGSGMHCHMSLSKNGVNLFAGDKYAGLSEQALYYIGGIIKHAKAINALA 313 (469)
T ss_pred HHHHHHHHHHHHHHHhCCEEEEeccccC-CCCCceeEEEEeecCCCccccCCCCcCCcCHHHHHHHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999999 599999999999998 767 2 3576 89999999999999999999
Q ss_pred --CCCCCcCCCCCCCCCCCCCc
Q 021842 285 --GEGNERRLTGKHETADINTF 304 (307)
Q Consensus 285 --~~nsy~RL~~~~ea~~~~~~ 304 (307)
|+||||||++++|||...++
T Consensus 314 ~PtvNSYkRl~p~~~ap~~~~W 335 (469)
T PRK09469 314 NPTTNSYKRLVPGYEAPVMLAY 335 (469)
T ss_pred cCCCchHhhcCCCCcCcCccee
Confidence 89999999999999987643
No 6
>TIGR03105 gln_synth_III glutamine synthetase, type III. This family consists of the type III isozyme of glutamine synthetase, originally described in Rhizobium meliloti, where types I and II also occur.
Probab=100.00 E-value=4.2e-68 Score=518.86 Aligned_cols=284 Identities=20% Similarity=0.239 Sum_probs=235.6
Q ss_pred HHhhcCCCCCCCCEEEEEEEEEeCCCCcceeEEEEcCCCCCCCCCCCcccccCCcc---ccccCCCCcEEEEee--eeee
Q 021842 5 SDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSST---GQAPGEDSEVILYPQ--AIFK 79 (307)
Q Consensus 5 ~~~~~~~~~~~~~~~~v~~~~~D~~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~---g~~~~~~~D~~l~PD--t~~~ 79 (307)
+++|+- .++-+|++.|+|.+| ++|||.+|++.+.+.+.. +..|+++++ ++.. +++|++++|| |+++
T Consensus 2 ~~~l~~-----~~i~~v~~~~~D~~G-~~r~k~vp~~~~~~~~~~--G~~~~~~~~~~~~~~~-~~~D~~l~PD~~Tl~~ 72 (435)
T TIGR03105 2 QALARD-----KGIKYFLASFVDLHG-VQKAKLVPAEAIDHMATG--GAGFAGFAAWGLGQSP-ADPDLMAIPDLDSLTQ 72 (435)
T ss_pred hhhHhh-----CCCCEEEEEEECCCC-CeeEEEEeHHHHHHHHcC--CCcccchhhhccCCCC-CCCCEEEEecccccee
Confidence 455543 467889999999999 899999998876664332 346777655 3333 4799999999 7999
Q ss_pred cCCCCCCeEEEEEEEEcCCCCCCCCCHHHHHHHHHHHhhhcCCccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCccc
Q 021842 80 DPFRRGNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYC 159 (307)
Q Consensus 80 lPw~~~~~a~v~~d~~~~~G~p~~~~PR~~L~~~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~ 159 (307)
+||.++ +|+|+||++. +|+|++.|||++|+|++++++++|+++++|+|+|||||+.+.+...... +..+....++|+
T Consensus 73 ~pw~~~-~a~v~~d~~~-~G~p~~~~PR~vL~r~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~-~~~~~~~~~~~~ 149 (435)
T TIGR03105 73 LPWQPG-VAWVAADLHV-NGKPYPQAPRVVLKRQLAEAAELGLTLNTGVECEFFLLRRDEDGSLSIA-DRADTLAKPCYD 149 (435)
T ss_pred CCCCCC-eEEEEEEEee-CCCcCCCCHHHHHHHHHHHHHhcCCceeEEeceEEEEEecCCCCCcccC-CCCCCCCccCCC
Confidence 999886 9999999976 8999999999999999999999999999999999999987542111100 101111223444
Q ss_pred ccCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCc
Q 021842 160 GVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPI 239 (307)
Q Consensus 160 ~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~ 239 (307)
..... . ..+++++|++.|+++||+|+++|+|+|||||||++.|.++|+|||+++++|++||+||++||++|||||||+
T Consensus 150 ~~~~~-~-~~~~~~~i~~~l~~~gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~vk~vA~~~Gl~atFmpKP~ 227 (435)
T TIGR03105 150 QRGLM-R-RYDVLTEISDAMNALGWDPYQNDHEDANGQFEMNFTYADALTTADRHAFFRYMVKEIAEKHGMRATFMPKPF 227 (435)
T ss_pred Ccchh-h-hhHHHHHHHHHHHHCCCCeEEeecCcCCCceEEecCcchHHHHHHHHHHHHHHHHHHHHHhCCEEEecCccC
Confidence 33332 2 369999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCceeeEEEeccC--CCC---C------CCHH-HHHHHHHHHHHHHHHHHhHh--CCCCCcCCCCC------CCCC
Q 021842 240 QGDWNGAGAHANYSTKS--MRN---D------GGFE-VIKKAIEKLGLRHSEHIAAY--GEGNERRLTGK------HETA 299 (307)
Q Consensus 240 ~gd~~GsG~H~H~SL~~--g~n---~------~gls-~~~~fiaGlL~h~~~~~a~~--~~nsy~RL~~~------~ea~ 299 (307)
. +.+|||+|+|+|||+ |+| + .++| ++++||||||+|++++++++ |+||||||+|+ ++||
T Consensus 228 ~-~~~GsG~H~H~Sl~d~~g~n~f~d~~~~~~~~lS~~~~~fiaGlL~h~~~l~a~~~PtvNSYkRl~p~~~~~~~~~AP 306 (435)
T TIGR03105 228 A-DLTGNGCHFHLSLWDEDGRNLFADDSDPNGLGLSKLAYHFIGGILHHAPALCAVLAPTVNSYKRLNAPRTTSGATWAP 306 (435)
T ss_pred C-CCCccceEEEEeeecCCCcccccCCCCCccccccHHHHHHHHHHHHHHHHHHHHHCCCCccccccCCCcCCcCcccCC
Confidence 9 599999999999996 777 2 1377 89999999999999999999 89999999996 7899
Q ss_pred CCCC
Q 021842 300 DINT 303 (307)
Q Consensus 300 ~~~~ 303 (307)
+..+
T Consensus 307 ~~~~ 310 (435)
T TIGR03105 307 NFIS 310 (435)
T ss_pred ceee
Confidence 7643
No 7
>PF00120 Gln-synt_C: Glutamine synthetase, catalytic domain; InterPro: IPR008146 Glutamine synthetase (6.3.1.2 from EC) (GS) [] plays an essential role in the metabolism of nitrogen by catalyzing the condensation of glutamate and ammonia to form glutamine. There seem to be three different classes of GS [, , ]: Class I enzymes (GSI) are specific to prokaryotes, and are oligomers of 12 identical subunits. The activity of GSI-type enzyme is controlled by the adenylation of a tyrosine residue. The adenylated enzyme is inactive (see IPR001637 from INTERPRO). Class II enzymes (GSII) are found in eukaryotes and in bacteria belonging to the Rhizobiaceae, Frankiaceae, and Streptomycetaceae families (these bacteria have also a class-I GS). GSII are octamer of identical subunits. Plants have two or more isozymes of GSII, one of the isozymes is translocated into the chloroplast. Class III enzymes (GSIII) have been found in Bacteroides fragilis. in Butyrivibrio fibrisolvens. It is a hexamer of identical chains and in some protozoa. It is much larger (about 700 amino acids) than the GSI (450 to 470 amino acids) or GSII (350 to 420 amino acids) enzymes. While the three classes of GS's are clearly structurally related, the sequence similarities are not so extensive.; GO: 0004356 glutamate-ammonia ligase activity, 0006807 nitrogen compound metabolic process; PDB: 2J9I_E 3ZXV_D 1HTQ_D 1HTO_F 2BVC_F 2WGS_G 3ZXR_B 2WHI_D 3NG0_A 1LGR_C ....
Probab=100.00 E-value=4.5e-55 Score=401.64 Aligned_cols=196 Identities=27% Similarity=0.415 Sum_probs=161.3
Q ss_pred CCCHHHHHHHHHHHhhhcCCccEEeeeeeEEEeccCCCCCCCCCC-CCCC----CCCCCcccccCcchhhHHHHHHHHHH
Q 021842 103 PTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPI-GGYP----GPQGPYYCGVGADKAWGRDIVDSHYK 177 (307)
Q Consensus 103 ~~~PR~~L~~~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~-~~~~----~~~~~~~~~~~~~~~~~~~~l~~i~~ 177 (307)
+.|||++|+|+++++++.|+++++|+|+|||||+++.. .+.+. ...+ ...+.+|....... .++++++|++
T Consensus 1 ~~~PR~~Lkr~~~~~~~~g~~~~~g~E~EF~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~~ 76 (259)
T PF00120_consen 1 EACPRSILKRVLERLEEMGLSFKVGFELEFYLFDRDDD--GGWPRPSGYPDEPGQDYGGYYSLSPLDA--GEDFLEEIVD 76 (259)
T ss_dssp -T-HHHHHHHHHHHHHHTCCEEEEEEEEEEEEESTCEE--TTSSSTTSEESESSSTTTBSSTTTTTST--THHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHhCCceEEEEeEEEEEeccCcc--cccccccccccccccccCCcCCCchhhH--HHHHHHHHHH
Confidence 46999999999999999999999999999999998632 11110 0011 12345554444333 3799999999
Q ss_pred HHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC-
Q 021842 178 ACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS- 256 (307)
Q Consensus 178 ~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~- 256 (307)
+|+++||+|+++|+|+|||||||++.|.+++++||+++++|++||+||++||++|||||||+. +.+|||+|+|+|||+
T Consensus 77 ~l~~~Gi~ve~~h~E~gpgQ~Ei~~~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~atFmpKP~~-~~~GsG~H~h~Sl~~~ 155 (259)
T PF00120_consen 77 ALEQAGIPVEQIHHEVGPGQYEINLGPCDPLEAADNLVLFKEIIKEVARKHGLTATFMPKPFS-GDNGSGMHLHISLWDA 155 (259)
T ss_dssp HHHHCT--EEEEEEESSTTEEEEEEEEEECHHHHHHHHHHHHHHHHHHHHTTEEEE-SSSSST-TSS--BEEEEEEECHH
T ss_pred HHHHhhccccccccccchHhhccccccCcHHHHHHHHHHHHHHHHHHHHHcCCceeeeccccC-CcCccchhhhhhhhhc
Confidence 999999999999999999999999999999999999999999999999999999999999999 589999999999995
Q ss_pred --CCC---C--C--CHH-HHHHHHHHHHHHHHHHHhHh--CCCCCcCCCCCCCCCCCCC
Q 021842 257 --MRN---D--G--GFE-VIKKAIEKLGLRHSEHIAAY--GEGNERRLTGKHETADINT 303 (307)
Q Consensus 257 --g~n---~--~--gls-~~~~fiaGlL~h~~~~~a~~--~~nsy~RL~~~~ea~~~~~ 303 (307)
|+| + + ++| .+++||||||+|++++++++ |+||||||+++++||...+
T Consensus 156 ~~g~n~f~~~~~~~~ls~~~~~flaGll~h~~~l~a~~~pt~nsykRl~~~~~ap~~~~ 214 (259)
T PF00120_consen 156 KDGKNLFYDPDGPAGLSELARHFLAGLLKHAPALTAFTAPTVNSYKRLVPGSWAPTYIS 214 (259)
T ss_dssp HTTEETTBSTTSHGHHHHHHHHHHHHHHCHHHHHHHCHSTSTTHHHHSSSTSSSSSBEE
T ss_pred cccccccccccccccccHHHHHHHHHHHHHHHHHHhhhCccCcchhhCCCCccceeccc
Confidence 666 2 2 466 89999999999999999999 8999999999999996543
No 8
>KOG0683 consensus Glutamine synthetase [Amino acid transport and metabolism]
Probab=100.00 E-value=3.4e-46 Score=345.04 Aligned_cols=301 Identities=64% Similarity=1.161 Sum_probs=283.5
Q ss_pred HHhhcCCCCCCCCEEEEEEEEEeCCCCcceeEEEEcCCCCCCCCCCCcccccCCccccccCCCCcEEEEeeeeeecCCCC
Q 021842 5 SDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSSTGQAPGEDSEVILYPQAIFKDPFRR 84 (307)
Q Consensus 5 ~~~~~~~~~~~~~~~~v~~~~~D~~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~g~~~~~~~D~~l~PDt~~~lPw~~ 84 (307)
..++.| +.....+++.|+|+|+.|+.+|+|...++...+.++++|.|+|||++++++++.+||.+|+|..+.+.|+..
T Consensus 18 ~~~~~L--~~~~~kv~a~YVwidg~ge~~rsk~rt~d~~~~~~~~lp~wnydgsst~QA~g~nSd~~l~Pva~~~dPfr~ 95 (380)
T KOG0683|consen 18 LEYLYL--RAKRKKVQAEYVWIDGTGENLRSKTRTLDAEPSSISELPIWNYDGSSTGQAPGENSDVYLRPVAIYPDPFRN 95 (380)
T ss_pred hhhccc--cccCceEEEEEEEecCccccchhhcccccCCccCcccCccccccCcccccccCCCCceEEeehhhcCCcccC
Confidence 345555 888899999999999999999999999999999999999999999999999999999999999888999998
Q ss_pred CCeEEEEEEEEcCCCCCCCCCHHHHHHHHHHHhhhcCCccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcc
Q 021842 85 GNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGAD 164 (307)
Q Consensus 85 ~~~a~v~~d~~~~~G~p~~~~PR~~L~~~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 164 (307)
++...|+|+.++.+|.|.+.+-|....+++....-..-+++.|.|.||.+++.....++|||..+.|.++++||+....+
T Consensus 96 g~Nilv~c~~~~~~~~P~~tn~R~~c~~~~~~~~~~~~~PWfg~Eqeyt~l~~~~~~p~gwp~~GFp~Pqgpyyc~VGad 175 (380)
T KOG0683|consen 96 GNNILVMCDTYDFDGKPTETNKRVACARIMPKLSTKDTEPWFGMEQEYTLLDALDGHPFGWPKGGFPGPQGPYYCGVGAD 175 (380)
T ss_pred CCCEEEEeeccCCCCCcccccchhhHHHHhccccccccCCchhhhHHHhhhccccCCcccCCccCCCCCCCCceeecccc
Confidence 87899999999999999999999999999999887888999999999999998656789999999999999999998888
Q ss_pred hhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCC
Q 021842 165 KAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWN 244 (307)
Q Consensus 165 ~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~ 244 (307)
..+.+++++.-+.+|--+||.+..++.|+.|||+||.+.|+.++.++|+++++|+++|+||++.|+.|||-|||..|+++
T Consensus 176 ~~~~rdiveahy~acLyaGl~i~G~N~EvmPgQwEfqvGp~~GI~~gD~lw~aR~il~rVae~~Gviasf~pKp~~g~Wn 255 (380)
T KOG0683|consen 176 RVFGRDIVEAHYRACLYAGLNISGINVEVMPGQWEFQVGPCEGISMGDQLWMARYILHRVAEKFGVIASFDPKPILGDWN 255 (380)
T ss_pred ccccchhhhhhHHHHHhhheeeccccccccCceeEEeecchhcccchhhHHHHHHHHHHHHHHhCeeEEecCCCCCCccc
Confidence 87788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceeeEEEeccCCCCCCCHHHHHHHHHHHHHHHHHHHhHh----CCCCCcCCCCCCCCCCCCCcccC
Q 021842 245 GAGAHANYSTKSMRNDGGFEVIKKAIEKLGLRHSEHIAAY----GEGNERRLTGKHETADINTFKWV 307 (307)
Q Consensus 245 GsG~H~H~SL~~g~n~~gls~~~~fiaGlL~h~~~~~a~~----~~nsy~RL~~~~ea~~~~~~~~~ 307 (307)
|+|+|.+.|..+.+.++|++....++..+=+.++..+..+ +..+-+||.+.||+.++..||||
T Consensus 256 gaG~Htn~ST~~mr~~~g~~~i~~a~~~ls~rh~~hi~~ydp~~G~dN~rrltg~hEt~~i~~Fs~G 322 (380)
T KOG0683|consen 256 GAGCHTNFSTKEMREAGGLKIIEEAIPKLSKRHREHIAAYDPKGGKDNERRLTGRHETGSIDNFSWG 322 (380)
T ss_pred CcccccccchhHHHhccCHHHHHHHhhhcchhhhhhhhhcCccCCccchhhhcCCCccccccccccc
Confidence 9999999999886667888899999999999999999999 78999999999999999999997
No 9
>COG3968 Uncharacterized protein related to glutamine synthetase [General function prediction only]
Probab=99.74 E-value=1.8e-17 Score=157.69 Aligned_cols=174 Identities=26% Similarity=0.349 Sum_probs=127.5
Q ss_pred CccEEeeeeeEEEeccCCC--CC----CCCCCCCCCCCCC-----CcccccCcchhhHHHHHHHHHHHHHHcCCeeeeec
Q 021842 122 EEPWYGIEQEYTLLQKDVK--WP----LGWPIGGYPGPQG-----PYYCGVGADKAWGRDIVDSHYKACLYAGINISGIN 190 (307)
Q Consensus 122 ~~~~~g~E~EF~l~~~~~~--~~----~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h 190 (307)
.-..+|.|+||||.++... ++ .|..+=+.+.++| .||...+ ++ ...|+.++...|.++||++..-|
T Consensus 214 V~s~~GaEQEYFlvd~~~~~~RpDLi~tGRTLFGa~ppkGQEldDHYFGaip--eR-V~~FM~Dve~~LyaLGIpaKTrH 290 (724)
T COG3968 214 VFSNVGAEQEYFLVDKKSYDERPDLIFTGRTLFGAPPPKGQELDDHYFGAIP--ER-VSAFMKDVEKELYALGIPAKTRH 290 (724)
T ss_pred hccCCCccceeEEechhhcccCcceeeechhhcCCCCCCCccccchhccccH--HH-HHHHHHHHHHHHHHcCCcccccc
Confidence 5678999999999987531 11 0110001222333 4554444 23 26899999999999999999999
Q ss_pred CCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC--CCC---CCCHH-
Q 021842 191 GEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS--MRN---DGGFE- 264 (307)
Q Consensus 191 ~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~--g~n---~~gls- 264 (307)
.|++||||||..-+.++--|+|+-.+..+++|.+|++||+..-..-|||.| .+|||-|+|+|+-. |.| ++.+.
T Consensus 291 NEVAPgQfEIApife~~N~A~DhqQL~M~vLk~tA~KhGlVCLLHEKPFAG-iNGSGKH~NWSmGtd~g~NLLdPgD~Ph 369 (724)
T COG3968 291 NEVAPGQFEIAPIFESGNLATDHQQLVMEVLKKTALKHGLVCLLHEKPFAG-INGSGKHNNWSMGTDDGLNLLDPGDMPH 369 (724)
T ss_pred cccCCCceeeeeeeccccccchHHHHHHHHHHHHHHhcceEEEeecCCccC-cCCCCCccccccccCCCcccCCCCCCCC
Confidence 999999999999999999999999999999999999999999999999997 99999999999954 666 33221
Q ss_pred ---HH----HHHHHHHHHHHHHHHhHh--CCCCCcCCCCCCCCCC
Q 021842 265 ---VI----KKAIEKLGLRHSEHIAAY--GEGNERRLTGKHETAD 300 (307)
Q Consensus 265 ---~~----~~fiaGlL~h~~~~~a~~--~~nsy~RL~~~~ea~~ 300 (307)
.. -.-|-++=++ .+++-+. +..|..||..+..-|-
T Consensus 370 dN~QFL~Fc~AvIkaVdkY-~~LlRa~~a~AsNDhRLGANEAPPA 413 (724)
T COG3968 370 DNKQFLLFCTAVIKAVDKY-ADLLRASAANASNDHRLGANEAPPA 413 (724)
T ss_pred ccceeehhhHHHHHHHHHH-HHHHHHHHhccCCccccccCCCCcc
Confidence 22 3334444443 3344333 6778999986444443
No 10
>PF03951 Gln-synt_N: Glutamine synthetase, beta-Grasp domain; InterPro: IPR008147 Glutamine synthetase (6.3.1.2 from EC) (GS) [] plays an essential role in the metabolism of nitrogen by catalyzing the condensation of glutamate and ammonia to form glutamine. There seem to be three different classes of GS [, , ]: Class I enzymes (GSI) are specific to prokaryotes, and are oligomers of 12 identical subunits. The activity of GSI-type enzyme is controlled by the adenylation of a tyrosine residue. The adenylated enzyme is inactive (see IPR001637 from INTERPRO). Class II enzymes (GSII) are found in eukaryotes and in bacteria belonging to the Rhizobiaceae, Frankiaceae, and Streptomycetaceae families (these bacteria have also a class-I GS). GSII are octamer of identical subunits. Plants have two or more isozymes of GSII, one of the isozymes is translocated into the chloroplast. Class III enzymes (GSIII) has, currently, only been found in Bacteroides fragilis and in Butyrivibrio fibrisolvens. It is a hexamer of identical chains. It is much larger (about 700 amino acids) than the GSI (450 to 470 amino acids) or GSII (350 to 420 amino acids) enzymes. While the three classes of GS's are clearly structurally related, the sequence similarities are not so extensive.; GO: 0004356 glutamate-ammonia ligase activity, 0006542 glutamine biosynthetic process, 0006807 nitrogen compound metabolic process; PDB: 3NG0_A 2D3A_A 2D3C_E 2D3B_H 1LGR_C 2GLS_I 1F1H_B 1FPY_C 2LGS_D 1F52_A ....
Probab=99.55 E-value=3e-14 Score=109.18 Aligned_cols=79 Identities=27% Similarity=0.433 Sum_probs=63.9
Q ss_pred CEEEEEEEEEeCCCCcceeEEEEcCCCCCCCCCCCcccccCCcc-ccccCCCCcEEEEee--eeeecCCCCCC--eEEEE
Q 021842 17 DKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSST-GQAPGEDSEVILYPQ--AIFKDPFRRGN--NILVM 91 (307)
Q Consensus 17 ~~~~v~~~~~D~~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~-g~~~~~~~D~~l~PD--t~~~lPw~~~~--~a~v~ 91 (307)
++.+|+++|+|+.| .+|.+++|++.+.+...+ .+++|||||+ ||..+++||++|+|| |++++||.+++ +++|+
T Consensus 1 ~V~~v~~~f~D~~G-~~~~~~i~~~~~~~~~~~-~g~~fDGSSi~g~~~~~~SDm~l~Pd~~t~~~~P~~~~~~~~~~v~ 78 (84)
T PF03951_consen 1 NVKFVDLQFTDLFG-RLKHVTIPASEFDEDALE-DGIGFDGSSIRGFATIEESDMYLKPDPSTFFIDPWRPDPGKTARVI 78 (84)
T ss_dssp T-EEEEEEEE-TTS-SEEEEEEEGCCESCSGGG-S-EEEECCGTTTSSBSCCEEEEEEEEGGEEEESTTTSTT-TEEEEE
T ss_pred CeEEEEEEEEcCCC-CcceEEEEHHHCCchHhh-CCCCCCcccCcCcccCCCCCEEEecCcccEEECccCCCCceEEEEE
Confidence 35789999999999 899999997766221111 2458999999 999999999999999 89999999755 99999
Q ss_pred EEEEcC
Q 021842 92 CDAYTP 97 (307)
Q Consensus 92 ~d~~~~ 97 (307)
||+++|
T Consensus 79 cdv~~P 84 (84)
T PF03951_consen 79 CDVYDP 84 (84)
T ss_dssp EEEEST
T ss_pred EEeECc
Confidence 999975
No 11
>TIGR02050 gshA_cyan_rel uncharacterized enzyme. This family represents a division of a larger family, the other branch of which is predicted to act as glutamate--cysteine ligase (the first of two enzymes in glutathione biosynthesis) in the cyanobacteria. Species containing this protein, however, are generally not believe to make glutathione, and the function is unknown.
Probab=98.07 E-value=4.1e-05 Score=71.60 Aligned_cols=127 Identities=16% Similarity=0.120 Sum_probs=83.1
Q ss_pred EEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCC
Q 021842 125 WYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGP 204 (307)
Q Consensus 125 ~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~ 204 (307)
.+|+|.||+|.++... .+. +... ..++.++.. ..+ ..+++|...+|.||+..|
T Consensus 1 t~GvE~E~~lvD~~t~---------~~~---------~~~~---~~~l~~~~~---~~~---~~~~~El~~~qiEi~t~p 53 (287)
T TIGR02050 1 TLGVEEELLLVDPHTY---------DLA---------ASAS---AVLIGACRE---KIG---AGFKHELFESQVELATPV 53 (287)
T ss_pred CceeeeeeeeEcCCcc---------CcC---------ccCh---HHHHHhhhh---hcc---cccChhhhccEEEecCCC
Confidence 3799999999998541 111 0000 145544422 222 348999999999999999
Q ss_pred C-hhhHHHHHHHHHHHHHHHHHHHcCcEEEecc-cCcCC------------------------CCCCceeeEEEeccCCC
Q 021842 205 A-VGISAGDQLWVARYILERITEIAGVVLSFDP-KPIQG------------------------DWNGAGAHANYSTKSMR 258 (307)
Q Consensus 205 ~-~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmp-KP~~g------------------------d~~GsG~H~H~SL~~g~ 258 (307)
. +.-++.+.+...+..++++|+++|+...-.- -|+.. +..-+|+|+|+++.++.
T Consensus 54 ~~~~~~l~~~l~~~~~~l~~~a~~~g~~l~~~G~hP~~~~~~~~~~~~~RY~~m~~~~g~~~~~~~~~g~hVhv~v~d~~ 133 (287)
T TIGR02050 54 CTTLAEAAAQIRAVRARLVQAASDHGLRICGAGTHPFARWRRQEVADNPRYQRLLERYGYVARQQLVFGLHVHVGVPSPD 133 (287)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHcCCEEEeccCCCCCCCccCCCCcHHHHHHHHHHHHHHHHhHceeeEEEEeCCCCHH
Confidence 6 6788999999999999999999998643221 12220 01348999999998732
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHhHh
Q 021842 259 NDGGFEVIKKAIEKLGLRHSEHIAAY 284 (307)
Q Consensus 259 n~~gls~~~~fiaGlL~h~~~~~a~~ 284 (307)
..-..+-.+..++|-+.+++
T Consensus 134 ------~~i~~~n~l~~~lP~llALs 153 (287)
T TIGR02050 134 ------DAVAVLNRLLPWLPHLLALS 153 (287)
T ss_pred ------HHHHHHHHHHHHHHHHHHHH
Confidence 12333444555556555554
No 12
>PRK13517 carboxylate-amine ligase; Provisional
Probab=97.75 E-value=0.00048 Score=66.81 Aligned_cols=129 Identities=18% Similarity=0.157 Sum_probs=87.4
Q ss_pred ccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEc
Q 021842 123 EPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQV 202 (307)
Q Consensus 123 ~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l 202 (307)
.+.+|+|.||+++++... .+. +. ..++++.+ ... -.-..+..|...+|.||+.
T Consensus 10 ~~tiGvE~E~~lVD~~t~---------~~~---~~----------~~~vl~~~----~~~-~~~~~i~~El~~~qiEi~t 62 (373)
T PRK13517 10 RPTLGVEWELLLVDPETG---------ELS---PR----------AAEVLAAA----GED-DEGPHLQKELLRNTVEVVT 62 (373)
T ss_pred CCeeEeeeeEeeECCCcC---------CcC---cc----------HHHHHHhc----ccc-cCCCcccccccCCEEEECC
Confidence 569999999999997531 110 11 13444433 211 1124678899999999999
Q ss_pred CCC-hhhHHHHHHHHHHHHHHHHHHHcCcEEE---ecccCcCCC----------------------CCCceeeEEEeccC
Q 021842 203 GPA-VGISAGDQLWVARYILERITEIAGVVLS---FDPKPIQGD----------------------WNGAGAHANYSTKS 256 (307)
Q Consensus 203 ~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~AT---FmpKP~~gd----------------------~~GsG~H~H~SL~~ 256 (307)
.|. +.-++.+++.-.+..++++|+++|+... ..|.....+ ..-+|+|+|+++.+
T Consensus 63 ~p~~~~~el~~~L~~~~~~l~~~a~~~g~~l~~~G~~P~~~~~~~~~~~~~RY~~m~~~~~~~~~~~~~~g~hVhv~v~~ 142 (373)
T PRK13517 63 GVCDTVAEARADLRRTRALARRAAERRGARLAAAGTHPFSDWSEQPVTDKPRYAELIERTQWWARQQLICGVHVHVGVPS 142 (373)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHcCCEEEeeCCCCCCCCccCCCCCchHHHHHHHHHHHHHHhheeeeeEEEeCCCC
Confidence 996 6788999999999999999999997643 233321100 13689999999986
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 021842 257 MRNDGGFEVIKKAIEKLGLRHSEHIAAY 284 (307)
Q Consensus 257 g~n~~gls~~~~fiaGlL~h~~~~~a~~ 284 (307)
.. ..-..+..+..++|-+.+++
T Consensus 143 ~~------~~i~~~n~l~~~lP~llALs 164 (373)
T PRK13517 143 RE------KVVPVINRLRPWLPHLLALS 164 (373)
T ss_pred HH------HHHHHHHHHHHHHHHHHHHH
Confidence 22 24455666677777777766
No 13
>PRK13516 gamma-glutamyl:cysteine ligase; Provisional
Probab=97.73 E-value=0.00052 Score=66.56 Aligned_cols=128 Identities=18% Similarity=0.064 Sum_probs=85.4
Q ss_pred ccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEc
Q 021842 123 EPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQV 202 (307)
Q Consensus 123 ~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l 202 (307)
.+.+|+|.||+|.++... .+. + . ..++++.+- ... --+.+.+|...+|.||+.
T Consensus 11 ~~t~GvE~E~~LVD~~t~---------~~~---------~--~--~~~vl~~~~----~~~-~~~~v~~El~~~qIEi~T 63 (373)
T PRK13516 11 PFTLGVELELQLVNPHDY---------DLT---------Q--D--SSDLLRAVK----NQP-TAGEIKPEITESMIEIAT 63 (373)
T ss_pred CCeeEEEEEEEeEcCCCc---------CcC---------c--c--HHHHHHhcc----ccc-cccccChhhhCceEEEcC
Confidence 459999999999998631 110 0 0 134554431 100 023588899999999999
Q ss_pred CCC-hhhHHHHHHHHHHHHHHHHHHHcCcEEEe---ccc------CcCCCC-----------------CCceeeEEEecc
Q 021842 203 GPA-VGISAGDQLWVARYILERITEIAGVVLSF---DPK------PIQGDW-----------------NGAGAHANYSTK 255 (307)
Q Consensus 203 ~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~ATF---mpK------P~~gd~-----------------~GsG~H~H~SL~ 255 (307)
.|. +.-++.+.+...+..++++|+++|+...= .|- +.. +. .-.|+|||+.+-
T Consensus 64 ~p~~~~~el~~eL~~~r~~l~~~A~~~G~~lva~GthP~~~~~~~~it-~~~RY~~l~~~~~~~~~~~~i~G~HVHvg~~ 142 (373)
T PRK13516 64 GVCRDIDQALGQLSAMRDVLVQAADKLNIGICGGGTHPFQQWQRQRIC-DNPRFQYLSELYGYLAKQFTVFGQHVHIGCP 142 (373)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHcCCEEEeecCCCCCCccccCCC-CcHHHHHHHHHhhhhhhhheeeeeEEEeCCC
Confidence 997 67779999999999999999999996321 121 111 11 246899999887
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 021842 256 SMRNDGGFEVIKKAIEKLGLRHSEHIAAY 284 (307)
Q Consensus 256 ~g~n~~gls~~~~fiaGlL~h~~~~~a~~ 284 (307)
++. ..-..+-.+..++|-++|++
T Consensus 143 d~~------~av~~~~~l~~~lP~llALs 165 (373)
T PRK13516 143 SGD------DALYLLHGLSRYVPHFIALS 165 (373)
T ss_pred CHH------HHHHHHHHHHhHhHHHHHHH
Confidence 631 24455556666667777776
No 14
>PLN02611 glutamate--cysteine ligase
Probab=97.57 E-value=0.0017 Score=64.76 Aligned_cols=135 Identities=16% Similarity=0.118 Sum_probs=86.7
Q ss_pred cCCccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHH--------------HHHHcCCe
Q 021842 120 VAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYK--------------ACLYAGIN 185 (307)
Q Consensus 120 ~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~--------------~l~~~Gi~ 185 (307)
-+=...+|+|+|.++++.++. .|. +| . . ...+++.+.+ .|..-|
T Consensus 64 ~~~~~~iG~E~E~f~~~~~~~---------~pv---~y-~------~-i~~lL~~l~~~~gw~~~~e~g~iIgl~~~g-- 121 (482)
T PLN02611 64 PKEKWRIGTEHEKFGFELATL---------RPM---KY-D------Q-IAQLLEGLAERFGWEKIMEGDNIIGLKQDG-- 121 (482)
T ss_pred CCCCCeeEEeeeeeeccCCCC---------CCC---CH-H------H-HHHHHHHHHHhcCCceeccCCceecccCCC--
Confidence 456689999999999987532 111 12 1 1 2345554432 111112
Q ss_pred eeeecCCcCCCceEEEcCCC-hhhHHHHHHHHHHHHHHHHHHHcCcEE--------------EecccCc----------C
Q 021842 186 ISGINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILERITEIAGVVL--------------SFDPKPI----------Q 240 (307)
Q Consensus 186 ve~~h~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~A--------------TFmpKP~----------~ 240 (307)
..+-=|-| ||+|++..+. +.-++++.+...+..++++|+++|+.. ..||||- .
T Consensus 122 -~~ITlEPG-gQiElSt~p~~si~e~~~el~~~~~~l~~~a~~~Gl~l~g~G~hP~~~~~~~~i~pk~RY~~M~~y~~~~ 199 (482)
T PLN02611 122 -QSVSLEPG-GQFELSGAPLETLHQTCAEVNSHLYQVKAVAEEMGIGFLGIGFQPKWSVADIPIMPKGRYKIMRNYMPKV 199 (482)
T ss_pred -CceEeccc-ceEEecccCcCCHHHHHHHHHHHHHHHHHHHHHcCCCeEccCCCCCCccccccCCCChHHHHHHHHHHHh
Confidence 23444777 9999999997 688899999999999999999999952 2333332 0
Q ss_pred C----CC--CCceeeEEEeccCCCCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 021842 241 G----DW--NGAGAHANYSTKSMRNDGGFEVIKKAIEKLGLRHSEHIAAY 284 (307)
Q Consensus 241 g----d~--~GsG~H~H~SL~~g~n~~gls~~~~fiaGlL~h~~~~~a~~ 284 (307)
| +. .-+|+|||+.+.+.. .+-.-+--+....|-++++|
T Consensus 200 g~~g~~MM~~t~g~QVhvd~~see------d~v~~~~~~~~l~Pvl~ALf 243 (482)
T PLN02611 200 GSLGLDMMFRTCTVQVNLDFSSEQ------DMVRKFRVGLALQPIATALF 243 (482)
T ss_pred hhhhhhhccceEEEEEEecCCCHH------HHHHHHHHHHHHHHHHHHHH
Confidence 0 11 357899999887621 13344445566778777777
No 15
>PRK13518 carboxylate-amine ligase; Provisional
Probab=97.38 E-value=0.0029 Score=61.00 Aligned_cols=92 Identities=17% Similarity=0.065 Sum_probs=66.3
Q ss_pred eeecCCcCCCceEEEcCCC-hhhHHHHHHHHHHHHHHHHHHHcCcEE--------------EecccCc----------CC
Q 021842 187 SGINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILERITEIAGVVL--------------SFDPKPI----------QG 241 (307)
Q Consensus 187 e~~h~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~A--------------TFmpKP~----------~g 241 (307)
..+++|...+|.||+..+. +.-++.+++...|..+..+|+++|+.. ..+|||- ..
T Consensus 49 ~~~~~El~~~qvEi~T~~~~~~~el~~~L~~~r~~l~~aa~~~g~~l~a~GthP~~~~~~~~~t~~~RY~~m~~~~~~~~ 128 (357)
T PRK13518 49 GRLDHELFKFVIETQTPLIEDPSEAGAALREVRDALVDHAAAHGYRIAAAGLHPAAKWRELEHAEKPRYRSQLDRIQYPQ 128 (357)
T ss_pred CcccccccCceEEEcCcCcCCHHHHHHHHHHHHHHHHHHHHHcCCEEEecCCCCCCCccccCCCCCcHHHHHHHhcccch
Confidence 4688999999999999997 788899999999999999999999962 2334431 00
Q ss_pred -CCCCceeeEEEeccCCCCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 021842 242 -DWNGAGAHANYSTKSMRNDGGFEVIKKAIEKLGLRHSEHIAAY 284 (307)
Q Consensus 242 -d~~GsG~H~H~SL~~g~n~~gls~~~~fiaGlL~h~~~~~a~~ 284 (307)
...-+|+|||+.+-+.. ..-..+-.+.-++|-++|++
T Consensus 129 ~~~~~~G~HVHVg~~d~d------~av~v~n~lr~~LP~LlALs 166 (357)
T PRK13518 129 HRNTTAGLHVHVGVDDAD------KAVWIANELRWHLPILLALS 166 (357)
T ss_pred hcceeeEEEEEeCCCCHH------HHHHHHHHHHhHHHHHHHHH
Confidence 11247999999886521 12222344445567777776
No 16
>PRK13515 carboxylate-amine ligase; Provisional
Probab=97.22 E-value=0.0045 Score=60.00 Aligned_cols=131 Identities=15% Similarity=0.067 Sum_probs=85.5
Q ss_pred ccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEc
Q 021842 123 EPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQV 202 (307)
Q Consensus 123 ~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l 202 (307)
.+.+|+|.||++.++... .+. + . ..+++... ... .-..+.+|...+|.||+.
T Consensus 5 ~~t~GvE~E~~lVD~~t~---------~l~---------~--~--~~~~l~~~----~~~--~~~~i~~El~~~qiEi~T 56 (371)
T PRK13515 5 EFTLGIEEEYLLVDPETR---------DLR---------S--Y--PDALVEAC----RDT--LGEQVKPEMHQSQVEVGT 56 (371)
T ss_pred CCcceEeEeEEEecCCcc---------ccc---------c--c--HHHHHHhc----hhh--cCCccCcchhccEEEECC
Confidence 468999999999998531 110 0 0 02344332 221 123788999999999999
Q ss_pred CCC-hhhHHHHHHHHHHHHHHHHHHHcCcEEE---ecccCcC------------------C----CCCCceeeEEEeccC
Q 021842 203 GPA-VGISAGDQLWVARYILERITEIAGVVLS---FDPKPIQ------------------G----DWNGAGAHANYSTKS 256 (307)
Q Consensus 203 ~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~AT---FmpKP~~------------------g----d~~GsG~H~H~SL~~ 256 (307)
.|. +.-++.+.+...+..+.++|+++|+... ..|.... + ...-+|+|+|+++.+
T Consensus 57 ~p~~~~~el~~~L~~~~~~l~~~a~~~g~~l~~~G~~P~~~~~~~~~t~~~RY~~m~~~~~~~~~~~~~~g~HVhv~~~d 136 (371)
T PRK13515 57 PVCATIAEAREELGRLRQRVAQLAAQFGLRIIAAGTHPFADWRRQEITPKERYAQLVEDLQDVARRNLICGLHVHVGIPD 136 (371)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHHHHcCCEEEeccCCCCCCCccCCCCCchHHHHHHHHHHHHHHhhceeeeEEEeCCCC
Confidence 996 6777889999999999999999999763 2232100 0 123469999999986
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHhHhCCCC
Q 021842 257 MRNDGGFEVIKKAIEKLGLRHSEHIAAYGEGN 288 (307)
Q Consensus 257 g~n~~gls~~~~fiaGlL~h~~~~~a~~~~ns 288 (307)
+. ....++..+...+|-+.++ +.||
T Consensus 137 ~e------~~~~~~n~~~~~lP~llAL-sanS 161 (371)
T PRK13515 137 RE------DRIDLMNQVRYFLPHLLAL-STSS 161 (371)
T ss_pred HH------HHHHHHHHHHHHHHHHHHH-HcCC
Confidence 32 2444555666666655555 3444
No 17
>PF04107 GCS2: Glutamate-cysteine ligase family 2(GCS2); InterPro: IPR006336 Also known as gamma-glutamylcysteine synthetase and gamma-ECS (6.3.2.2 from EC). This enzyme catalyses the first and rate limiting step in de novo glutathione biosynthesis. Members of this family are found in archaea, bacteria and plants. May and Leaver [] discuss the possible evolutionary origins of glutamate-cysteine ligase enzymes in different organisms and suggest that it evolved independently in different eukaryotes, from an ancestral bacterial enzyme. They also state that Arabidopsis thaliana (Mouse-ear cress) gamma-glutamylcysteine synthetase is structurally unrelated to mammalian, yeast and Escherichia coli homologues. In plants, there are separate cytosolic and chloroplast forms of the enzyme.; GO: 0004357 glutamate-cysteine ligase activity, 0006750 glutathione biosynthetic process; PDB: 1R8G_A 2GWC_E 2GWD_A 1TT4_B.
Probab=96.95 E-value=0.0052 Score=57.39 Aligned_cols=94 Identities=17% Similarity=0.128 Sum_probs=66.8
Q ss_pred eeeecCCcCCCceEEEcCCC-hhhHHHHHHHHHHHHHHHHHHHcCcEEE---ecc-----------c-------------
Q 021842 186 ISGINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILERITEIAGVVLS---FDP-----------K------------- 237 (307)
Q Consensus 186 ve~~h~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~AT---Fmp-----------K------------- 237 (307)
-..+++|...+|.||+..|. +.-++.+.+...+..+.++|+++|+... +.| |
T Consensus 34 ~~~~~~E~~~~qvEi~t~p~~~~~el~~~l~~~~~~l~~~a~~~g~~l~~~G~~P~~~~~~~~~~~~~RY~~~~~~~~~~ 113 (288)
T PF04107_consen 34 GGRVVTELPQSQVEISTPPCRSLAELREELRALRRALADAAAELGLRLVAAGTHPFARWRDQPITPKPRYRAMAEYFGRR 113 (288)
T ss_dssp SSEEEEESSTTEEEEE--SBSSHHHHHHHHHHHHHHHHHHHHCTTEEEE--SB-SS--GGGS---S-HHHHCHHHHHGGH
T ss_pred CCceeeccCCCEEEEeCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCEEEecCCCcCCCcccccCCCChhhhHHHHHHhhh
Confidence 34788899999999999996 6778999999999999999999998732 222 2
Q ss_pred -CcCCCCCCceeeEEEeccCCCCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 021842 238 -PIQGDWNGAGAHANYSTKSMRNDGGFEVIKKAIEKLGLRHSEHIAAY 284 (307)
Q Consensus 238 -P~~gd~~GsG~H~H~SL~~g~n~~gls~~~~fiaGlL~h~~~~~a~~ 284 (307)
++..+..-+|+|+|+++-++.. ..-..+..+...+|-+.+++
T Consensus 114 g~~~~~~~~~g~hvhV~v~~~~e-----~~v~~~n~~~~~~P~llALs 156 (288)
T PF04107_consen 114 GVLARRMMTCGAHVHVGVDDGDE-----AAVRVMNALRPWLPVLLALS 156 (288)
T ss_dssp -SGCCSHHBHEEEEEEEESSSHH-----HHHHHHHHHHTTHHHHHHHH
T ss_pred hhhhhhhhhcccceEEeCCCccH-----HHHHHHHHHHHHhHHHHHHH
Confidence 1111224469999999987421 12356666677777777777
No 18
>TIGR02048 gshA_cyano glutamate--cysteine ligase, cyanobacterial, putative. This family consists of proteins believed (see Copley SD, Dhillon JK, 2002) to be the glutamate--cysteine ligases of several cyanobacteria, which are known to make glutathione.
Probab=96.93 E-value=0.0096 Score=57.84 Aligned_cols=91 Identities=15% Similarity=0.048 Sum_probs=65.6
Q ss_pred eecCCcCCCceEEEcCCC-hhhHHHHHHHHHHHHHHHHHHHcCc-E-E-----Eeccc----CcCC--------------
Q 021842 188 GINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILERITEIAGV-V-L-----SFDPK----PIQG-------------- 241 (307)
Q Consensus 188 ~~h~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl-~-A-----TFmpK----P~~g-------------- 241 (307)
.+.+|.-..|.|++..+. +.-++.+++.-.|..+..+|.++|. . + .||.- |...
T Consensus 31 ~~~~El~~~~IE~~T~~~~~~~el~~~L~~~r~~l~~~a~~~g~~~l~a~gthP~~~~~~~~~~t~~~rY~~~~~~~~~~ 110 (376)
T TIGR02048 31 GFVREPDSRNVEYTTPPLNSYDRLLCGLLRPRRQLRHYLSQLGDYTLIPGSTLSLGGTDRFYRSDPQNPYHTYIEQTYGT 110 (376)
T ss_pred CCccchhhcEEEecCCCcCCHHHHHHHHHHHHHHHHHHHHHcCCCeeeecccCCCCCCCccCcCCCcchHHHHHHHHhhh
Confidence 455688899999999996 7788999999999999999999997 3 1 12221 1110
Q ss_pred CCCCceeeEEEeccCCCCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 021842 242 DWNGAGAHANYSTKSMRNDGGFEVIKKAIEKLGLRHSEHIAAY 284 (307)
Q Consensus 242 d~~GsG~H~H~SL~~g~n~~gls~~~~fiaGlL~h~~~~~a~~ 284 (307)
...=+|+|||+.+-|+. .+-..+..|.-++|-+.|+.
T Consensus 111 ~~~i~G~HVHVgv~d~d------~av~v~n~lr~~LP~LlALS 147 (376)
T TIGR02048 111 QVVTASVHINIGIPDPE------ELMRACRLVRMEAPLFLALS 147 (376)
T ss_pred hheeeEEEEEcCCCCHH------HHHHHHHHHHHHHHHHHHHh
Confidence 11247899999998732 35666677777777766665
No 19
>TIGR01436 glu_cys_lig_pln glutamate--cysteine ligase, plant type. This model represents one of two highly dissimilar forms of glutamate--cysteine ligase (gamma-glutamylcysteine synthetase), an enzyme of glutathione biosynthesis. The other type is modeled by TIGR01434. This type is found in plants (with a probable transit peptide), root nodule and other bacteria, but not E. coli and closely related species.
Probab=95.42 E-value=0.15 Score=50.59 Aligned_cols=91 Identities=21% Similarity=0.203 Sum_probs=61.4
Q ss_pred cCCccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCe-------e------
Q 021842 120 VAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGIN-------I------ 186 (307)
Q Consensus 120 ~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~-------v------ 186 (307)
-+=..++|+|.|-++|+.++.. |. +|. . . .. ...+++.+.. ..|++ |
T Consensus 18 ~~~~~~iG~E~E~f~~~~~~~~---------~~---~y~-~-~--~g-i~~~l~~l~~---~~g~~~~~e~g~~i~l~~~ 77 (446)
T TIGR01436 18 PKEQWRIGTEHEKFGFEKNTLR---------PM---KYE-Q-K--GG-IAELLNGIAE---RFGWQKVMEGDKIIGLKQD 77 (446)
T ss_pred cCCCCceEeeeeeeeeecCCCC---------CC---CCC-C-c--hh-HHHHHHHHHh---hcCCceeccCCceeeecCC
Confidence 3457899999999999876421 11 121 1 0 11 2355555421 22211 0
Q ss_pred -eeecCCcCCCceEEEcCCC-hhhHHHHHHHHHHHHHHHHHHHcCcE
Q 021842 187 -SGINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILERITEIAGVV 231 (307)
Q Consensus 187 -e~~h~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~ 231 (307)
..+--|-| ||+|++..|. +.-++++.+...+..++++|+++|+.
T Consensus 78 ~~~itlEPg-gQlElS~~p~~~i~e~~~~l~~~~~~l~~~a~~~Gl~ 123 (446)
T TIGR01436 78 KQSISLEPG-GQFELSGAPLETIHETCDEINSHLYQVKEVAEEMGIG 123 (446)
T ss_pred CCeEEEcCc-CeEEecccccCCHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 23344666 9999999997 67889999999999999999999996
No 20
>COG2170 Uncharacterized conserved protein [Function unknown]
Probab=92.23 E-value=0.48 Score=45.26 Aligned_cols=126 Identities=19% Similarity=0.183 Sum_probs=79.5
Q ss_pred cEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeeeeec--CCcCCCceEEE
Q 021842 124 PWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGIN--GEVMPGQWEFQ 201 (307)
Q Consensus 124 ~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h--~E~gpGQ~Ei~ 201 (307)
++.|+|.|||+.++... +..... ..+++.+ .=++...| +|.=-.+-|+.
T Consensus 3 ltlGvE~E~~lvd~~g~------------------dl~~~s----~~ii~~~-------~~~~~~~~~~~e~~e~~vE~~ 53 (369)
T COG2170 3 LTLGVELEFQLVDPQGY------------------DLVGSS----DAIIEAL-------KGKVTAGHLKHEITESTVELA 53 (369)
T ss_pred cccceEEEEEecCCCCc------------------cccccc----HHHHHhc-------CCCCCCcchhHHHHHHhhccc
Confidence 57899999999987531 111110 2343332 22333333 66656678888
Q ss_pred cCCChhh-HHHHHHHHHHHHHHHHHHHcCcEEE--------------ecccC-c----C--C----CCCCceeeEEEecc
Q 021842 202 VGPAVGI-SAGDQLWVARYILERITEIAGVVLS--------------FDPKP-I----Q--G----DWNGAGAHANYSTK 255 (307)
Q Consensus 202 l~~~~~l-~aaD~~~~~k~~ik~vA~~~Gl~AT--------------FmpKP-~----~--g----d~~GsG~H~H~SL~ 255 (307)
..+.+.+ +|+=.+--.|..+++.|..|||... =-+|| + . | ...=-|.|||+.+-
T Consensus 54 t~vc~~~~eA~~~~r~~r~~l~q~a~d~gL~~~~~GtHPfadw~~~~~~~~prY~~~ie~~~y~~~q~~v~G~HVHVGi~ 133 (369)
T COG2170 54 TGVCRLLAEAAAQLRALRDYLVQAASDHGLRICGGGTHPFADWRRQEVPDNPRYQRLIERTGYLGRQMTVAGQHVHVGIP 133 (369)
T ss_pred chhhhhHHHHHHHHHHHHHHHHHHhhhcCceecccCCCchhhhhhccCCCChhHHHHHHHhhhHHhheeeeeEEEEecCC
Confidence 8887544 4566666788999999999999842 12333 0 0 0 01125889999887
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHhHh
Q 021842 256 SMRNDGGFEVIKKAIEKLGLRHSEHIAAY 284 (307)
Q Consensus 256 ~g~n~~gls~~~~fiaGlL~h~~~~~a~~ 284 (307)
++. ..-..+-+++.++|-++|+.
T Consensus 134 ~~d------~~~~~l~~l~~~~PhlLALS 156 (369)
T COG2170 134 SPD------DAMYLLHRLLRYVPHLLALS 156 (369)
T ss_pred CHH------HHHHHHHHHHhhhhHHHhhh
Confidence 722 35677888999999888876
No 21
>TIGR03444 gshA_related glutamate--cysteine ligase family protein. Members of this bacterial protein family bear homology to glutamate--cysteine ligase, an enzyme in the two-step pathway of glutathione (GSH) biosynthesis, but are distinctly different. Among the bacterial genomes that carry the uncharacterized methyltransferase (TIGR03438) and conserved hypothetical protein TIGR03440, this protein is found in a subset, always in the vicinity of these other genes. Conserved hypothetical protein TIGR03442 is found in these same genomes. The role of this cassette is probably biosynthetic, but the product is unknown.
Probab=90.72 E-value=1.1 Score=43.67 Aligned_cols=68 Identities=24% Similarity=0.106 Sum_probs=50.9
Q ss_pred ecCCcCCCceEEEcCCC-hhhHHHHHHHHHHHHHHHHHHHcCcEE------------EecccC-----------cCC---
Q 021842 189 INGEVMPGQWEFQVGPA-VGISAGDQLWVARYILERITEIAGVVL------------SFDPKP-----------IQG--- 241 (307)
Q Consensus 189 ~h~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~A------------TFmpKP-----------~~g--- 241 (307)
+--|=| ||+|++..|. +.-++++.+...+..++++|+++|+.. ..|||| ..|
T Consensus 64 iTlEPG-gQvELSt~P~~sl~el~~el~~~l~~l~~~a~~~Gl~lva~G~~P~~~~~~itpk~RY~~M~~~~~~~~G~~G 142 (390)
T TIGR03444 64 ITVEPG-GQLELSGPPADGLTAAVAALAADLAVLRAALAEDGLALVGLGADPLRPPRRVLPGPRYRAMEQFFATGIGPFG 142 (390)
T ss_pred EEeCCC-CEEEecCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCEEEEeccCCCCCccCCCchHHHHHHHHHhhhccCchH
Confidence 333644 8999999997 778899999999999999999999963 223332 111
Q ss_pred -CCCCceeeEEEeccCC
Q 021842 242 -DWNGAGAHANYSTKSM 257 (307)
Q Consensus 242 -d~~GsG~H~H~SL~~g 257 (307)
+...+|+|+|++|..+
T Consensus 143 ~~MM~~tasVQV~ld~~ 159 (390)
T TIGR03444 143 ALMMCSTASVQVNLDAG 159 (390)
T ss_pred HHHhhCceeEEEccCCC
Confidence 1135889999999775
No 22
>PF06877 RraB: Regulator of ribonuclease activity B; InterPro: IPR009671 This entry occurs in several hypothetical bacterial proteins of around 120 residues in length. The function of these proteins is unknown. The protein structure has been determined for one member of this group, the hypothetical protein VCO424 from Vibrio cholerae; it has an alpha+beta sandwich fold.; PDB: 1NXI_A.
Probab=88.48 E-value=3.4 Score=32.21 Aligned_cols=95 Identities=9% Similarity=0.032 Sum_probs=56.2
Q ss_pred HHHHHHHHHHHhhhcCCccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCe
Q 021842 106 KRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGIN 185 (307)
Q Consensus 106 PR~~L~~~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ 185 (307)
|+..-+++++.+++.|..+..-.++||++.-++. +-++++...+.+.|..
T Consensus 2 ~~~~n~~vl~~L~~~Gddl~~~r~ieh~~~f~~~------------------------------~~~~~f~~~~~~~g~~ 51 (104)
T PF06877_consen 2 QIIENREVLEALEEDGDDLSKPRPIEHWFYFEDE------------------------------EDAEKFAEELEKLGYE 51 (104)
T ss_dssp HHHHHHHHHHHHHHHT--TTS-EEEEEEEEES-H------------------------------HHHHHHHHHHHHHS--
T ss_pred cHHHHHHHHHHHHhcCCCCCCCeEEEEEEEeCCH------------------------------HHHHHHHHHHHHCCCE
Confidence 3455678999999999999999999998875431 2233344455889999
Q ss_pred eeeecC--CcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcE
Q 021842 186 ISGING--EVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVV 231 (307)
Q Consensus 186 ve~~h~--E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ 231 (307)
|+.... |-+.+.|.+.+.....+...+ +.-.-.-+-.+|+++|..
T Consensus 52 v~~~~~~~~d~~~~~~~~~~~~~~~~~~~-I~~~~~~l~~lA~~~~g~ 98 (104)
T PF06877_consen 52 VESAEEDEEDGDGPYCLDISREMVLDYED-INAITQELEDLAKEFGGE 98 (104)
T ss_dssp -B----B-SS-SSBEEEEEEEEE-S-HHH-HHHHHHHHHHHHHHHT-E
T ss_pred EEEeecccCCCCceEEEEEEEecCCCHHH-HHHHHHHHHHHHHHhCcE
Confidence 988775 677889999998877664433 444445556777777754
No 23
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR in
Probab=87.97 E-value=1.4 Score=32.41 Aligned_cols=65 Identities=25% Similarity=0.243 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCC------CceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecc
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMP------GQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDP 236 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gp------GQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmp 236 (307)
.++.+|.+.|.+.|++|..+..+..+ ++|.+.+.-.-+ ...| .-.++.-++++|++.|+.++|.|
T Consensus 11 Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p-~~~~-~~~l~~~l~~l~~~~~~~~~~~~ 81 (81)
T cd04869 11 GIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALP-AGTD-LDALREELEELCDDLNVDISLEP 81 (81)
T ss_pred CHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecC-CCCC-HHHHHHHHHHHHHHhcceEEecC
Confidence 57888888999999999999776655 777655544433 1222 45778888999999999988854
No 24
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=84.63 E-value=3.2 Score=30.52 Aligned_cols=62 Identities=23% Similarity=0.225 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEe
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSF 234 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATF 234 (307)
.++.++.+.|.+.|.+|+.++.-.-.|+|-+.+.-.-+ .|+.-.++..+++++++.|+.+.|
T Consensus 14 Giv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~---~~~~~~l~~~L~~l~~~~~l~v~v 75 (76)
T PF13740_consen 14 GIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIP---EDSLERLESALEELAEELGLDVSV 75 (76)
T ss_dssp THHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEES---HHHHHHHHHHHHHHHHHTT-EEEE
T ss_pred cHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeC---cccHHHHHHHHHHHHHHCCcEEEE
Confidence 58888899999999999999999989999888776544 556778899999999999999876
No 25
>COG3572 GshA Gamma-glutamylcysteine synthetase [Coenzyme metabolism]
Probab=80.67 E-value=1.5 Score=42.59 Aligned_cols=45 Identities=22% Similarity=0.185 Sum_probs=35.2
Q ss_pred ecCCcCCCceEEEcCCChhh-HHHHHHHHHHHHHHHHHHHcCcEEEe
Q 021842 189 INGEVMPGQWEFQVGPAVGI-SAGDQLWVARYILERITEIAGVVLSF 234 (307)
Q Consensus 189 ~h~E~gpGQ~Ei~l~~~~~l-~aaD~~~~~k~~ik~vA~~~Gl~ATF 234 (307)
+--|.| ||||++..|.+.+ ++|-+.-.--.+||++|...|+...+
T Consensus 91 IslEpg-gq~Elsgapletihq~~~e~n~hlavlr~~a~~~gl~fvG 136 (456)
T COG3572 91 ISLEPG-GQFELSGAPLETIHQTCGEMNQHLAVLREIAAELGLGFVG 136 (456)
T ss_pred EEeccC-ceEEecCCchHHHHHHHHHHHHHHHHHHHHHHhcCCceEe
Confidence 334777 9999999998765 46666666778899999999987554
No 26
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein. This CD, ACT_1ZPV, includes those single ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein (pdb structure 1ZPV). Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=78.23 E-value=4 Score=30.73 Aligned_cols=67 Identities=16% Similarity=0.167 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEeccc
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPK 237 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpK 237 (307)
.++.++.+.+.+.|++|..++...-.|+|.+.+.-.-+ ...++.-.++.-+++++.+.|+..++-+.
T Consensus 13 Giva~vt~~la~~g~nI~~~~~~~~~~~f~~~~~v~~~-~~~~~~~~L~~~l~~l~~~~~l~~~i~~~ 79 (88)
T cd04872 13 GIVAGVSTKLAELNVNILDISQTIMDGYFTMIMIVDIS-ESNLDFAELQEELEELGKELGVKIRIQHE 79 (88)
T ss_pred CHHHHHHHHHHHcCCCEEechhHhhCCccEEEEEEEeC-CCCCCHHHHHHHHHHHHHHcCCEEEEEhH
Confidence 57888888999999999999999888888776655433 11344667889999999999999988553
No 27
>KOG0558 consensus Dihydrolipoamide transacylase (alpha-keto acid dehydrogenase E2 subunit) [Energy production and conversion]
Probab=77.95 E-value=2.1 Score=41.02 Aligned_cols=53 Identities=26% Similarity=0.231 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHc-CCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEeccc
Q 021842 169 RDIVDSHYKACLYA-GINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPK 237 (307)
Q Consensus 169 ~~~l~~i~~~l~~~-Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpK 237 (307)
+.|-..+++.|.++ -||=-.+..|. .+|.++.+|+-+|++|.+.|+..||||-
T Consensus 249 rGf~rAMvKtMt~alkiPHF~y~dEI----------------n~~sLvklr~elk~~a~e~~IKltfmPf 302 (474)
T KOG0558|consen 249 RGFSRAMVKTMTEALKIPHFGYVDEI----------------NCDSLVKLRQELKENAKERGIKLTFMPF 302 (474)
T ss_pred hhHHHHHHHHHHHHhcCCcccccccc----------------ChHHHHHHHHHHhhhhhhcCceeeehHH
Confidence 45555666666543 45433333332 5899999999999999999999999995
No 28
>PRK00194 hypothetical protein; Validated
Probab=77.67 E-value=4.5 Score=30.47 Aligned_cols=66 Identities=15% Similarity=0.186 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecc
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDP 236 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmp 236 (307)
.++.++.+.|.+.|++|..++.....|.|.+.+.-.-+ ...++.-.++.-+++++.+.|+.++|-+
T Consensus 15 Giva~vt~~la~~g~nI~~~~~~~~~~~~~~~~~v~~~-~~~~~~~~l~~~l~~l~~~~~~~~~~~~ 80 (90)
T PRK00194 15 GIIAGVSTVLAELNVNILDISQTIMDGYFTMIMLVDIS-ESKKDFAELKEELEELGKELGVKIRIQH 80 (90)
T ss_pred CHHHHHHHHHHHcCCCEEehhhHhhCCeeEEEEEEEec-CCCCCHHHHHHHHHHHHHHcCCEEEEEh
Confidence 58888889999999999999999888888774332211 1122345677888999999999998843
No 29
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=77.18 E-value=6.8 Score=28.52 Aligned_cols=65 Identities=14% Similarity=0.128 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecc
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDP 236 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmp 236 (307)
.++.++.+.+.+.|++|+.++.-.-.|+|-+.+.-.-+-. .+.-.++..+...+++.|+.++.-|
T Consensus 11 Giv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~~v~~p~~--~~~~~l~~~l~~l~~~l~l~i~~~~ 75 (75)
T cd04870 11 GLTSALTEVLAAHGVRILDVGQAVIHGRLSLGILVQIPDS--ADSEALLKDLLFKAHELGLQVRFEP 75 (75)
T ss_pred CHHHHHHHHHHHCCCCEEecccEEEcCeeEEEEEEEcCCC--CCHHHHHHHHHHHHHHcCceEEEeC
Confidence 5788888999999999999977777787777654432211 1355678899999999999988643
No 30
>TIGR02778 ligD_pol DNA polymerase LigD, polymerase domain. DNA repair of double-stranded breaks by non-homologous end joining (NHEJ) is accomplished by a two-protein system that is present in a minority of prokaryotes. One component is the Ku protein (see TIGR02772), which binds DNA ends. The other is a DNA ligase, a protein that is a multidomain polypeptide in most of those bacteria that have NHEJ, a permuted polypeptide in Mycobacterium tuberculosis and a few other species, and the product of tandem genes in some other bacteria. This model represents the polymerase domain.
Probab=74.55 E-value=26 Score=32.10 Aligned_cols=56 Identities=20% Similarity=0.321 Sum_probs=43.7
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
-|-+.-|+|.|.++..-+| ++-+=..+|++..+.||.+ | || . ..|.|+||.+-|..
T Consensus 113 ~PD~lvfDLDP~~~~~f~~-v~~~A~~~r~~L~~lgL~~-f-~K--T--SG~kGlHV~vPl~~ 168 (245)
T TIGR02778 113 KPDRIVFDLDPGPGVAWKL-VVEAAQLIRELLDELGLES-F-VK--T--SGGKGLHVYVPLRP 168 (245)
T ss_pred CCCEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHcCCcc-c-eE--c--cCCCeEEEEEECCC
Confidence 4889999999998765444 4555567899999999973 4 66 2 46899999999976
No 31
>cd04866 LigD_Pol_like_3 LigD_Pol_like_3: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 3. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated repair DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=69.25 E-value=43 Score=30.29 Aligned_cols=56 Identities=18% Similarity=0.194 Sum_probs=44.1
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
-|-+.-|+|.|.+++.-.| ++-+=..+|++-.+.||.+ | || . ..|.|+||.+-|.+
T Consensus 92 ~PD~lvfDLDP~~~~~f~~-v~~~A~~vr~~L~~lgL~~-f-~K--T--SG~kGlHV~vPl~~ 147 (223)
T cd04866 92 KPSEIVFDLDPPSRDHFSL-AVEAANLLKEILDALGLTS-F-VK--T--SGNKGLQVYIPLPD 147 (223)
T ss_pred CCCeEEEECCCCCCCCHHH-HHHHHHHHHHHHHHcCCcc-c-eE--c--cCCCeEEEEEEcCC
Confidence 4899999999998764433 5566678899999999973 4 66 2 46899999999984
No 32
>cd04861 LigD_Pol_like LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. Mycobacterium tuberculosis (Mt)LigD, also found in this group, is monomeric and contains the same modules but these are arranged differently: an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase do
Probab=68.09 E-value=47 Score=30.13 Aligned_cols=56 Identities=25% Similarity=0.437 Sum_probs=44.0
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
-|-+.=|+|.|.+++.-.| ++-+=..+|++-.+.||.+ | || . ..|.|+||.+-|..
T Consensus 97 ~PD~lvfDLDP~~~~~f~~-v~~~A~~vr~~L~~lgL~~-f-~K--T--SG~kGlHV~vPl~~ 152 (227)
T cd04861 97 RPDRLVFDLDPGPGVPFED-VVEAALLLRELLDELGLES-F-PK--T--SGGKGLHVYVPLAP 152 (227)
T ss_pred CCCEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHcCCcc-c-eE--c--cCCCeEEEEEEcCC
Confidence 4899999999998864444 5566678899999999973 3 66 2 46899999999986
No 33
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=67.97 E-value=18 Score=26.51 Aligned_cols=64 Identities=13% Similarity=0.095 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEec
Q 021842 169 RDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFD 235 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFm 235 (307)
..++.++.+.|.+.|.+|.....-.-.|+|-+-+....+ .++.--++..++.+|++.|+.++-+
T Consensus 12 ~GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~~~~---~~~~~~l~~~l~~~~~~~~l~i~v~ 75 (77)
T cd04893 12 PGILNELTRAVSESGCNILDSRMAILGTEFALTMLVEGS---WDAIAKLEAALPGLARRLDLTLMMK 75 (77)
T ss_pred ChHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEEEec---cccHHHHHHHHHHHHHHcCCEEEEE
Confidence 368888999999999999998888888888776666533 1345577888899999999988753
No 34
>cd04863 MtLigD_Pol_like MtLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Mycobacterium tuberculosis (Mt)LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. MtLigD is monomeric and contains an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The MtLigD Pol domain is stimulated by manganese, is error-prone, and prefers adding rNTPs to dNTPs in vitro. The MtLigD Pol domain has been shown to prefer DNA gapped substrates
Probab=67.04 E-value=51 Score=30.00 Aligned_cols=56 Identities=18% Similarity=0.207 Sum_probs=43.6
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
-|-+.-|+|.|.+++.-.| ++-+=..+|++-.+.||.. | || . ..|.|+||.+-|..
T Consensus 101 ~PD~~vfDLDP~~~~~f~~-v~~~A~~~r~~L~~lgL~s-~-~K--T--SG~kGlHV~vPl~~ 156 (231)
T cd04863 101 PPDRLVFDLDPGEPAGLVE-CARVALWLRDRLAALGLAS-F-PK--T--SGSKGLHLYVPLDG 156 (231)
T ss_pred CCCEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHcCCcc-c-eE--C--CCCCeEEEEEEcCC
Confidence 4899999999998764444 4455567899999999973 4 66 2 46899999999986
No 35
>cd04862 PaeLigD_Pol_like PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The PaeLigD Pol domain in vitro, in a manganese-dependent fashion, catalyzes templated extensions of 5'-overhang duplex DNA, and nontemplated single-nu
Probab=66.48 E-value=53 Score=29.80 Aligned_cols=56 Identities=20% Similarity=0.318 Sum_probs=43.9
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
-|-+.-|+|.|.+++.-.| ++-+=..+|++..+.||.+ | || . ..|.|+|+.+-|..
T Consensus 97 ~PD~lvfDLDP~~~~~f~~-v~~~A~~~r~~L~~lgL~~-~-~K--T--SG~kGlHV~vPl~~ 152 (227)
T cd04862 97 RPDRIVFDLDPGPGVPWKA-VVEAALLVRELLDELGLES-F-VK--T--SGGKGLHVVVPLAP 152 (227)
T ss_pred CCCEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHcCCcc-c-eE--c--cCCCeEEEEEEcCC
Confidence 5899999999998764444 4566678899999999973 3 66 2 46899999999986
No 36
>cd04865 LigD_Pol_like_2 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=64.30 E-value=62 Score=29.39 Aligned_cols=56 Identities=18% Similarity=0.301 Sum_probs=44.2
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
-|-+.=|+|.|.+++.-.| ++-+=..+|++..+.||.+ | || . ..|.|+||-+-|..
T Consensus 98 ~PD~lvfDLDP~~~~~f~~-v~~~A~~vr~~L~~lgL~s-f-~K--T--SG~kGlHv~vPl~~ 153 (228)
T cd04865 98 HPDELVIDLDPQPGTSFED-VVEVALLVREVLDELGLRG-Y-PK--T--SGARGLHIYVPIAP 153 (228)
T ss_pred CCCEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHcCCcc-c-eE--c--cCCCeEEEEEEcCC
Confidence 3889999999998764444 5566678899999999973 4 66 2 46899999999976
No 37
>PRK11191 RNase E inhibitor protein; Provisional
Probab=59.26 E-value=1.1e+02 Score=25.66 Aligned_cols=93 Identities=13% Similarity=-0.005 Sum_probs=60.6
Q ss_pred HHHHHHHHHhhhcCCccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeee
Q 021842 108 HAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINIS 187 (307)
Q Consensus 108 ~~L~~~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve 187 (307)
..=+++++.|.+.|-.+..-.++|+++.-.+. +-++++...+.++|..|.
T Consensus 12 ~~~~eVi~~L~edGsd~~~~~~IEH~~~f~d~------------------------------~~lek~a~~a~klGyeV~ 61 (138)
T PRK11191 12 EETREIIEELLEDGSDPDALYTIEHHFSADDF------------------------------DKLEKAAVEAFKLGYEVT 61 (138)
T ss_pred HHHHHHHHHHHHcCCCcCCCEEEEEEEecCCH------------------------------HHHHHHHHHHHHcCCeee
Confidence 33467888888899999888899988753321 233444445588999984
Q ss_pred e---ecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcE
Q 021842 188 G---INGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVV 231 (307)
Q Consensus 188 ~---~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ 231 (307)
. +-.|-+..-|-+.+.....+.+.+=- -.-.-+-.+|+++|..
T Consensus 62 ~~ee~e~edg~~~~~~~~~~e~~l~~e~I~-~~~~~L~~LA~k~~g~ 107 (138)
T PRK11191 62 DAEELELEDGDVIFCCDAVSEVALNAELID-AQVEQLLALAEKFDVE 107 (138)
T ss_pred cccccccCCCCeEEEEEEEecCCCCHHHHH-HHHHHHHHHHHHhCCC
Confidence 3 22455555777787777777655533 3334456678888763
No 38
>cd04864 LigD_Pol_like_1 LigD_Pol_like_1: Polymerase (Pol) domain of mostly bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 1. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=59.00 E-value=87 Score=28.44 Aligned_cols=55 Identities=16% Similarity=0.218 Sum_probs=43.6
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
-|-+.-|+|.|. +. .=++++-+=..+|++-.+.||.+ | || . ..|.|+|+.+-|..
T Consensus 99 ~PD~~vfDLDP~-~~-~f~~v~~~A~~~r~~L~~~gL~~-f-~K--T--SG~kGlHv~vPl~~ 153 (228)
T cd04864 99 HPDLMVFDLDPS-AD-DIEAVRTAALAVRELLDELGLPS-F-VK--T--TGSRGFHVVVPLDG 153 (228)
T ss_pred CCCEEEEecCCC-CC-CHHHHHHHHHHHHHHHHHcCCcc-c-eE--c--cCCCeEEEEEEcCC
Confidence 489999999998 33 44556677788999999999973 3 66 2 46899999999986
No 39
>PF04468 PSP1: PSP1 C-terminal conserved region; InterPro: IPR007557 The yeast polymerase suppressor 1 (PSP1) protein partially suppresses mutations in DNA polymerases alpha and delta []. The C-terminal half of PSP1 contains a domain, which is also found in several hypothetical proteins from both eukaryotic and prokaryotic sources: Crithidia fasciculata RBP45 and RBP33, subunits of the cycling sequence binding protein (CSBP) II. RBP45 and RBP33 proteins bind specifically to the cycling sequences present in several mRNAs that accumulate periodically during the cell cycle. RBP45 and RBP33 are phosphoproteins, which are phosphorylated differentially during progression through the cell cycle. Hypothetical proteins with high sequence similarity have been identified in other kinetoplastid organisms []. Bacillus subtilis yaaT protein, which plays a significant role in phosphorelay during initiation of sporulation. It is possible that the yaaT protein is also related to DNA replication. The sequence of the yaaT protein is widely conserved in prokaryotes (bacteria and archaea), but the functions of the protein are unknown []. The actual biological significance of the PSP1 C-terminal domain has not yet been clearly established.
Probab=58.68 E-value=14 Score=28.30 Aligned_cols=59 Identities=5% Similarity=-0.052 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEE
Q 021842 169 RDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVL 232 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~A 232 (307)
.+.+....+.+.+.|++++-+..|+--..--+.+-|. ||+-+-||.++|++++.++..+
T Consensus 25 ~~al~~c~~~~~~~~L~m~lvd~e~~~D~~k~~fyy~-----a~~rvDFR~Lvr~L~~~f~~RI 83 (88)
T PF04468_consen 25 EEALKFCRELVKELGLPMKLVDVEYQFDGSKLTFYYT-----AESRVDFRELVRDLAREFKTRI 83 (88)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEEEEEcCCCEEEEEEE-----eCCcCcHHHHHHHHHHHhCceE
Confidence 5677777778889999999999999877777788776 8888999999999999998775
No 40
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=57.88 E-value=6.5 Score=31.04 Aligned_cols=24 Identities=25% Similarity=0.253 Sum_probs=19.9
Q ss_pred HHcCCeeeeecCCcCCCceEEEcCC
Q 021842 180 LYAGINISGINGEVMPGQWEFQVGP 204 (307)
Q Consensus 180 ~~~Gi~ve~~h~E~gpGQ~Ei~l~~ 204 (307)
.++|-+|+++.-+ +|||||||+.-
T Consensus 55 ~a~ge~ietIrI~-~pG~YeiNl~~ 78 (112)
T COG3364 55 GAQGEPIETIRIL-RPGVYEINLES 78 (112)
T ss_pred hcccCcceEEEEe-cCceEEEehhh
Confidence 5678888988887 59999999864
No 41
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=52.94 E-value=35 Score=24.43 Aligned_cols=60 Identities=12% Similarity=-0.083 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHcCCeeeeecCC--cCCCceEEEcCCChhhHHH-HHHHHHHHHHHHHHHHcCcE
Q 021842 170 DIVDSHYKACLYAGINISGINGE--VMPGQWEFQVGPAVGISAG-DQLWVARYILERITEIAGVV 231 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E--~gpGQ~Ei~l~~~~~l~aa-D~~~~~k~~ik~vA~~~Gl~ 231 (307)
.++.+|.+.+.+.|+.|..++.- ...+.|.+.+.-..+ .. -+.-.++..+..+|.+.++.
T Consensus 11 Giv~~it~~l~~~g~nI~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~l~~~l~~l~~~l~~~ 73 (74)
T cd04875 11 GIVAAVSGFLAEHGGNIVESDQFVDPDSGRFFMRVEFELE--GFDLSREALEAAFAPVAAEFDMD 73 (74)
T ss_pred CHHHHHHHHHHHcCCCEEeeeeeecCCCCeEEEEEEEEeC--CCCCCHHHHHHHHHHHHHHcCCc
Confidence 58888889999999999999776 455666665554333 11 13556778888898887763
No 42
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=48.84 E-value=57 Score=23.50 Aligned_cols=48 Identities=21% Similarity=0.158 Sum_probs=34.1
Q ss_pred HHHHHHHHHHcCCeeeeecCCcCCCceEEEcCC--ChhhHHHHHHHHHHHHHHHHHHHcCc
Q 021842 172 VDSHYKACLYAGINISGINGEVMPGQWEFQVGP--AVGISAGDQLWVARYILERITEIAGV 230 (307)
Q Consensus 172 l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~--~~~l~aaD~~~~~k~~ik~vA~~~Gl 230 (307)
.+++.+.|+.+|+.++.. ....+++...+ .|....+| ++-+||+-+|+
T Consensus 21 ~~~i~~~L~~lg~~~~~~----~~~~~~v~vP~~R~Di~~~~D-------liEEiaR~yGY 70 (70)
T PF03484_consen 21 PEEIIKILKRLGFKVEKI----DGDTLEVTVPSYRFDIEHEED-------LIEEIARIYGY 70 (70)
T ss_dssp HHHHHHHHHHTT-EEEE-----CTTEEEEEEETTSTT-SSHHH-------HHHHHHHHHTG
T ss_pred HHHHHHHHHHCCCEEEEC----CCCEEEEEcCCCcCCcCcccH-------HHHHHHHHhCC
Confidence 356677789999999986 56778888766 47777777 56888888875
No 43
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=47.86 E-value=49 Score=22.46 Aligned_cols=51 Identities=16% Similarity=-0.010 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcC--CCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcE
Q 021842 170 DIVDSHYKACLYAGINISGINGEVM--PGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVV 231 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~g--pGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ 231 (307)
..+.++.+.+.+.|++|..+++... .|.-.+.+.-.+ ...+++..+++|+.
T Consensus 11 G~L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~ve~-----------~~~~~~~L~~~G~~ 63 (65)
T cd04882 11 GGLHEILQILSEEGINIEYMYAFVEKKGGKALLIFRTED-----------IEKAIEVLQERGVE 63 (65)
T ss_pred cHHHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEeCC-----------HHHHHHHHHHCCce
Confidence 3566666778999999976654222 344445444443 22345555667764
No 44
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=46.12 E-value=49 Score=23.55 Aligned_cols=48 Identities=15% Similarity=0.135 Sum_probs=32.6
Q ss_pred HHHHHHHHHcCCeeeeecCCcCCCceEEEcCCC--hhhHHHHHHHHHHHHHHHHHHHcCc
Q 021842 173 DSHYKACLYAGINISGINGEVMPGQWEFQVGPA--VGISAGDQLWVARYILERITEIAGV 230 (307)
Q Consensus 173 ~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~--~~l~aaD~~~~~k~~ik~vA~~~Gl 230 (307)
+++.+.|..+|+.++. .+. .+++++...+- |.+..+| ++.+||+-+|+
T Consensus 22 ~ei~~~L~~lg~~~~~--~~~-~~~~~v~~P~~R~Di~~~~D-------liEei~r~~Gy 71 (71)
T smart00874 22 EEIEEILKRLGFEVEV--SGD-DDTLEVTVPSYRFDILIEAD-------LIEEVARIYGY 71 (71)
T ss_pred HHHHHHHHHCCCeEEe--cCC-CCeEEEECCCCccccCcccH-------HHHHHHHHhCC
Confidence 3466778999999965 111 35677776663 5555555 67888888885
No 45
>PF14395 COOH-NH2_lig: Phage phiEco32-like COOH.NH2 ligase-type 2
Probab=43.78 E-value=41 Score=31.02 Aligned_cols=54 Identities=17% Similarity=0.126 Sum_probs=30.1
Q ss_pred EEEcCCC-hhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEec
Q 021842 199 EFQVGPA-VGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYST 254 (307)
Q Consensus 199 Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL 254 (307)
|+--.|+ +|.+..+++........+.....++.--==..|+.| ---|.|||+|=
T Consensus 52 ElRP~P~~~P~~L~~~i~~~l~~A~~~i~~~~l~W~AG~mP~~g--fp~GGHiHfsg 106 (261)
T PF14395_consen 52 ELRPAPSPDPAELFENIRRALREAARRIPDRSLEWLAGSMPFPG--FPLGGHIHFSG 106 (261)
T ss_pred ecCCCCCCCHHHHHHHHHHHHHHHHHhCCCCCceEecCCCCCCC--CCcCCeEEecC
Confidence 5555564 677777777655554444444444431111234453 34678999973
No 46
>PF12224 Amidoligase_2: Putative amidoligase enzyme; InterPro: IPR022025 This family of proteins are likely to act as amidoligase enzymes [] Protein in this family are found in conserved gene neighbourhoods encoding a glutamine amidotransferase-like thiol peptidase (in proteobacteria) or an Aig2 family cyclotransferase protein (in firmicutes) [].
Probab=43.12 E-value=2.2e+02 Score=25.31 Aligned_cols=82 Identities=16% Similarity=0.085 Sum_probs=47.1
Q ss_pred ceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccCCCCCCCHHHHHHHHHHHHHH
Q 021842 197 QWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKSMRNDGGFEVIKKAIEKLGLR 276 (307)
Q Consensus 197 Q~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~g~n~~gls~~~~fiaGlL~h 276 (307)
-+||.-.+...-+. +-.++.+++.+. ++|-. .. ..+.|.|||++...... .+...+..+.-++.+
T Consensus 77 ~~ElvSP~l~~~~~---~~~i~~~~~~lr-~~~~~-------~~--~~scg~HVHv~~~~~~~--~~~~l~~l~~~~~~~ 141 (252)
T PF12224_consen 77 PVELVSPPLPYDEE---LEEIDKVLEALR-RNGAI-------GT--NDSCGFHVHVGPEPPSF--SLETLKRLAKAFWLF 141 (252)
T ss_pred eEEEECCCcCchhh---HHHHHHHHHHHH-HcCCc-------cc--cCCeeEEEEECCCCCCc--cHHHHHHHHHHHHHH
Confidence 46887665433222 333444444443 33322 11 24499999998764210 144678888888887
Q ss_pred HHHHHhHhCCCCCcCCC
Q 021842 277 HSEHIAAYGEGNERRLT 293 (307)
Q Consensus 277 ~~~~~a~~~~nsy~RL~ 293 (307)
=+.+..+..++..+|..
T Consensus 142 E~~l~~~~~~~~~Rr~~ 158 (252)
T PF12224_consen 142 EPWLRRLLPPDRRRRNN 158 (252)
T ss_pred HHHHHHHcCCchhhccC
Confidence 77777777665555553
No 47
>PF01921 tRNA-synt_1f: tRNA synthetases class I (K); InterPro: IPR002904 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. Lysyl-tRNA synthetase (6.1.1.6 from EC) is an alpha 2 homodimer that belong to both class I and class II. In eubacteria and eukaryota lysyl-tRNA synthetases belong to class II in the same family as aspartyl tRNA synthetase. The class Ic lysyl-tRNA synthetase family is present in archaea and in a number of bacterial groups that include the alphaproteobacteria and spirochaetes[]. A refined crystal structures shows that the active site of LysU is shaped to position the substrates for the nucleophilic attack of the lysine carboxylate on the ATP alpha-phosphate. No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. A loop close to the catalytic pocket, disordered in the lysine-bound structure, becomes ordered upon adenine binding [].; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IRX_A.
Probab=39.19 E-value=1.7e+02 Score=28.42 Aligned_cols=144 Identities=17% Similarity=0.136 Sum_probs=70.4
Q ss_pred EEEEEEEEcCCCCCCCCCHHHHHHH-HHH-HhhhcCCccEEeeeeeEEEeccCCC----CCCCCCCC-CCCCCCCCcccc
Q 021842 88 ILVMCDAYTPAGEPIPTNKRHAAAK-IFS-HSDVVAEEPWYGIEQEYTLLQKDVK----WPLGWPIG-GYPGPQGPYYCG 160 (307)
Q Consensus 88 a~v~~d~~~~~G~p~~~~PR~~L~~-~~~-~~~~~G~~~~~g~E~EF~l~~~~~~----~~~~~~~~-~~~~~~~~~~~~ 160 (307)
-.|+..-+.+.|.|.-..-|.++.- ++. .|+++|.. .+|.++-.+-+ .|.+.|.. ......-+. +.
T Consensus 24 ~~v~~sG~sPSG~~HIGn~rEv~~~~~V~~al~~~g~~------~r~i~~~DD~D~lRKvP~~~p~~~~~~ylg~Pl-t~ 96 (360)
T PF01921_consen 24 PYVFASGISPSGLPHIGNFREVLRADMVARALRDRGKD------VRLIYFSDDMDPLRKVPPNVPNPELEKYLGKPL-TR 96 (360)
T ss_dssp EEEEEEEE--SS---HHHHHHHHHHHHHHHHHHTTT-E------EEEEEEE-TTSB-----TTS-CC-CCCCTTSBT-TT
T ss_pred cEEEecCCCCCCCcccccccchhhHHHHHHHHHHcCCC------EEEEEEeecCCcccCCCCCCChHHHHHhcCCcc-cc
Confidence 5677778889999998899999987 333 45778776 66766644322 11111100 000000000 11
Q ss_pred c----CcchhhHHHHHHHHHHHHHHcCCeeeeec--CCcCCCceEEEcCCChh-hHHHHHHHHHHHHHHHHHHHcCcEEE
Q 021842 161 V----GADKAWGRDIVDSHYKACLYAGINISGIN--GEVMPGQWEFQVGPAVG-ISAGDQLWVARYILERITEIAGVVLS 233 (307)
Q Consensus 161 ~----~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h--~E~gpGQ~Ei~l~~~~~-l~aaD~~~~~k~~ik~vA~~~Gl~AT 233 (307)
. ....+|.+.+...+.+.|+..||++|.+- .-+..|.| .+. ..+..+.-..+.++.++-.+. +..+
T Consensus 97 VPdP~G~~~SyaeH~~~~~~~~L~~~gie~e~~s~te~Y~sG~y------~~~i~~aL~~~~~I~~Il~~~~~~~-~~~~ 169 (360)
T PF01921_consen 97 VPDPFGCHESYAEHFNAPFEEFLDEFGIEYEFISQTEMYRSGRY------DEQIRTALENRDEIREILNEYRGRE-RPET 169 (360)
T ss_dssp SB-TTSSSSCHHHHHHHHHHHHHHTTT---EEEECCCCCCTTTT------HHHHCHHHHTHHHHHHHHHHHHHHT---TT
T ss_pred CCCCCCCCccHHHHHHHHHHHHHHHcCCceEEEeHHHhhhCCch------HHHHHHHHHhHHHHHHHHHHhcCcC-CCCC
Confidence 1 11235668899999999999999887653 23334533 332 234444545667776665444 6666
Q ss_pred ecc-cCcCCCCCCc
Q 021842 234 FDP-KPIQGDWNGA 246 (307)
Q Consensus 234 Fmp-KP~~gd~~Gs 246 (307)
+.| .|+. ..+|.
T Consensus 170 y~Pf~piC-~~cGr 182 (360)
T PF01921_consen 170 YSPFLPIC-EKCGR 182 (360)
T ss_dssp --SEEEEE-TTTEE
T ss_pred eeeeeeec-cccCC
Confidence 665 3555 34444
No 48
>cd02646 R3H_G-patch R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=38.79 E-value=36 Score=23.69 Aligned_cols=30 Identities=10% Similarity=0.170 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEecc
Q 021842 217 ARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTK 255 (307)
Q Consensus 217 ~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~ 255 (307)
-|.+|+++|+.+||.. ...|+|-+=|+.++
T Consensus 28 ~R~~vH~lA~~~~L~S---------~S~G~g~~R~v~v~ 57 (58)
T cd02646 28 GRKTIHKLANCYNLKS---------KSRGKGKKRFVTVT 57 (58)
T ss_pred HHHHHHHHHHHcCCcc---------cccccCCceEEEEE
Confidence 3578899999999973 35677877777664
No 49
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=38.26 E-value=14 Score=30.47 Aligned_cols=20 Identities=25% Similarity=0.373 Sum_probs=13.1
Q ss_pred CCeeeeecCCcCCCceEEEcC
Q 021842 183 GINISGINGEVMPGQWEFQVG 203 (307)
Q Consensus 183 Gi~ve~~h~E~gpGQ~Ei~l~ 203 (307)
+-.||++-=. +|||||+||.
T Consensus 83 ~~~iESIrI~-~pG~YElNL~ 102 (131)
T PF09845_consen 83 NDRIESIRIL-EPGSYELNLE 102 (131)
T ss_pred ccCcceEEEe-cCceEEecHH
Confidence 3444444433 6999999974
No 50
>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]
Probab=37.65 E-value=2.5e+02 Score=28.69 Aligned_cols=132 Identities=15% Similarity=0.138 Sum_probs=76.6
Q ss_pred EEEEEEEcCCCCCCCCCHHHHHHH-HHHH-hhhcCCccEEeeeeeEEEeccCCC----CC------------CCCCCCCC
Q 021842 89 LVMCDAYTPAGEPIPTNKRHAAAK-IFSH-SDVVAEEPWYGIEQEYTLLQKDVK----WP------------LGWPIGGY 150 (307)
Q Consensus 89 ~v~~d~~~~~G~p~~~~PR~~L~~-~~~~-~~~~G~~~~~g~E~EF~l~~~~~~----~~------------~~~~~~~~ 150 (307)
.++..-+.+.|.|.-.+-|.++.- ++.+ ++++|. |..|..+-.+-+ .+ .|.|.+..
T Consensus 21 ~~v~tGisPSG~~HIGn~rEv~t~d~V~ralr~~g~------~~r~I~~~DD~D~lRkvp~~lp~~~~~e~Ylg~Plt~I 94 (521)
T COG1384 21 YVVATGISPSGLIHIGNFREVLTADAVRRALRDRGD------EVRLIYISDDYDPLRKVPRNLPDPEELEQYLGMPLTEI 94 (521)
T ss_pred EEEecCcCCCCCcccccHHHHHHHHHHHHHHHHcCC------ceEEEEEccCCcccccCCCCCCChHHHHHHcCCccccC
Confidence 566667778999999999999886 4444 477887 666766644322 01 12222222
Q ss_pred CCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCc
Q 021842 151 PGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGV 230 (307)
Q Consensus 151 ~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl 230 (307)
|.+.| + ..+|.+.+...+++.|...||++|.+-+ .-||.=.+--.-...|.++---.+.++-.+-.+ -+
T Consensus 95 PdP~G-~------~~Sya~hf~~~f~~~l~~~Gi~~E~~s~---se~Yk~G~~~~~i~~ale~rdeI~~il~~~~~~-~~ 163 (521)
T COG1384 95 PDPFG-C------CDSYAEHFLRPFEEFLDEFGIEVEFVSA---TELYKSGLYDEAIRIALERRDEIMEILNEYRGR-EL 163 (521)
T ss_pred CCCcc-c------cchHHHHHHHHHHHHHHhcCCceEEEEh---HHhhhcccHHHHHHHHHhhHHHHHHHHHHhcCC-cc
Confidence 32222 2 2345678999999999999999998643 233333332222333445544445555444433 45
Q ss_pred EEEeccc
Q 021842 231 VLSFDPK 237 (307)
Q Consensus 231 ~ATFmpK 237 (307)
..+|.|=
T Consensus 164 ~e~~~P~ 170 (521)
T COG1384 164 EEDWSPF 170 (521)
T ss_pred cCCceec
Confidence 5565553
No 51
>PRK05972 ligD ATP-dependent DNA ligase; Reviewed
Probab=37.62 E-value=2.1e+02 Score=31.24 Aligned_cols=76 Identities=17% Similarity=0.256 Sum_probs=52.2
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccCCCCCCCHHHHHHHHHHH
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKSMRNDGGFEVIKKAIEKL 273 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~g~n~~gls~~~~fiaGl 273 (307)
-|.+.-|+|.|.+++.-. .++-+=..+|++..+.||. +| || . ..|.|+||.+-|...- .-...+.|.-.|
T Consensus 683 ~Pd~lvfDLDP~~~~~f~-~v~~aA~~~r~~L~~lgL~-sf-~K--T--SG~kGlHv~vPl~~~~---~~~~~~~fa~~i 752 (860)
T PRK05972 683 VPDRLVFDLDPGPGVPWK-AVVEAARLMRTRLDELGLE-SF-LK--T--SGGKGLHVVVPLARRL---DWDEVKAFAQAV 752 (860)
T ss_pred CCCEEEEECCCCCCCCHH-HHHHHHHHHHHHHHHcCCc-ee-eE--C--CCCCeEEEEEEcCCCC---CHHHHHHHHHHH
Confidence 488999999999876443 3556667789999999997 34 66 2 4689999999998522 112345555555
Q ss_pred HHHHHH
Q 021842 274 GLRHSE 279 (307)
Q Consensus 274 L~h~~~ 279 (307)
-.++.+
T Consensus 753 a~~l~~ 758 (860)
T PRK05972 753 CQHMAR 758 (860)
T ss_pred HHHHHH
Confidence 555443
No 52
>PF11679 DUF3275: Protein of unknown function (DUF3275); InterPro: IPR021693 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=37.40 E-value=27 Score=31.27 Aligned_cols=36 Identities=14% Similarity=0.111 Sum_probs=27.4
Q ss_pred EEEEEEEcCCCCCCCCCH---HHHHHHHHHHhhhcCCccE
Q 021842 89 LVMCDAYTPAGEPIPTNK---RHAAAKIFSHSDVVAEEPW 125 (307)
Q Consensus 89 ~v~~d~~~~~G~p~~~~P---R~~L~~~~~~~~~~G~~~~ 125 (307)
-+++.+ ++-|+|+..|| |..|+++.++|.++||.+.
T Consensus 167 ~Lfg~l-Wplge~VKLD~TvDR~~lR~q~~rLg~LGY~~d 205 (214)
T PF11679_consen 167 ELFGEL-WPLGEPVKLDPTVDRRRLRQQRARLGQLGYAFD 205 (214)
T ss_pred hhhhhc-ccCCCceeccCccCHHHHHHHHHHHHhcCeeec
Confidence 344433 35688887764 9999999999999998763
No 53
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=37.14 E-value=74 Score=29.75 Aligned_cols=66 Identities=15% Similarity=0.055 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHHcCCeeeeecCC--cCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecc
Q 021842 169 RDIVDSHYKACLYAGINISGINGE--VMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDP 236 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~E--~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmp 236 (307)
-.++.++.+.|.+.|++|+.+... .+.++|.+.+.-..+- ..+.-.+|+.+.++|.+.|+.++.-+
T Consensus 18 pGIVa~VT~~La~~~vNI~dls~~~~~~~~~F~m~~~~~~p~--~~~~~~L~~~L~~l~~~l~l~i~i~~ 85 (286)
T PRK13011 18 AGIVAAVTGFLAEHGCYITELHSFDDRLSGRFFMRVEFHSEE--GLDEDALRAGFAPIAARFGMQWELHD 85 (286)
T ss_pred CCHHHHHHHHHHhCCCCEEEeeeeecCCCCeEEEEEEEecCC--CCCHHHHHHHHHHHHHHhCcEEEEee
Confidence 368999999999999999999985 6788898865543221 12366789999999999999887653
No 54
>TIGR02776 NHEJ_ligase_prk DNA ligase D. Members of this protein family are DNA ligases involved in the repair of DNA double-stranded breaks by non-homologous end joining (NHEJ). The system of the bacterial Ku protein (TIGR02772) plus this DNA ligase is seen in about 20 % of bacterial genomes to date and at least one archaeon (Archeoglobus fulgidus). This model describes a central and a C-terminal domain. These two domains may be permuted, as in genus Mycobacterium, or divided into tandem ORFs, and therefore not be identified by this model. An additional N-terminal 3'-phosphoesterase (PE) domain present in some but not all examples of this ligase is not included in the seed alignment for this model; This alignment models only the central ATP-dependent ligase domain and the C-terminal polymerase domain. Most examples of genes for this ligase are adjacent to the gene for Ku.
Probab=37.03 E-value=79 Score=32.52 Aligned_cols=56 Identities=21% Similarity=0.348 Sum_probs=43.1
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
-|-+.=|+|.|.+...-.| ++-+=..+|++-.+.||.+ | || . ..|.|+||.+-|..
T Consensus 390 ~Pd~~v~DLDP~~~~~f~~-v~~~A~~~r~~L~~~gl~~-~-~K--t--SG~kGlhv~vPl~~ 445 (552)
T TIGR02776 390 KPDRIVFDLDPPPGVAFKL-AVEAAQLMKQLLDELGLVS-F-VK--T--SGGKGLHVVVPLRP 445 (552)
T ss_pred CCCEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHcCCcc-c-eE--c--cCCCeEEEEEEcCC
Confidence 4889999999987764433 4555567899999999973 4 67 2 46899999999985
No 55
>TIGR01619 hyp_HI0040 conserved hypothetical protein, TIGR01619. This model represents a hypothetical equivalog of gamma proteobacteria, includes HI0040. These sequences do not have any similarity to known proteins by PSI-BLAST.
Probab=36.19 E-value=2.6e+02 Score=25.77 Aligned_cols=89 Identities=9% Similarity=0.012 Sum_probs=55.6
Q ss_pred HHHHHHhhhcCCccEEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCcccccCcchhhHHHHHHHHHHHHHHcCCeee---
Q 021842 111 AKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINIS--- 187 (307)
Q Consensus 111 ~~~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve--- 187 (307)
++|++.|++.|-.+....++|-++.=+++ .. +..|++++ ++.|..|.
T Consensus 143 ~~Vl~~L~~~GD~l~~~R~IdHw~yF~~e-------------------------~d-~~~F~e~~----~~~gy~v~~~~ 192 (249)
T TIGR01619 143 EELLDLLKKKGRDLAALYLIEHSFHFDEE-------------------------AK-MFAFMDEL----HLGDISFTSLQ 192 (249)
T ss_pred HHHHHHHHHcCccccCceEeeeEEecCCH-------------------------HH-HHHHHHHH----HhcCceeeeee
Confidence 45777788888776555555544432111 11 24676665 77899882
Q ss_pred ----ee-cCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCc
Q 021842 188 ----GI-NGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGV 230 (307)
Q Consensus 188 ----~~-h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl 230 (307)
.+ -.|...+.|-+.+...+.+..+| +.-.-.-+.++|+++|-
T Consensus 193 ~~~~~~~~~~~~~~~y~v~l~re~~~~~~~-I~~~t~~l~~lA~~~~G 239 (249)
T TIGR01619 193 YSALAIMFEEDDEPVFLVKLEQEISLDNSE-IFEQVEQFEDIAEQFSG 239 (249)
T ss_pred ecccccccCCCCCCceEEEEEecCCCchHH-HHHHHHHHHHHHHHhCC
Confidence 21 12445568999999999888666 33444556778888763
No 56
>PRK09633 ligD ATP-dependent DNA ligase; Reviewed
Probab=35.04 E-value=2.3e+02 Score=29.50 Aligned_cols=56 Identities=20% Similarity=0.169 Sum_probs=43.6
Q ss_pred CCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 194 MPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
-|-+.-|+|.|.+++.-.| ++-+=..+|++-.+.||. +| || . ..|.|+||.+-|..
T Consensus 431 ~pd~~v~DLDP~~~~~~~~-v~~~A~~~r~~L~~~gl~-~~-~k--t--SG~kGlhv~vPl~~ 486 (610)
T PRK09633 431 RPTEIVFDLDPPSRDEFPL-AVEAALELKRLFDQFGLT-SF-VK--T--SGNKGLQLYIPLSK 486 (610)
T ss_pred CCCEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHcCCc-cc-eE--c--cCCCeEEEEEEcCC
Confidence 4889999999988864443 556667789999999997 34 66 2 46899999999976
No 57
>COG3285 Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]
Probab=34.26 E-value=85 Score=29.57 Aligned_cols=76 Identities=22% Similarity=0.379 Sum_probs=49.2
Q ss_pred CCC-ceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccCCCCCCCHHHHHHHHHH
Q 021842 194 MPG-QWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKSMRNDGGFEVIKKAIEK 272 (307)
Q Consensus 194 gpG-Q~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~g~n~~gls~~~~fiaG 272 (307)
.|+ |+-|+|.|.+++.-+ .++-+-..+|+.-...||. +| || . ..|.|.|+=.=|...-+ -...+.|---
T Consensus 123 ~pd~r~VfDLDP~~gv~~~-~vveaA~~lr~~Ld~lGL~-~f-~K--T--SGGKG~Hv~~PL~~~~~---w~e~k~fa~~ 192 (299)
T COG3285 123 HPDERIVFDLDPGPGVAFA-EVVEAALELRDLLDELGLV-SF-PK--T--SGGKGLHVYVPLAPKAT---WEEVKQFAKA 192 (299)
T ss_pred CCCcceeEecCCCCCCCHH-HHHHHHHHHHHHHHHcCCc-cc-ee--c--cCCCeeEEEEecCCcCC---cHHHHHHHHH
Confidence 367 888999998776433 3445556889999999996 55 66 2 46899999888875111 1133455544
Q ss_pred HHHHHHH
Q 021842 273 LGLRHSE 279 (307)
Q Consensus 273 lL~h~~~ 279 (307)
|-.++..
T Consensus 193 va~~la~ 199 (299)
T COG3285 193 VAQQLAR 199 (299)
T ss_pred HHHHHHH
Confidence 5454433
No 58
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=34.26 E-value=1.4e+02 Score=20.64 Aligned_cols=22 Identities=23% Similarity=0.166 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHcCCeeeeecC
Q 021842 170 DIVDSHYKACLYAGINISGING 191 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~ 191 (307)
..+.++.+.+.+.||+|+++..
T Consensus 13 G~La~v~~~l~~~~inI~~i~~ 34 (66)
T cd04908 13 GRLAAVTEILSEAGINIRALSI 34 (66)
T ss_pred ChHHHHHHHHHHCCCCEEEEEE
Confidence 3677778888999999998875
No 59
>PRK09632 ATP-dependent DNA ligase; Reviewed
Probab=33.51 E-value=2.7e+02 Score=29.92 Aligned_cols=55 Identities=15% Similarity=0.227 Sum_probs=42.3
Q ss_pred CCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEeccC
Q 021842 195 PGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTKS 256 (307)
Q Consensus 195 pGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~~ 256 (307)
|-+.-|+|.|.+++.-.| ++-+=..+|++-.+.||.+ | || . ..|.|+||.+-|..
T Consensus 135 PD~lv~DLDP~~~~~f~~-v~~~A~~~r~~L~~lgL~~-~-~K--T--SG~kGlHv~vPl~~ 189 (764)
T PRK09632 135 ATRLVFDLDPGEGVGLAE-CAEVARAVRDLLADIGLET-F-PV--T--SGSKGIHLYAPLDG 189 (764)
T ss_pred CCEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHcCCce-e-eE--C--CCCCeEEEEEECCC
Confidence 458999999988764444 5566678899999999973 4 66 2 46899999999975
No 60
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=33.04 E-value=83 Score=22.57 Aligned_cols=36 Identities=17% Similarity=0.301 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCC
Q 021842 169 RDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGP 204 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~ 204 (307)
.++++++...|...||...-...+...+.|++.+.-
T Consensus 31 ~~ll~~v~~lL~~lGi~~~i~~~~~~~~~y~l~i~~ 66 (77)
T PF14528_consen 31 KELLEDVQKLLLRLGIKASIYEKKRKKGSYRLRISG 66 (77)
T ss_dssp HHHHHHHHHHHHHTT--EEEEEEECTTTEEEEEEEC
T ss_pred HHHHHHHHHHHHHCCCeeEEEEEcCCCceEEEEECc
Confidence 689999999999999999666555678889999854
No 61
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=31.03 E-value=97 Score=21.76 Aligned_cols=32 Identities=13% Similarity=0.113 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCC-CceEEE
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMP-GQWEFQ 201 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gp-GQ~Ei~ 201 (307)
..+.+|.+.+.+.|+++..++....+ |..++.
T Consensus 12 g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~ 44 (76)
T cd04888 12 GVLSKVLNTIAQVRGNVLTINQNIPIHGRANVT 44 (76)
T ss_pred chHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEE
Confidence 46777888889999999999875443 444443
No 62
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=30.48 E-value=1.3e+02 Score=28.15 Aligned_cols=66 Identities=18% Similarity=0.035 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHHcCCeeeeecCCc--CCCceEEEcCCCh-hhHHHHHHHHHHHHHHHHHHHcCcEEEecc
Q 021842 169 RDIVDSHYKACLYAGINISGINGEV--MPGQWEFQVGPAV-GISAGDQLWVARYILERITEIAGVVLSFDP 236 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~E~--gpGQ~Ei~l~~~~-~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmp 236 (307)
-.++.++.+.|.+.|++|+.+.... -.|+|.+.+.-.- +. .++.-.+++.+.+++.+.|+.++.-.
T Consensus 17 pGIVa~Vt~~La~~g~NI~d~s~~~~~~~g~F~m~i~v~~~~~--~~~~~~L~~~L~~l~~~l~l~i~l~~ 85 (286)
T PRK06027 17 PGIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEFEGDGL--IFNLETLRADFAALAEEFEMDWRLLD 85 (286)
T ss_pred CcHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEEEeCCC--CCCHHHHHHHHHHHHHHhCCEEEEcc
Confidence 3689999999999999999998887 6678777554332 11 11255788999999999999987643
No 63
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=29.44 E-value=1.3e+02 Score=19.99 Aligned_cols=42 Identities=17% Similarity=-0.070 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCC-CceEEEcCCChhhHHH
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMP-GQWEFQVGPAVGISAG 211 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gp-GQ~Ei~l~~~~~l~aa 211 (307)
..+.++.+.+.+.|++|+++...... ++-.+.+.-.+.-+|.
T Consensus 10 G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v~~~~~a~ 52 (56)
T cd04889 10 GRLAEVTEILAEAGINIKAISIAETRGEFGILRLIFSDPERAK 52 (56)
T ss_pred ChHHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEECCHHHHH
Confidence 35667778889999999998866544 5555555555544443
No 64
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=28.46 E-value=1e+02 Score=22.99 Aligned_cols=29 Identities=3% Similarity=-0.051 Sum_probs=27.4
Q ss_pred CHHHHHHHHHHHhhhcCCccEEeeeeeEE
Q 021842 105 NKRHAAAKIFSHSDVVAEEPWYGIEQEYT 133 (307)
Q Consensus 105 ~PR~~L~~~~~~~~~~G~~~~~g~E~EF~ 133 (307)
||-..+++..++++++|-...+|+-+++.
T Consensus 26 d~d~Al~eM~e~A~~lGAnAVVGvr~d~s 54 (74)
T TIGR03884 26 NVDEIVENLREKVKAKGGMGLIAFRITCA 54 (74)
T ss_pred CHHHHHHHHHHHHHHcCCCEEEEEEEEcC
Confidence 89999999999999999999999998876
No 65
>KOG0959 consensus N-arginine dibasic convertase NRD1 and related Zn2+-dependent endopeptidases, insulinase superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=27.65 E-value=70 Score=35.13 Aligned_cols=69 Identities=17% Similarity=0.151 Sum_probs=44.9
Q ss_pred HHHHHHcCcEEEecccCcCCCCCCceeeEEE-eccCCCCCCCHHHHHHHHHHHHHHHHHHHhHhC------CCCCcCCCC
Q 021842 222 ERITEIAGVVLSFDPKPIQGDWNGAGAHANY-STKSMRNDGGFEVIKKAIEKLGLRHSEHIAAYG------EGNERRLTG 294 (307)
Q Consensus 222 k~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~-SL~~g~n~~gls~~~~fiaGlL~h~~~~~a~~~------~nsy~RL~~ 294 (307)
|.+-..+||.|..++.|.. |.++..+=||+ |+.|..+..| |+|.-++|++.+ .|.|+-+..
T Consensus 29 r~~~L~Ngl~alLisDp~t-D~ssaal~V~vGS~~DP~dl~G-----------LAHF~EHMlFmGS~KYP~En~y~~~ls 96 (974)
T KOG0959|consen 29 RGIELTNGLRALLISDPKT-DKSSAALDVKVGSFSDPEDLQG-----------LAHFCEHMLFMGSEKYPDENEYSKFLS 96 (974)
T ss_pred eEEEecCCceEEEecCCCC-CccceeeeeeccccCCcccccc-----------HHHHHHHHHhhccccCCCcchhHHHHH
Confidence 3344579999999999999 77555555555 3444333123 467778888882 577888876
Q ss_pred CCCCCCCC
Q 021842 295 KHETADIN 302 (307)
Q Consensus 295 ~~ea~~~~ 302 (307)
.+-+.+.+
T Consensus 97 k~gGssNA 104 (974)
T KOG0959|consen 97 KNGGSSNA 104 (974)
T ss_pred hcCCcccc
Confidence 55554443
No 66
>PF11657 Activator-TraM: Transcriptional activator TraM
Probab=27.11 E-value=42 Score=28.25 Aligned_cols=18 Identities=28% Similarity=0.381 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHcCcEEE
Q 021842 216 VARYILERITEIAGVVLS 233 (307)
Q Consensus 216 ~~k~~ik~vA~~~Gl~AT 233 (307)
.+.++|++||++||...+
T Consensus 4 k~~eiI~~IA~khgI~L~ 21 (144)
T PF11657_consen 4 KIEEIIAEIARKHGIALS 21 (144)
T ss_pred HHHHHHHHHHHHcCCccC
Confidence 367899999999998753
No 67
>cd04871 ACT_PSP_2 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_2 CD includes the second of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains
Probab=26.44 E-value=1.3e+02 Score=22.44 Aligned_cols=62 Identities=19% Similarity=0.153 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHcCCeeeeecCCcCC---------C--ceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEec
Q 021842 169 RDIVDSHYKACLYAGINISGINGEVMP---------G--QWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFD 235 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~E~gp---------G--Q~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFm 235 (307)
...+..+...|.+.|++|+.+..-.+. . -.|+.+.-.+ + +.--+|.-+.+++++.|+..+|-
T Consensus 11 a~~ia~Vs~~lA~~~~NI~~I~~l~~~~~~~~~~~~~~~~~e~~v~~~~----~-~~~~lr~~L~~la~elgvDIavQ 83 (84)
T cd04871 11 AEQLAAVTRVVADQGLNIDRIRRLSGRVPLEEQDDSPKACVEFSVRGQP----A-DLEALRAALLELASELNVDIAFQ 83 (84)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHhhccccccccCCCCcEEEEEEEeCCC----C-CHHHHHHHHHHHhcccCceEEEe
Confidence 468889999999999999998886432 1 2344444222 1 23356777889999999988773
No 68
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=25.36 E-value=1.1e+02 Score=26.82 Aligned_cols=67 Identities=9% Similarity=0.044 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHcCCeeeeecCCcCCC------ceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEeccc
Q 021842 169 RDIVDSHYKACLYAGINISGINGEVMPG------QWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPK 237 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~E~gpG------Q~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpK 237 (307)
-.++.++.+.|.+.||+|+.+.++..+. .|.+.+.-.-|- .-++--++.-+.++|.+.++.+++-|.
T Consensus 106 PGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v~lP~--~~~~~~L~~~l~~l~~eL~vd~~l~~~ 178 (190)
T PRK11589 106 PHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITAHSPA--SQDAANIEQAFKALCTELNAQGSINVV 178 (190)
T ss_pred CCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEEEcCC--CCCHHHHHHHHHHHHHHhCceEEEEEe
Confidence 3699999999999999999999997654 444443332111 011335678889999999999998665
No 69
>PF03851 UvdE: UV-endonuclease UvdE; InterPro: IPR004601 Schizosaccharomyces pombe ultraviolet damage endonuclease (UVDE or Uve1p) performs the initial step in an alternative excision repair pathway for UV-induced DNA damage. This DNA repair pathway was originally thought to be specific for UV damage, however Uve1p also recognises UV-induced bipyrimidine photoadducts and other non-UV-induced DNA adducts []. The Deinococcus radiodurans UVSE protein has also shown to be a UV DNA damage endonuclease that catalyzes repair of UV-induced DNA damage by a similar mechanism [].; GO: 0004519 endonuclease activity, 0006289 nucleotide-excision repair, 0009411 response to UV; PDB: 3BZG_A 3BZJ_A 3C0L_A 3C0S_A 3C0Q_A.
Probab=25.20 E-value=2e+02 Score=26.92 Aligned_cols=65 Identities=15% Similarity=0.220 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCC-Cce-EEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcC
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMP-GQW-EFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQ 240 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gp-GQ~-Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~ 240 (307)
.-+.+++++..+.||..--+-++.=| +-+ +..+.+. -..++.+ ..|.+.|+++|++.||.|-.|.
T Consensus 45 ~~l~~~L~~n~~~~I~~yRisS~liP~ashp~~~~~~~--~~~~~~l----~~iG~~~~~~~iRls~HP~qf~ 111 (275)
T PF03851_consen 45 EDLLRILEYNIAHGIRFYRISSDLIPLASHPEVGWDWE--EEFAEEL----AEIGDLAKENGIRLSMHPDQFT 111 (275)
T ss_dssp HHHHHHHHHHHHTT--EEE--TTSSTTTTSTT--S-HH--HHHHHHH----HHHHHHHHHTT-EEEE---TT-
T ss_pred HHHHHHHHHHHHcCCCEEecCcccCCCCCCcccccchH--HHHHHHH----HHHHHHHHHcCCeEEecCCcce
Confidence 45667788888999999998887766 111 1112111 1222322 4567889999999999999877
No 70
>TIGR00629 uvde UV damage endonuclease UvdE. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.03 E-value=1.9e+02 Score=27.56 Aligned_cols=65 Identities=12% Similarity=0.129 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCC--CceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcC
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMP--GQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQ 240 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gp--GQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~ 240 (307)
.-+.++.+++.+.||..--+-++.-| ..-|+.+.+.+ .+++.+ .-|.++|+++|+..||.|=.|.
T Consensus 52 ~~l~~~L~~n~~~~I~f~RisS~l~P~ash~~~~~~~~~--~~~~~l----~~iG~~a~~~~iRLS~Hp~qfi 118 (312)
T TIGR00629 52 RDTMKTLHWNIGHGIPFYRFSSSIFPFASHPDVGYDLVT--FAQKEL----REIGELAKTHQHRLTFHPGQFT 118 (312)
T ss_pred HHHHHHHHHHHHcCCcEEecCccccCcCcCchhhhhHHH--HHHHHH----HHHHHHHHHcCeEEEECCCccc
Confidence 45666778888999999998888766 11222222221 233333 4578999999999999998877
No 71
>cd04932 ACT_AKiii-LysC-EC_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The E. coli AKIII (LysC) binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.87 E-value=2.4e+02 Score=20.52 Aligned_cols=36 Identities=6% Similarity=-0.015 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChh
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVG 207 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~ 207 (307)
.++.++.+.|.+.||+|+.+.. +..++-+.+...+.
T Consensus 16 g~~~~IF~~La~~~I~VDmI~~--s~~~iSftv~~~d~ 51 (75)
T cd04932 16 GFLAKVFGILAKHNISVDLITT--SEISVALTLDNTGS 51 (75)
T ss_pred CHHHHHHHHHHHcCCcEEEEee--cCCEEEEEEecccc
Confidence 4667777888999999999975 33677777777663
No 72
>cd04933 ACT_AK1-AT_1 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the first of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine. This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. Like the Escherichia coli AKIII (LysC), Arabidopsis AK1 binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. A loop in common is involved in the binding of both Lys and S-adenosylmethionine providing an explanation for the synergistic inhibition by these effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.67 E-value=2.9e+02 Score=20.40 Aligned_cols=36 Identities=8% Similarity=0.111 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChh
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVG 207 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~ 207 (307)
.+..++.+.|++.||+|+.+.. +...+-+.+...+.
T Consensus 16 g~~a~IF~~La~~~InVDmI~q--s~~sISftV~~sd~ 51 (78)
T cd04933 16 GFLAKVFSIFETLGISVDVVAT--SEVSISLTLDPSKL 51 (78)
T ss_pred CHHHHHHHHHHHcCCcEEEEEe--cCCEEEEEEEhhhh
Confidence 5677777888999999999975 33567777776655
No 73
>cd04916 ACT_AKiii-YclM-BS_2 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. B. subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from B. subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.39 E-value=1.4e+02 Score=20.18 Aligned_cols=37 Identities=24% Similarity=0.061 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCCh
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAV 206 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~ 206 (307)
.+..++.+.|.+.||++..+.......++-+.+...+
T Consensus 16 ~~~~~i~~~L~~~~i~v~~i~~~~s~~~isf~v~~~d 52 (66)
T cd04916 16 GVSARATAALAKAGINIRMINQGSSEISIMIGVHNED 52 (66)
T ss_pred cHHHHHHHHHHHCCCCEEEEEecCcccEEEEEEeHHH
Confidence 4566677778999999999987554455666665544
No 74
>PRK13895 conjugal transfer protein TraM; Provisional
Probab=24.00 E-value=54 Score=27.50 Aligned_cols=17 Identities=12% Similarity=0.350 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHcCcEEE
Q 021842 217 ARYILERITEIAGVVLS 233 (307)
Q Consensus 217 ~k~~ik~vA~~~Gl~AT 233 (307)
+.++|++||.+||..++
T Consensus 5 i~e~I~~IA~KHGIal~ 21 (144)
T PRK13895 5 IEELIKEIAAKHGIAVG 21 (144)
T ss_pred HHHHHHHHHHHcCcccC
Confidence 57899999999998763
No 75
>cd04924 ACT_AK-Arch_2 ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). Included in this CD is the second of two ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). The first or N-terminal ACT domain of these proteins cluster with the ThrA-like ACT 1 domains (ACT_AKi-HSDH-ThrA-like_1) which includes the threonine-sensitive archaeal Methanococcus jannaschii aspartokinase ACT 1 domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.46 E-value=2e+02 Score=19.34 Aligned_cols=37 Identities=22% Similarity=0.139 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCCh
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAV 206 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~ 206 (307)
.+..++.+.|.+.||++..+........+-+.+...+
T Consensus 16 ~~~~~i~~~L~~~~I~v~~i~q~~s~~~isf~i~~~~ 52 (66)
T cd04924 16 GVAGRVFGALGKAGINVIMISQGSSEYNISFVVAEDD 52 (66)
T ss_pred cHHHHHHHHHHHCCCCEEEEEecCccceEEEEEeHHH
Confidence 4566677778999999999876433333444444433
No 76
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=22.57 E-value=3e+02 Score=19.69 Aligned_cols=52 Identities=13% Similarity=0.284 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHH
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILERITE 226 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~ 226 (307)
.++.++.+.|.+.||++..+.. ++.++-+.+...+... |+- ..+.++|++.+
T Consensus 16 g~~~~if~~L~~~~I~v~~i~~--s~~~is~~v~~~~~~~--~~~-~~~~~~~~l~~ 67 (75)
T cd04912 16 GFLAKVFEIFAKHGLSVDLIST--SEVSVSLTLDPTKNLS--DQL-LLDALVKDLSQ 67 (75)
T ss_pred cHHHHHHHHHHHcCCeEEEEEc--CCcEEEEEEEchhhcc--chH-HHHHHHHHHHh
Confidence 5778888888999999999964 4455666666544422 222 45566666654
No 77
>PF04417 DUF501: Protein of unknown function (DUF501); InterPro: IPR007511 This is a family of uncharacterised bacterial proteins.
Probab=22.38 E-value=1.5e+02 Score=24.72 Aligned_cols=40 Identities=18% Similarity=0.185 Sum_probs=29.1
Q ss_pred ecCCCCCCeEEEEEEEEcCCCCCCCC-----CHHHHHHHHHHHhhhcCC
Q 021842 79 KDPFRRGNNILVMCDAYTPAGEPIPT-----NKRHAAAKIFSHSDVVAE 122 (307)
Q Consensus 79 ~lPw~~~~~a~v~~d~~~~~G~p~~~-----~PR~~L~~~~~~~~~~G~ 122 (307)
.+||... ..|.|...-.||+||+. ||+ |.+.+.++++.|.
T Consensus 4 rc~~G~P--~Vi~~~P~l~~g~PFPTlfwLtcP~--L~~~isrLE~~G~ 48 (139)
T PF04417_consen 4 RCPCGFP--QVIRTAPRLVDGKPFPTLFWLTCPY--LVKAISRLEAEGG 48 (139)
T ss_pred cCCCCCC--eEEEeccCCCCCccCCccHhhcCHH--HHHHHHHHHhcCH
Confidence 5677542 34677765678999875 886 7788999988875
No 78
>PF07574 SMC_Nse1: Nse1 non-SMC component of SMC5-6 complex; InterPro: IPR011513 Saccharomyces cerevisiae Nse1 (Q07913 from SWISSPROT) forms part of a complex with SMC5-SMC6. This non-structural maintenance of chromosomes (SMC) complex plays an essential role in genomic stability, being involved in DNA repair and DNA metabolism [, ]. It is conserved in eukaryotes from yeast to human.; PDB: 3NW0_A.
Probab=21.66 E-value=4.5e+02 Score=22.88 Aligned_cols=66 Identities=11% Similarity=0.053 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHcCCeeeeecC-CcCCCceE--EEcCCChhhH-----HHHHHHHHHHHHHHHHHHcCcEEEe
Q 021842 169 RDIVDSHYKACLYAGINISGING-EVMPGQWE--FQVGPAVGIS-----AGDQLWVARYILERITEIAGVVLSF 234 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~-E~gpGQ~E--i~l~~~~~l~-----aaD~~~~~k~~ik~vA~~~Gl~ATF 234 (307)
.+++.+|-..|...+.+|....+ |...-.|= ||+..++..+ .++.+-+||.+|.+|+...+...+-
T Consensus 47 ~~~I~~IN~~L~~l~~~Ir~~~~~q~~g~~~y~lVN~~~D~~sklaT~ys~~Ei~ffK~lle~I~~~~~~~~~~ 120 (200)
T PF07574_consen 47 DEFINEINSKLSPLDFEIRRIRDGQPDGERYYALVNTSSDEISKLATTYSPNEIAFFKKLLEEIVESENTSRSE 120 (200)
T ss_dssp HHHHHHHHHHHGGGTEEEEEEE--TTT--EEEEEEESSS-TTHHHHTTS-HHHHHHHHHHHHHHHHSSSS-EEH
T ss_pred HHHHHHHHHhhhhcCcEEEEEeccCCCCCEEEEEEeCCCCHHHHhcCCCCHHHHHHHHHHHHHHHhCCCCceeh
Confidence 68999999999999999999999 76543332 4555555544 4689999999999999999987653
No 79
>cd04890 ACT_AK-like_1 ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the first of two ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids, lysine, threonine, methionine, and isoleucine. This CD, includes the first ACT domain of the Escherichia coli (EC) isoenzyme, AKIII (LysC) and the Arabidopsis isoenzyme, asparate kinase 1, both enzymes monofunctional and involved in lysine synthesis, as well as the the first ACT domain of Bacillus subtilis (BS) isoenzyme, AKIII (YclM), and of the Saccharomyces cerevisiae AK (Hom3). Also included are the first ACT domains of the Methylomicrobium alcaliphilum AK, the first enzyme of the ectoine biosynthetic pathway. Members of this CD bel
Probab=21.10 E-value=2.7e+02 Score=18.70 Aligned_cols=33 Identities=9% Similarity=0.093 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCC
Q 021842 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGP 204 (307)
Q Consensus 170 ~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~ 204 (307)
.+..++.+.|++.||+++.+.+ +...+=+.+..
T Consensus 15 ~~~~~if~~l~~~~i~v~~i~t--~~~~is~~v~~ 47 (62)
T cd04890 15 GFLRKIFEILEKHGISVDLIPT--SENSVTLYLDD 47 (62)
T ss_pred CHHHHHHHHHHHcCCeEEEEec--CCCEEEEEEeh
Confidence 4667777788999999999964 33334444443
No 80
>PF09904 HTH_43: Winged helix-turn helix; InterPro: IPR017162 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 3KE2_B.
Probab=21.06 E-value=1e+02 Score=23.87 Aligned_cols=18 Identities=11% Similarity=0.058 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHhhhcCCc
Q 021842 106 KRHAAAKIFSHSDVVAEE 123 (307)
Q Consensus 106 PR~~L~~~~~~~~~~G~~ 123 (307)
||..++.+++.|.+.|++
T Consensus 34 PrRT~Qd~i~aL~~~~I~ 51 (90)
T PF09904_consen 34 PRRTIQDTIKALPELGIE 51 (90)
T ss_dssp -HHHHHHHHHGGGGGT-E
T ss_pred CHhHHHHHHHHhhcCCeE
Confidence 999999999999866544
No 81
>PF04677 CwfJ_C_1: Protein similar to CwfJ C-terminus 1; InterPro: IPR006768 This group of sequences contain a conserved C-terminal domain which is found in the Schizosaccharomyces pombe (Fission yeast) protein Cwf19 (Q09909 from SWISSPROT) and its homologues. Cwf19 is part of the Cdc5p complex involved in mRNA splicing []. This domain is found in association with IPR006767 from INTERPRO, which is generally C-terminal and adjacent to this domain.
Probab=20.84 E-value=2.6e+02 Score=22.58 Aligned_cols=55 Identities=11% Similarity=0.035 Sum_probs=40.7
Q ss_pred CCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcCCCCCCceeeEEEecc
Q 021842 195 PGQWEFQVGPAVGISAGDQLWVARYILERITEIAGVVLSFDPKPIQGDWNGAGAHANYSTK 255 (307)
Q Consensus 195 pGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~gd~~GsG~H~H~SL~ 255 (307)
|=|+.-++.-.|- +.-|++-.||..+++++++.|..+-|+-.- ..++.|.|+-.-
T Consensus 52 Pi~H~~s~~~~de-~~~~Ei~~f~~~L~~mf~~~~~~vvf~E~~-----~~~~~H~~iq~v 106 (121)
T PF04677_consen 52 PIQHVPSLTELDE-EVWEEIRNFQKSLRKMFASQGKDVVFFERV-----RKRNPHTHIQCV 106 (121)
T ss_pred ecceecccccCCH-HHHHHHHHHHHHHHHHHHHcCCCEEEEEEe-----CCCCcEEEEEEE
Confidence 4444444444333 677889999999999999999999997662 456789988654
No 82
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=20.59 E-value=4.2e+02 Score=22.02 Aligned_cols=66 Identities=15% Similarity=0.143 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHcCCeeeeecCCcCCCceEEEcCCC-hhhHHHHHHHHHHHHHHHHHHHcCcEEEecccCcC
Q 021842 169 RDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILERITEIAGVVLSFDPKPIQ 240 (307)
Q Consensus 169 ~~~l~~i~~~l~~~Gi~ve~~h~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~ATFmpKP~~ 240 (307)
.+.+.+.++.++.+|++.-.+|.=. ....+. +.-+.-++++-.=.-+-++|+++|+...+-|.|..
T Consensus 70 ~~~~~~~i~~a~~lg~~~i~~~~g~------~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~i~lE~~~~~ 136 (213)
T PF01261_consen 70 LEYLKKAIDLAKRLGAKYIVVHSGR------YPSGPEDDTEENWERLAENLRELAEIAEEYGVRIALENHPGP 136 (213)
T ss_dssp HHHHHHHHHHHHHHTBSEEEEECTT------ESSSTTSSHHHHHHHHHHHHHHHHHHHHHHTSEEEEE-SSSS
T ss_pred HHHHHHHHHHHHHhCCCceeecCcc------cccccCCCHHHHHHHHHHHHHHHHhhhhhhcceEEEecccCc
Confidence 4678888889999999998888331 111121 22245555555556677888999999999888766
No 83
>TIGR00467 lysS_arch lysyl-tRNA synthetase, archaeal and spirochete. This model represents the lysyl-tRNA synthetases that are class I amino-acyl tRNA synthetases. It includes archaeal and spirochete examples of the enzyme. All other known examples are class IIc amino-acyl tRNA synthetases and seem to form a separate orthologous set.
Probab=20.50 E-value=8.2e+02 Score=24.95 Aligned_cols=129 Identities=16% Similarity=0.187 Sum_probs=72.8
Q ss_pred EEEEEEEcCCCCCCCCCHHHHHHH-HHHHh-hhcCCccEEeeeeeEEEeccCCC----CCC----------CCCCCCCCC
Q 021842 89 LVMCDAYTPAGEPIPTNKRHAAAK-IFSHS-DVVAEEPWYGIEQEYTLLQKDVK----WPL----------GWPIGGYPG 152 (307)
Q Consensus 89 ~v~~d~~~~~G~p~~~~PR~~L~~-~~~~~-~~~G~~~~~g~E~EF~l~~~~~~----~~~----------~~~~~~~~~ 152 (307)
.++..-+.++|.|.-..-|.+++- ++.++ +.+|. +..|..+..+-+ .+. |.|....|.
T Consensus 20 ~~~~tg~~psG~~HiG~~~e~~~~d~v~r~~r~~g~------~~~~i~~~Dd~D~lRKvp~~~p~~~~~ylG~Pl~~vpd 93 (515)
T TIGR00467 20 YTVASGITPSGHIHIGNFREVITADAIARALRDSGS------EARFIYIADNYDPLRKVYPFLPEELETYLGMPLTRIPD 93 (515)
T ss_pred EEEecCCCCCCCccccchhhhhHHHHHHHHHHHcCC------CEEEEEEEcCCcccccccccccHHHHHhCCCcceecCC
Confidence 566666678999998899988876 55665 56774 445555543321 111 222222221
Q ss_pred CCCCcccccCcchhhHHHHHHHHHHHHHHcCCeeeeec--CCcCCCceEEEcCCChhhHHHHHHHHHHHHHHHHHHHcCc
Q 021842 153 PQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGIN--GEVMPGQWEFQVGPAVGISAGDQLWVARYILERITEIAGV 230 (307)
Q Consensus 153 ~~~~~~~~~~~~~~~~~~~l~~i~~~l~~~Gi~ve~~h--~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl 230 (307)
+.| + ..++.+.+...+...|+..||++|-+- --+..|-|.= ....+..+.-..+.++.++-.+ -+
T Consensus 94 p~g-~------~~s~~~h~~~~~~~~l~~~gi~~e~~s~te~Y~sG~~~~-----~i~~~L~~~~~I~~il~~~~~~-~~ 160 (515)
T TIGR00467 94 PEG-C------KTSYAEHFLIPFLESLPVLGINPEFIRASKQYTSGLYAS-----QIKIALDHRKEISEILNEYRTS-KL 160 (515)
T ss_pred CCC-C------cHHHHHHHHHHHHHHHHHcCCeEEEEEHHHhhhcCChHH-----HHHHHHHhHHHHHHHHHHhcCC-cc
Confidence 111 1 145667899999999999999887652 2333453321 1233444454556666665533 23
Q ss_pred EEEecc
Q 021842 231 VLSFDP 236 (307)
Q Consensus 231 ~ATFmp 236 (307)
..||.|
T Consensus 161 ~~~~~P 166 (515)
T TIGR00467 161 EENWYP 166 (515)
T ss_pred CCCcee
Confidence 444444
No 84
>KOG3302 consensus TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]
Probab=20.20 E-value=1.6e+02 Score=26.10 Aligned_cols=27 Identities=19% Similarity=-0.013 Sum_probs=22.1
Q ss_pred CCCCCCCHHHHHHHHHHHhhhcCCccE
Q 021842 99 GEPIPTNKRHAAAKIFSHSDVVAEEPW 125 (307)
Q Consensus 99 G~p~~~~PR~~L~~~~~~~~~~G~~~~ 125 (307)
|.-.+.+.|..+++....++..|+.++
T Consensus 83 gA~se~~ar~aark~aRilqkLgf~~~ 109 (200)
T KOG3302|consen 83 GAKSEDSARLAARKYARILQKLGFPVK 109 (200)
T ss_pred ccCCHHHHHHHHHHHHHHHHHcCCCce
Confidence 555667899999999999999997543
No 85
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=20.04 E-value=2.3e+02 Score=20.34 Aligned_cols=41 Identities=10% Similarity=-0.095 Sum_probs=31.9
Q ss_pred EEcCCCCCCCCCHHHHHHHHHHHhhhcCCccEEeeeeeEEE
Q 021842 94 AYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTL 134 (307)
Q Consensus 94 ~~~~~G~p~~~~PR~~L~~~~~~~~~~G~~~~~g~E~EF~l 134 (307)
+.+....+.+.-++.+.+.+.+++++.|.++..+..++=..
T Consensus 27 li~~~~~~~~~~~~~~~~~~~~~l~~~gV~v~~~~~v~~i~ 67 (80)
T PF00070_consen 27 LIERSDRLLPGFDPDAAKILEEYLRKRGVEVHTNTKVKEIE 67 (80)
T ss_dssp EEESSSSSSTTSSHHHHHHHHHHHHHTTEEEEESEEEEEEE
T ss_pred EEeccchhhhhcCHHHHHHHHHHHHHCCCEEEeCCEEEEEE
Confidence 44556777777888899999999999999998887766433
Done!