Query 018391
Match_columns 356
No_of_seqs 160 out of 1546
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 08:37:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018391.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018391hhsearch_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 3.6E-95 8E-100 710.6 37.2 354 1-354 1-354 (354)
2 PLN03036 glutamine synthetase; 100.0 2.2E-93 4.7E-98 708.4 38.0 356 1-356 61-416 (432)
3 COG0174 GlnA Glutamine synthet 100.0 5.1E-89 1.1E-93 678.3 32.7 331 14-355 11-361 (443)
4 TIGR00653 GlnA glutamine synth 100.0 1.2E-86 2.6E-91 670.1 31.0 330 16-355 10-375 (460)
5 PRK09469 glnA glutamine synthe 100.0 1.8E-85 4E-90 662.5 30.9 330 16-355 13-383 (469)
6 TIGR03105 gln_synth_III glutam 100.0 4.8E-84 1E-88 647.6 29.3 322 16-355 8-354 (435)
7 PF00120 Gln-synt_C: Glutamine 100.0 9.5E-72 2.1E-76 525.6 16.0 240 103-351 1-259 (259)
8 KOG0683 Glutamine synthetase [ 100.0 4.1E-53 9E-58 400.3 22.3 349 4-354 17-369 (380)
9 COG3968 Uncharacterized protei 99.7 4.1E-17 8.9E-22 158.8 15.8 218 122-353 214-501 (724)
10 PF03951 Gln-synt_N: Glutamine 99.5 2.2E-13 4.8E-18 107.0 8.8 79 17-97 1-84 (84)
11 TIGR02050 gshA_cyan_rel unchar 98.7 5.5E-07 1.2E-11 86.4 16.4 188 125-352 1-249 (287)
12 PRK13516 gamma-glutamyl:cystei 98.6 1.7E-06 3.6E-11 86.0 16.2 130 123-287 11-167 (373)
13 PRK13515 carboxylate-amine lig 98.5 2.4E-06 5.3E-11 84.8 14.9 131 123-288 5-161 (371)
14 PRK13517 carboxylate-amine lig 98.5 1.6E-06 3.6E-11 86.1 13.6 132 123-288 10-167 (373)
15 PRK13518 carboxylate-amine lig 98.2 1.1E-05 2.3E-10 79.7 10.6 95 187-288 49-169 (357)
16 PLN02611 glutamate--cysteine l 98.1 3.5E-05 7.6E-10 78.6 12.3 147 110-288 54-246 (482)
17 PF04107 GCS2: Glutamate-cyste 97.5 0.00039 8.4E-09 66.7 8.6 95 186-286 34-157 (288)
18 TIGR01436 glu_cys_lig_pln glut 97.4 0.0054 1.2E-07 62.4 15.9 98 114-232 12-124 (446)
19 TIGR02048 gshA_cyano glutamate 97.4 0.001 2.2E-08 66.2 9.8 92 188-286 31-148 (376)
20 COG2170 Uncharacterized conser 97.2 0.002 4.4E-08 62.5 9.5 149 191-352 43-252 (369)
21 KOG0683 Glutamine synthetase [ 95.1 0.005 1.1E-07 60.0 -0.4 59 287-355 285-343 (380)
22 TIGR03444 gshA_related glutama 93.7 0.14 3.1E-06 51.1 6.2 44 188-232 63-107 (390)
23 cd04869 ACT_GcvR_2 ACT domains 87.0 1.9 4E-05 32.6 5.6 65 170-236 11-81 (81)
24 PF13740 ACT_6: ACT domain; PD 83.1 3.9 8.4E-05 30.9 5.7 63 169-234 13-75 (76)
25 PF06877 RraB: Regulator of ri 82.1 7.3 0.00016 31.1 7.3 94 107-231 3-98 (104)
26 COG3572 GshA Gamma-glutamylcys 81.3 2.5 5.4E-05 42.2 4.9 46 188-234 90-136 (456)
27 KOG0558 Dihydrolipoamide trans 78.9 1.8 4E-05 42.4 3.1 28 210-237 275-302 (474)
28 cd04872 ACT_1ZPV ACT domain pr 77.8 5.1 0.00011 31.0 4.9 67 170-237 13-79 (88)
29 PRK00194 hypothetical protein; 76.8 6.1 0.00013 30.5 5.1 66 170-236 15-80 (90)
30 cd04870 ACT_PSP_1 CT domains f 75.0 8.8 0.00019 28.7 5.4 65 170-236 11-75 (75)
31 TIGR02778 ligD_pol DNA polymer 71.1 43 0.00093 31.5 10.0 110 194-320 113-225 (245)
32 PF12224 Amidoligase_2: Putati 70.5 47 0.001 30.6 10.3 22 327-348 225-246 (252)
33 PRK02471 bifunctional glutamat 69.2 14 0.0003 40.4 7.3 16 123-138 18-33 (752)
34 cd04864 LigD_Pol_like_1 LigD_P 68.1 55 0.0012 30.5 9.9 109 194-320 99-210 (228)
35 cd04893 ACT_GcvR_1 ACT domains 66.4 21 0.00046 26.9 5.8 64 169-235 12-75 (77)
36 cd04861 LigD_Pol_like LigD_Pol 66.1 66 0.0014 30.0 10.0 110 194-320 97-209 (227)
37 cd04866 LigD_Pol_like_3 LigD_P 65.9 67 0.0015 29.8 10.0 112 194-320 92-205 (223)
38 cd04863 MtLigD_Pol_like MtLigD 65.5 70 0.0015 29.9 10.1 110 194-320 101-213 (231)
39 PF04468 PSP1: PSP1 C-terminal 65.2 8.4 0.00018 30.3 3.5 60 169-233 25-84 (88)
40 cd04862 PaeLigD_Pol_like PaeLi 64.3 72 0.0016 29.7 9.9 111 194-320 97-209 (227)
41 cd04865 LigD_Pol_like_2 LigD_P 57.0 1.2E+02 0.0026 28.3 10.0 110 194-320 98-210 (228)
42 cd04875 ACT_F4HF-DF N-terminal 53.7 39 0.00084 24.9 5.3 60 170-231 11-73 (74)
43 smart00874 B5 tRNA synthetase 49.7 38 0.00083 24.8 4.7 47 174-230 23-71 (71)
44 COG3364 Zn-ribbon containing p 45.7 12 0.00026 30.3 1.4 24 180-204 55-78 (112)
45 PRK11589 gcvR glycine cleavage 43.5 54 0.0012 29.6 5.4 68 169-238 106-179 (190)
46 TIGR02776 NHEJ_ligase_prk DNA 42.1 2E+02 0.0043 30.5 10.1 111 194-319 390-502 (552)
47 cd04882 ACT_Bt0572_2 C-termina 41.3 71 0.0015 22.2 4.9 49 172-231 13-63 (65)
48 PF03484 B5: tRNA synthetase B 41.3 92 0.002 23.0 5.6 47 173-230 22-70 (70)
49 PRK13011 formyltetrahydrofolat 40.3 60 0.0013 31.2 5.5 66 169-236 18-85 (286)
50 COG4456 VagC Virulence-associa 37.9 24 0.00053 26.9 1.9 28 308-336 7-34 (74)
51 PRK05972 ligD ATP-dependent DN 36.5 2.4E+02 0.0052 31.6 10.0 123 180-318 664-793 (860)
52 PF14395 COOH-NH2_lig: Phage p 36.0 51 0.0011 31.2 4.1 17 123-139 2-18 (261)
53 PRK09633 ligD ATP-dependent DN 33.2 3.3E+02 0.0072 29.2 10.2 109 194-318 431-542 (610)
54 PRK11191 RNase E inhibitor pro 31.4 3.4E+02 0.0073 23.3 8.6 91 109-230 13-106 (138)
55 PRK06027 purU formyltetrahydro 31.2 1.3E+02 0.0028 28.8 6.3 67 169-236 17-85 (286)
56 COG4326 Spo0M Sporulation cont 30.2 66 0.0014 29.6 3.7 38 169-206 154-198 (270)
57 PF09845 DUF2072: Zn-ribbon co 29.2 24 0.00052 30.0 0.7 20 183-203 83-102 (131)
58 PRK09632 ATP-dependent DNA lig 28.8 4.8E+02 0.01 28.8 10.6 108 195-319 135-245 (764)
59 cd04932 ACT_AKiii-LysC-EC_1 AC 26.4 1.9E+02 0.004 21.7 5.2 35 170-206 16-50 (75)
60 PRK10629 EnvZ/OmpR regulon mod 25.4 1.8E+02 0.0039 24.5 5.3 56 170-234 50-105 (127)
61 cd04908 ACT_Bt0572_1 N-termina 25.4 2.4E+02 0.0053 20.0 5.5 21 171-191 14-34 (66)
62 cd04888 ACT_PheB-BS C-terminal 25.3 1.3E+02 0.0029 21.6 4.2 32 170-201 12-44 (76)
63 PF11657 Activator-TraM: Trans 24.5 52 0.0011 28.4 2.0 18 216-233 4-21 (144)
64 PRK13895 conjugal transfer pro 24.1 55 0.0012 28.2 2.0 17 217-233 5-21 (144)
65 cd04933 ACT_AK1-AT_1 ACT domai 24.0 3E+02 0.0065 20.9 5.9 36 170-207 16-51 (78)
66 cd04912 ACT_AKiii-LysC-EC-like 23.1 2.9E+02 0.0062 20.3 5.7 52 170-226 16-67 (75)
67 PF14528 LAGLIDADG_3: LAGLIDAD 23.0 1.4E+02 0.0029 22.0 3.9 36 169-204 31-66 (77)
68 PF13721 SecD-TM1: SecD export 23.0 2.1E+02 0.0046 22.9 5.2 45 173-225 49-93 (101)
69 PF11679 DUF3275: Protein of u 21.3 48 0.0011 30.4 1.2 30 96-125 173-205 (214)
70 PF10411 DsbC_N: Disulfide bon 21.1 65 0.0014 22.9 1.6 26 177-202 3-30 (57)
71 cd04935 ACT_AKiii-DAPDC_1 ACT 21.1 3E+02 0.0066 20.5 5.4 35 170-206 16-50 (75)
72 PRK13010 purU formyltetrahydro 20.7 2.2E+02 0.0048 27.4 5.7 68 169-237 20-90 (289)
73 PF01921 tRNA-synt_1f: tRNA sy 20.5 3.4E+02 0.0073 27.1 7.0 143 88-246 24-182 (360)
74 cd04916 ACT_AKiii-YclM-BS_2 AC 20.2 1.8E+02 0.004 20.1 4.0 37 170-206 16-52 (66)
No 1
>PLN02284 glutamine synthetase
Probab=100.00 E-value=3.6e-95 Score=710.61 Aligned_cols=354 Identities=90% Similarity=1.506 Sum_probs=316.6
Q ss_pred ChhhHHhhcCCCCCCCcEEEEEEEEEeCCCCcceeeEEeCCCCCCCCCCCCcccccCCCCCCCCCCCccEEEEeeeceec
Q 018391 1 MSLLNDLLNLNLSESTEKVIAEYVWIGGSGMDLRSKARTLPAPTTDPTKLPKWNYDGSSTNQAPGDDSEVILYPQTVFKD 80 (356)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~v~~~~~dg~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~g~~~~~~~D~~l~PDt~~~~ 80 (356)
||..+...+++++++.+.++++|+|+|+.++|+|||.+++.++.+.+++.++|+||||++++..++++|++++|||++++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~y~wi~~~~~dl~g~~~~~~~~~~~~~~~~~~~fdGssi~~~~~~~sD~~l~PDt~~~~ 80 (354)
T PLN02284 1 MSLLSDLINLNLSDSTDKIIAEYIWIGGSGMDLRSKARTLPGPVTDPSKLPKWNYDGSSTGQAPGEDSEVILYPQAIFKD 80 (354)
T ss_pred CchhhhhHhhcccCcCCeEEEEEEEEEEEecCCCCceEEecccccccccCCceeecCCCCCCccCCCceEEEEccEEEEC
Confidence 45566677777789999999999999999999999999999999999888999999999988888999999999999999
Q ss_pred CCCCCCeEEEEEEeecCCCccCCCChHHHHHHHHcCcccCCCcceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccc
Q 018391 81 PFRRGNNILVMCDAYTPAGEPIPTNKRFNAAKVFGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCG 160 (356)
Q Consensus 81 Pw~~~~~a~V~cd~~~~~G~P~~~~PR~~Lkr~~~~l~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (356)
||.++++++|+||++++||+|++.|||++|||+++++++.|+++++|+|+|||||+.+..+..+++.++.+.++++||+.
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 99875689999999999999999999999999999999999999999999999998643223343322355667778776
Q ss_pred cccchhhHHHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccC
Q 018391 161 VGADKALGRDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIK 240 (356)
Q Consensus 161 ~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~ 240 (356)
.+.+..+.++++++++++|+++||+|+++|||+|||||||++.|.++|+|||++++||++||+||++||++|||||||+.
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 66545556899999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCCCCceeeeeecccccCCCCchhHHHHHHHHHHHHHHHhhccccccccccCCCCCCCCCCCceeeccCCCcceEeeccC
Q 018391 241 GDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGEGNERRLTGRHETADINTFSWGVANRGASIRVGRD 320 (356)
Q Consensus 241 ~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl~L~h~~al~a~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~ 320 (356)
++++|||||+|+|||+.+.++|.++++++++|+.|+|+++|+||++||||||+|++|||.+++++||.+||+++||||..
T Consensus 241 ~~~~GSGmH~H~SL~~~~~~gg~~~~~~~l~~~~l~h~~~l~a~~~NSYkRL~p~~eap~~~~~~wg~~NRsa~iRIP~~ 320 (354)
T PLN02284 241 GDWNGAGAHTNYSTKSMREDGGYEVIKKAIEKLGLRHKEHIAAYGEGNERRLTGKHETADINTFSWGVANRGASIRVGRD 320 (354)
T ss_pred CCCccCcceeecChhhcccCCcHHHHHHHHHHHHHHHHHHhhhhhcCcHhhcCCCccCcccccceeecCCCceeEEECCC
Confidence 55799999999999975333567888999999989999999999999999999999999667999999999999999976
Q ss_pred CCCCCccEEEecCCCCCCCHHHHHHHHHHHhhcC
Q 018391 321 TEKEGKGYFEDRRPASNMDPYVVTSMIAETTILW 354 (356)
Q Consensus 321 ~~~~~~~riE~R~~da~aNPYLalAailaAgl~g 354 (356)
....+++|||+|+||++|||||++|++|++.+++
T Consensus 321 ~~~~~~~riE~R~pd~~aNPYLa~aaila~~~~~ 354 (354)
T PLN02284 321 TEKEGKGYFEDRRPASNMDPYVVTSMIAETTILW 354 (354)
T ss_pred CCCCCCCEEEEcCCCCCCCHHHHHHHHHHHHhcC
Confidence 5333457999999999999999999999998864
No 2
>PLN03036 glutamine synthetase; Provisional
Probab=100.00 E-value=2.2e-93 Score=708.40 Aligned_cols=356 Identities=75% Similarity=1.362 Sum_probs=323.8
Q ss_pred ChhhHHhhcCCCCCCCcEEEEEEEEEeCCCCcceeeEEeCCCCCCCCCCCCcccccCCCCCCCCCCCccEEEEeeeceec
Q 018391 1 MSLLNDLLNLNLSESTEKVIAEYVWIGGSGMDLRSKARTLPAPTTDPTKLPKWNYDGSSTNQAPGDDSEVILYPQTVFKD 80 (356)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~v~~~~~dg~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~g~~~~~~~D~~l~PDt~~~~ 80 (356)
|+.+.+|++|+..++.+.++++|+|+||.|+++|||+++++++.+.++++++|+||||++++.+++++|++++|||++++
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 46789999999999999999999999999999999999999999999999999999999999888999999999999999
Q ss_pred CCCCCCeEEEEEEeecCCCccCCCChHHHHHHHHcCcccCCCcceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccc
Q 018391 81 PFRRGNNILVMCDAYTPAGEPIPTNKRFNAAKVFGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCG 160 (356)
Q Consensus 81 Pw~~~~~a~V~cd~~~~~G~P~~~~PR~~Lkr~~~~l~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (356)
||+++++++|+||+|++||+|++.|||++|++++++++..|+++++|+|+|||||+.+.+++.+++.+..|.++++||+.
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 99876689999999999999999999999999999999999999999999999998654333455434456678888877
Q ss_pred cccchhhHHHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccC
Q 018391 161 VGADKALGRDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIK 240 (356)
Q Consensus 161 ~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~ 240 (356)
.+.+..+.++++++++++|+.+||+|+++|+|++||||||++.|+++|+|||++++||++||+||++||++|||||||+.
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 76666556899999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCCCCceeeeeecccccCCCCchhHHHHHHHHHHHHHHHhhccccccccccCCCCCCCCCCCceeeccCCCcceEeeccC
Q 018391 241 GDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGEGNERRLTGRHETADINTFSWGVANRGASIRVGRD 320 (356)
Q Consensus 241 ~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl~L~h~~al~a~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~ 320 (356)
+|++|||||+|+|||+.+++++.++++++++|+.|+|+++++|+++||||||++++|||.|++++||.+||+++||||..
T Consensus 301 gd~~GSGmHiH~Sl~d~r~~gg~~~~~~~i~gl~l~H~~~i~A~~~NsykRL~~~~ea~~p~~~swG~~NR~asIRIP~~ 380 (432)
T PLN03036 301 GDWNGAGCHTNYSTKSMREEGGFEVIKKAILNLSLRHKEHISAYGEGNERRLTGKHETASIDTFSWGVANRGCSIRVGRD 380 (432)
T ss_pred CCcCCCCceeEechhhccccchHHHHHHHHhhHHHHHHHHHHhhhcChhhccCCCccccCCccceEeccCCcceEEECCC
Confidence 56899999999999985433467788899999559999999999999999999999997668999999999999999976
Q ss_pred CCCCCccEEEecCCCCCCCHHHHHHHHHHHhhcCCC
Q 018391 321 TEKEGKGYFEDRRPASNMDPYVVTSMIAETTILWKP 356 (356)
Q Consensus 321 ~~~~~~~riE~R~~da~aNPYLalAailaAgl~g~~ 356 (356)
....+.+|||+|.||++|||||++|+|+...++.+|
T Consensus 381 ~~~~~~~riE~R~pda~aNPYLv~aai~~t~~~~~~ 416 (432)
T PLN03036 381 TEKKGKGYLEDRRPASNMDPYIVTSLLAETTILWEP 416 (432)
T ss_pred CCCCcccEEEEeCCCCCCCHHHHHHHHHHHHhcCCc
Confidence 533335799999999999999999999999998876
No 3
>COG0174 GlnA Glutamine synthetase [Amino acid transport and metabolism]
Probab=100.00 E-value=5.1e-89 Score=678.25 Aligned_cols=331 Identities=27% Similarity=0.409 Sum_probs=292.3
Q ss_pred CCCcEEEEEEEEEeCCCCcceeeEEeCCCCCCCCCCCC--cccccCCCC-CCCCCCCccEEEEee--eceecCCCCCCeE
Q 018391 14 ESTEKVIAEYVWIGGSGMDLRSKARTLPAPTTDPTKLP--KWNYDGSST-NQAPGDDSEVILYPQ--TVFKDPFRRGNNI 88 (356)
Q Consensus 14 ~~~~~~~v~~~~~dg~G~~~rgK~~~~~~~~~~~~~~~--~~~~dgs~~-g~~~~~~~D~~l~PD--t~~~~Pw~~~~~a 88 (356)
+..++.+|++.++|+.| .+|||++++..+.+.++... +..||||++ ||..++++|++++|| |++++||.++++|
T Consensus 11 ~~~~V~~v~~~f~D~~G-~~r~k~ip~~~~~~~~~~~~~~g~~fdgss~~g~~~i~~sDm~l~Pd~~T~~~~Pw~~~~ta 89 (443)
T COG0174 11 KENGVKFVDLRFTDLNG-VLRGKTIPAEKPVSVLAQLFEGGVVFDGSSIAGFEGIGESDMVLKPDLSTLVVDPWREGPTA 89 (443)
T ss_pred HhCCceEEEEEEECCCC-CeeeEEEecccchhHHHhhhccCcCcCCccccccCCCCCCCEEEeeccCceeeCCCCCCCcE
Confidence 56789999999999999 99999988886554554443 356999998 777669999999999 8999999998899
Q ss_pred EEEEEeecCCCccCCCChHHHHHHHHcCcccCCCc-ceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhh
Q 018391 89 LVMCDAYTPAGEPIPTNKRFNAAKVFGHPDVVAEE-PWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKAL 167 (356)
Q Consensus 89 ~V~cd~~~~~G~P~~~~PR~~Lkr~~~~l~~~G~~-~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (356)
+|+||+++++|+|++.|||++|||+++++++.|+. +.+|+|+|||||+.+..... .+.+.+.++||+..+.+.
T Consensus 90 ~v~cdv~~~~g~p~~~dPR~vlkr~~~~l~~~G~~~~~~g~E~EFfLfd~~~~~~~----~~~~~~~~~yf~~~~~~~-- 163 (443)
T COG0174 90 RVLCDVYDPDGTPYPRDPRSVLKRALARLKDEGLAPAVVGPELEFFLFDRDGRDPD----GGRPADKGGYFDVAPLDE-- 163 (443)
T ss_pred EEEEEEECCCCCcCCCChHHHHHHHHHHHHhcCCccceeecceeEEEeecccCCcc----cCccCCCCcccCcccccc--
Confidence 99999999999999999999999999999999998 59999999999997542111 035677889998888766
Q ss_pred HHHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCce
Q 018391 168 GRDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAG 247 (356)
Q Consensus 168 ~~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG 247 (356)
..+++.+|+.+|+++||+||.+|||+|||||||++++.++|++||++++||++||+||++||++|||||||+.+ .+|||
T Consensus 164 ~~~~~~di~~~l~~~Gi~ie~~hhEva~gQ~EI~~~~~~~l~~AD~~~~~K~vvk~vA~~hG~~aTFMpKP~~g-~~GSG 242 (443)
T COG0174 164 AEDFRRDIVEALEAAGIEIEAIHHEVAPGQFEINLRFDDALKAADQIVIFKYVVKEVAEKHGLTATFMPKPFFG-DNGSG 242 (443)
T ss_pred HHHHHHHHHHHHHHCCCCcEeccccccCCceEEecCCCCHHHHHHHHHHHHHHHHHHHHHhCCeEEEeCCCCCC-CCCCc
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999994 89999
Q ss_pred eeeeecccccC--C----CC---chh-HHHHHHHHHHHHHHHhhccccc---cccccC-CCCCCCCCCCceeeccCCCcc
Q 018391 248 AHANYSTKSMR--N----DG---GID-VIKKAIEKLGKRHGEHIAAYGE---GNERRL-TGRHETADINTFSWGVANRGA 313 (356)
Q Consensus 248 ~H~H~Sl~~~~--~----~~---g~~-~~~~fiaGl~L~h~~al~a~~~---nsYkRl-~p~~~ap~~~~~~WG~~NR~a 313 (356)
||+|+|||+.+ + ++ +++ ++++||||| |+|+++++||++ |||||| +|..||| ++++||.+|||+
T Consensus 243 MH~H~Sl~~~dg~nlF~d~~~~~~lS~~~~~~igGi-lkha~~~~ai~~PtvNSYkRl~vp~e~AP--~~~~wg~~NRsa 319 (443)
T COG0174 243 MHVHQSLWDKDGGNLFADEDGYAGLSETALHFIGGI-LKHAPALTAITAPTVNSYKRLGVPYEWAP--TYIAWGVRNRSA 319 (443)
T ss_pred eeEEEEEecCCCCccccCCCCcccHHHHHHHHHHHH-HHHHHHHHhHhCCCcchhhhcCCCcccCc--chhcccccCcce
Confidence 99999999643 2 22 343 689999999 999999999986 999999 5535688 899999999999
Q ss_pred eEeeccCCCCCCccEEEecCCCCCCCHHHHHHHHHHHhhcCC
Q 018391 314 SIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILWK 355 (356)
Q Consensus 314 ~vRvp~~~~~~~~~riE~R~~da~aNPYLalAailaAgl~g~ 355 (356)
+||||.+.....++|||+|+||++|||||++||+|+|||+|+
T Consensus 320 ~iRIP~~~~~~~~~RiE~R~pd~~aNPYLa~AaiL~Agl~GI 361 (443)
T COG0174 320 SVRIPASGANGKARRVEFRVPDPDANPYLAFAAILAAGLDGI 361 (443)
T ss_pred EEEeCCCCCCCCcceeEeeCCCCCCCHHHHHHHHHHHHHHHH
Confidence 999998743334579999999999999999999999999996
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=1.2e-86 Score=670.12 Aligned_cols=330 Identities=22% Similarity=0.298 Sum_probs=282.6
Q ss_pred CcEEEEEEEEEeCCCCcceeeEEeCCCCCC-CCCCCCcccccCCCC-CCCCCCCccEEEEee--eceecCCCCCCeEEEE
Q 018391 16 TEKVIAEYVWIGGSGMDLRSKARTLPAPTT-DPTKLPKWNYDGSST-NQAPGDDSEVILYPQ--TVFKDPFRRGNNILVM 91 (356)
Q Consensus 16 ~~~~~v~~~~~dg~G~~~rgK~~~~~~~~~-~~~~~~~~~~dgs~~-g~~~~~~~D~~l~PD--t~~~~Pw~~~~~a~V~ 91 (356)
.++.+|++.|+|..| .+|||.++.+.+.+ .+++ +.+|+++++ ++...+++|++++|| |++++||.++++|+|+
T Consensus 10 ~~i~~v~~~~~Dl~G-~~rgk~vp~~~~~~~~~~~--G~~~~~~~~~~~~~~~~~D~~l~PD~~Tl~~~pw~~~~~a~v~ 86 (460)
T TIGR00653 10 ENVKFVDLRFTDIKG-KPQHVEIPASALDKEAFEE--GIMFDGSSIRGFQGIEESDMLLKPDPSTAVIDPWRAEKTLRVI 86 (460)
T ss_pred CCCcEEEEEEECCCC-CEeeEEEeHHHhhHHHhcC--CeecccccccccccCCCCcEEEeccCCcceeccCCCCCcEEEE
Confidence 467888888899999 89999988775543 2332 468888887 666678899999999 8999999765699999
Q ss_pred EEeecC-CCccCCCChHHHHHHHHcCcc-cCCCcceEeeeeeEEEeccCCCCCC-----------------CCC-CCCCC
Q 018391 92 CDAYTP-AGEPIPTNKRFNAAKVFGHPD-VVAEEPWYGIEQEYTLLQKDINWPL-----------------GWP-VGGYP 151 (356)
Q Consensus 92 cd~~~~-~G~P~~~~PR~~Lkr~~~~l~-~~G~~~~~g~E~EF~l~~~~~~~~~-----------------~~~-~~~~~ 151 (356)
||+++. ||+|++.|||++|||++++++ ++|+++++|+|+|||||+.+..... ..+ .+..+
T Consensus 87 ~d~~~~~dg~p~~~~PR~~L~r~~~~l~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 166 (460)
T TIGR00653 87 CDVYEPFTGEPYERDPRSIAKRAEEYLKSGIGDTAYFGPEPEFFLFDSVEFGSLANGSFYEVDSEEGRWNEESGNRGYKP 166 (460)
T ss_pred EEEEECCCCCCCCCCHHHHHHHHHHHHHhCCCCceeEEcceEEEEEecCccCcccccceeeeccccccccccCCcCCCcc
Confidence 999998 999999999999999999998 9999999999999999986432100 000 01124
Q ss_pred CCCCCCccccccchhhHHHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCce
Q 018391 152 GPQGPYYCGVGADKALGRDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVV 231 (356)
Q Consensus 152 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ 231 (356)
.+.+.||+....+. ..+++++|+++|+++||+|+++|+|+|||||||++.|+++|+|||++++||++||+||++||++
T Consensus 167 ~~~~~~~~~~~~~~--~~~~~~~i~~~l~~~Gi~v~~~~~E~gpGQ~Ei~l~~~~~l~aAD~~~~~k~~ik~vA~~~G~~ 244 (460)
T TIGR00653 167 RDKGGYFPVAPTDT--AVDIRREMVLYLEQLGFDVEVHHHEVATGQHEIDFKFDTLLKTADDIQTYKYVVKNVARKHGKT 244 (460)
T ss_pred cCCccccCCCCccc--HHHHHHHHHHHHHHcCCCceeeecCcCCCceeEecCCCCHHHHHHHHHHHHHHHHHHHHHhCCE
Confidence 44455666555543 4789999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEecccccCCCCCCceeeeeecccccC-C----C---Cchh-HHHHHHHHHHHHHHHhhccccc---cccccCCCCCCCC
Q 018391 232 LSFDPKPIKGDWNGAGAHANYSTKSMR-N----D---GGID-VIKKAIEKLGKRHGEHIAAYGE---GNERRLTGRHETA 299 (356)
Q Consensus 232 aTFmpKP~~~~~~GsG~H~H~Sl~~~~-~----~---~g~~-~~~~fiaGl~L~h~~al~a~~~---nsYkRl~p~~~ap 299 (356)
|||||||+. +.+|||+|+|+|||+.. | + .+++ ++++||||| |+|+++++||++ ||||||+|++|||
T Consensus 245 ATFmpKP~~-~~~GSG~H~H~Sl~d~g~n~F~d~~~~~~lS~~~~~fiaGi-L~h~~~l~a~~~PtvNSYkRl~p~~~ap 322 (460)
T TIGR00653 245 ATFMPKPLF-GDNGSGMHCHQSLWKDGENLFAGEEGYAGLSETALYYIGGI-LKHAKALAAFTNPTVNSYKRLVPGYEAP 322 (460)
T ss_pred EEEecccCC-CCCcCceeEEECccCCCeeccCCCCCCcccCHHHHHHHHHH-HHHHHHhhhHhcCCCcchhhcCCCCcCc
Confidence 999999999 58999999999999842 1 1 2354 789999999 999999999985 9999999999999
Q ss_pred CCCceeeccCCCcceEeeccCCCCCCccEEEecCCCCCCCHHHHHHHHHHHhhcCC
Q 018391 300 DINTFSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILWK 355 (356)
Q Consensus 300 ~~~~~~WG~~NR~a~vRvp~~~~~~~~~riE~R~~da~aNPYLalAailaAgl~g~ 355 (356)
++++||.+||+++||||.... ...+|||+|++|++|||||++||+|+|||+|+
T Consensus 323 --~~~~WG~~NR~a~iRvp~~~~-~~~~riE~R~~da~aNPYLalAa~laAGl~Gi 375 (460)
T TIGR00653 323 --VYLAYSARNRSALIRIPASGN-PKAKRIEFRFPDPSANPYLAFAAMLMAGLDGI 375 (460)
T ss_pred --ceeecccCCCCceEEecCCCC-CcCceEEecCCCCCCCHHHHHHHHHHHHHHHH
Confidence 899999999999999996531 23579999999999999999999999999996
No 5
>PRK09469 glnA glutamine synthetase; Provisional
Probab=100.00 E-value=1.8e-85 Score=662.46 Aligned_cols=330 Identities=21% Similarity=0.281 Sum_probs=279.2
Q ss_pred CcEEEEEEEEEeCCCCcceeeEEeCCCCCC-CCCCCCcccccCCCC-CCCCCCCccEEEEee--eceecCCCCCCeEEEE
Q 018391 16 TEKVIAEYVWIGGSGMDLRSKARTLPAPTT-DPTKLPKWNYDGSST-NQAPGDDSEVILYPQ--TVFKDPFRRGNNILVM 91 (356)
Q Consensus 16 ~~~~~v~~~~~dg~G~~~rgK~~~~~~~~~-~~~~~~~~~~dgs~~-g~~~~~~~D~~l~PD--t~~~~Pw~~~~~a~V~ 91 (356)
.++.+|++.++|..| .+|||.++.+.+.+ .+++ |..|+++++ |+...+++|++++|| |++++||.+.++|+|+
T Consensus 13 ~~i~~v~~~~~Dl~G-~~rgk~ip~~~~~~~~~~~--G~~f~~~~~~g~~~~~~~D~~l~PD~~Tl~~~Pw~~~~~a~v~ 89 (469)
T PRK09469 13 HEVKFVDLRFTDTKG-KEQHVTIPAHQVNADFFEE--GKMFDGSSIGGWKGINESDMVLMPDASTAVLDPFFEDSTLIIR 89 (469)
T ss_pred CCCCEEEEEEECCCC-CEeEEEEEHHHhhHHHhcC--CceeccccccccCcCCCCCEEEEEcCCccEECCcCCCCcEEEE
Confidence 467888888888888 89999988876553 2333 467898887 665668999999999 8999999654599999
Q ss_pred EEeecCC-CccCCCChHHHHHHHHcCcccCCC--cceEeeeeeEEEeccCC---CCC----------CCCCC--------
Q 018391 92 CDAYTPA-GEPIPTNKRFNAAKVFGHPDVVAE--EPWYGIEQEYTLLQKDI---NWP----------LGWPV-------- 147 (356)
Q Consensus 92 cd~~~~~-G~P~~~~PR~~Lkr~~~~l~~~G~--~~~~g~E~EF~l~~~~~---~~~----------~~~~~-------- 147 (356)
||+++.+ |+|++.|||++|||++++++++|+ ++++|+|+|||||+++. ... ..+..
T Consensus 90 ~d~~~~~~g~p~~~~PR~iLkr~~~~l~~~G~~~~~~~g~ElEF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 169 (469)
T PRK09469 90 CDILEPGTMQGYDRDPRSIAKRAEDYLRSTGIADTVLFGPEPEFFLFDDIRFGSSISGSHVAIDDIEAAWNSGTKYEGGN 169 (469)
T ss_pred EEEEECCCCCcCCcCHHHHHHHHHHHHHHcCCCcceeEecceEEEEEeccccccCccccccccccchhcccccccccCCC
Confidence 9999985 899999999999999999999999 99999999999998533 100 00000
Q ss_pred -CCCCCCCCCCccccccchhhHHHHHHHHHHHHHHcCceeeeecCCCC-CCcEEEEeCCCchhhhhHHHHHHHHHHHHHH
Q 018391 148 -GGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGINISGINGEVM-PGQWEFQVGPCVGISSGDQLWMARYILERIT 225 (356)
Q Consensus 148 -~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~~E~g-pGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA 225 (356)
+..+.+.+.||+..+.+. ..+++++|+++|+++||+|+++|||+| ||||||+|.|.++|+|||++++||++||+||
T Consensus 170 ~~~~~~~~~~~y~~~~~~~--~~~~~~~i~~~l~~~Gi~v~~~h~E~g~~GQ~Ei~l~~~d~L~aaD~~~~~k~~vk~va 247 (469)
T PRK09469 170 KGHRPGVKGGYFPVPPVDS--SQDIRSAMCLVMEEMGLVVEAHHHEVATAGQNEVATRFNTMTKKADEIQIYKYVVHNVA 247 (469)
T ss_pred CCCccCCCccccCCCcccc--hHHHHHHHHHHHHHCCCCcEEeeCCCCCCCeEEEeccCCCHHHHHHHHHHHHHHHHHHH
Confidence 002233344565555544 479999999999999999999999999 5999999999999999999999999999999
Q ss_pred HHcCceEEecccccCCCCCCceeeeeecccccC-C------CCchh-HHHHHHHHHHHHHHHhhccccc---cccccCCC
Q 018391 226 EIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMR-N------DGGID-VIKKAIEKLGKRHGEHIAAYGE---GNERRLTG 294 (356)
Q Consensus 226 ~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~-~------~~g~~-~~~~fiaGl~L~h~~al~a~~~---nsYkRl~p 294 (356)
++||++|||||||+. +.+|||||+|+|||+.. | ..+++ .+++||||| |+|+++++||++ ||||||+|
T Consensus 248 ~~~g~~atFmpKP~~-~~~GsG~H~H~Sl~~~g~N~F~~~~~~~ls~~~~~fiaGl-L~h~~~l~a~~~PtvNSYkRl~p 325 (469)
T PRK09469 248 HAFGKTATFMPKPMF-GDNGSGMHCHMSLSKNGVNLFAGDKYAGLSEQALYYIGGI-IKHAKAINALANPTTNSYKRLVP 325 (469)
T ss_pred HHhCCEEEEeccccC-CCCCceeEEEEeecCCCccccCCCCcCCcCHHHHHHHHHH-HHHHHHHHhhhcCCCchHhhcCC
Confidence 999999999999999 58999999999999842 1 13354 789999999 999999999985 99999999
Q ss_pred CCCCCCCCceeeccCCCcceEeeccCCCCCCccEEEecCCCCCCCHHHHHHHHHHHhhcCC
Q 018391 295 RHETADINTFSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILWK 355 (356)
Q Consensus 295 ~~~ap~~~~~~WG~~NR~a~vRvp~~~~~~~~~riE~R~~da~aNPYLalAailaAgl~g~ 355 (356)
++||| ++++||.+||+++||||... ....+|||+|++|++|||||++||+|+|||+|+
T Consensus 326 ~~~ap--~~~~WG~~NR~a~iRvp~~~-~~~~~riE~R~~da~aNPYL~~AaiLaAGldGI 383 (469)
T PRK09469 326 GYEAP--VMLAYSARNRSASIRIPVVA-SPKARRIEVRFPDPAANPYLCFAALLMAGLDGI 383 (469)
T ss_pred CCcCc--CcceecCCCCcceEEeccCC-CCCCceEEecCCCCCCCHHHHHHHHHHHHHHHH
Confidence 99999 89999999999999999522 223579999999999999999999999999996
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=4.8e-84 Score=647.62 Aligned_cols=322 Identities=21% Similarity=0.254 Sum_probs=272.2
Q ss_pred CcEEEEEEEEEeCCCCcceeeEEeCCCCCCCCCCCCcccccCCCCC--CCCCCCccEEEEee--eceecCCCCCCeEEEE
Q 018391 16 TEKVIAEYVWIGGSGMDLRSKARTLPAPTTDPTKLPKWNYDGSSTN--QAPGDDSEVILYPQ--TVFKDPFRRGNNILVM 91 (356)
Q Consensus 16 ~~~~~v~~~~~dg~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~g--~~~~~~~D~~l~PD--t~~~~Pw~~~~~a~V~ 91 (356)
.++.+|++.|+|..| .+|||.++.+.+.+.+++ +.+|+++++. ....+++|++++|| |++++||.++ +++|+
T Consensus 8 ~~i~~v~~~~~D~~G-~~r~k~vp~~~~~~~~~~--G~~~~~~~~~~~~~~~~~~D~~l~PD~~Tl~~~pw~~~-~a~v~ 83 (435)
T TIGR03105 8 KGIKYFLASFVDLHG-VQKAKLVPAEAIDHMATG--GAGFAGFAAWGLGQSPADPDLMAIPDLDSLTQLPWQPG-VAWVA 83 (435)
T ss_pred CCCCEEEEEEECCCC-CeeEEEEeHHHHHHHHcC--CCcccchhhhccCCCCCCCCEEEEeccccceeCCCCCC-eEEEE
Confidence 367888889999999 899999887655553333 4567777653 22347899999999 8999999886 99999
Q ss_pred EEeecCCCccCCCChHHHHHHHHcCcccCCCcceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhhHHHH
Q 018391 92 CDAYTPAGEPIPTNKRFNAAKVFGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDI 171 (356)
Q Consensus 92 cd~~~~~G~P~~~~PR~~Lkr~~~~l~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 (356)
||++. +|+|++.|||++|||++++++++|+++++|+|+|||||+++.+.... +....+....++|+...... .+++
T Consensus 84 ~d~~~-~G~p~~~~PR~vL~r~~~~~~~~G~~~~~g~E~EF~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~--~~~~ 159 (435)
T TIGR03105 84 ADLHV-NGKPYPQAPRVVLKRQLAEAAELGLTLNTGVECEFFLLRRDEDGSLS-IADRADTLAKPCYDQRGLMR--RYDV 159 (435)
T ss_pred EEEee-CCCcCCCCHHHHHHHHHHHHHhcCCceeEEeceEEEEEecCCCCCcc-cCCCCCCCCccCCCCcchhh--hhHH
Confidence 99976 89999999999999999999999999999999999999875431111 00001111123444444333 4799
Q ss_pred HHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeee
Q 018391 172 VNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHAN 251 (356)
Q Consensus 172 ~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H 251 (356)
+++|.++|+++||+|+++|+|+|||||||++.|.++|+|||++++||++||+||++||++|||||||+. +.+|||+|+|
T Consensus 160 ~~~i~~~l~~~gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~vk~vA~~~Gl~atFmpKP~~-~~~GsG~H~H 238 (435)
T TIGR03105 160 LTEISDAMNALGWDPYQNDHEDANGQFEMNFTYADALTTADRHAFFRYMVKEIAEKHGMRATFMPKPFA-DLTGNGCHFH 238 (435)
T ss_pred HHHHHHHHHHCCCCeEEeecCcCCCceEEecCcchHHHHHHHHHHHHHHHHHHHHHhCCEEEecCccCC-CCCccceEEE
Confidence 999999999999999999999999999999999999999999999999999999999999999999999 6999999999
Q ss_pred ecccccC--C-------C--Cchh-HHHHHHHHHHHHHHHhhccccc---cccccCCCC------CCCCCCCceeeccCC
Q 018391 252 YSTKSMR--N-------D--GGID-VIKKAIEKLGKRHGEHIAAYGE---GNERRLTGR------HETADINTFSWGVAN 310 (356)
Q Consensus 252 ~Sl~~~~--~-------~--~g~~-~~~~fiaGl~L~h~~al~a~~~---nsYkRl~p~------~~ap~~~~~~WG~~N 310 (356)
+|||+.+ | + .+++ .+++||||| |+|+++++||++ ||||||+|+ +||| +++|||.+|
T Consensus 239 ~Sl~d~~g~n~f~d~~~~~~~~lS~~~~~fiaGl-L~h~~~l~a~~~PtvNSYkRl~p~~~~~~~~~AP--~~~~WG~~N 315 (435)
T TIGR03105 239 LSLWDEDGRNLFADDSDPNGLGLSKLAYHFIGGI-LHHAPALCAVLAPTVNSYKRLNAPRTTSGATWAP--NFISYGGNN 315 (435)
T ss_pred EeeecCCCcccccCCCCCccccccHHHHHHHHHH-HHHHHHHHHHHCCCCccccccCCCcCCcCcccCC--ceeeccCCC
Confidence 9999632 1 1 1254 689999999 999999999985 999999995 7999 899999999
Q ss_pred CcceEeeccCCCCCCccEEEecCCCCCCCHHHHHHHHHHHhhcCC
Q 018391 311 RGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILWK 355 (356)
Q Consensus 311 R~a~vRvp~~~~~~~~~riE~R~~da~aNPYLalAailaAgl~g~ 355 (356)
|+++||||. .+|||+|++|++|||||++||+|+||++|+
T Consensus 316 R~a~iRv~~------~~riE~R~~da~aNPYL~lAailaAgl~Gi 354 (435)
T TIGR03105 316 RTHMVRIPD------PGRFELRLADGAANPYLAQAAILAAGLDGI 354 (435)
T ss_pred CceeEeccC------CCeeEecCCCCCCCHHHHHHHHHHHHHHHH
Confidence 999999992 369999999999999999999999999996
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=9.5e-72 Score=525.60 Aligned_cols=240 Identities=28% Similarity=0.484 Sum_probs=199.7
Q ss_pred CCChHHHHHHHHcCcccCCCcceEeeeeeEEEeccCCCCCCCCC-CCCCC----CCCCCCccccccchhhHHHHHHHHHH
Q 018391 103 PTNKRFNAAKVFGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWP-VGGYP----GPQGPYYCGVGADKALGRDIVNSHYK 177 (356)
Q Consensus 103 ~~~PR~~Lkr~~~~l~~~G~~~~~g~E~EF~l~~~~~~~~~~~~-~~~~~----~~~~~~~~~~~~~~~~~~~~~~~l~~ 177 (356)
+.|||++|||++++++++|+++++|+|+|||||+++.. .+++ ..+.+ ...+++|+....+. ..++++++++
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 47999999999999999999999999999999998632 1111 01111 12345555544333 4799999999
Q ss_pred HHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeeccccc
Q 018391 178 ACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSM 257 (356)
Q Consensus 178 ~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~ 257 (356)
+|+++||+|+++|+|+|||||||++.|.++|+|||+++++|++||+||+|||++|||||||+. +.+|||+|+|+|||+.
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 5899999999999973
Q ss_pred -CC------C-C--chh-HHHHHHHHHHHHHHHhhccccc---cccccCCCCCCCCCCCceeeccCCCcceEeeccCCCC
Q 018391 258 -RN------D-G--GID-VIKKAIEKLGKRHGEHIAAYGE---GNERRLTGRHETADINTFSWGVANRGASIRVGRDTEK 323 (356)
Q Consensus 258 -~~------~-~--g~~-~~~~fiaGl~L~h~~al~a~~~---nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~~~~ 323 (356)
++ + + +++ .+++||||| |+|+++|+||++ ||||||+|++||| ++++||.+||+++||||... .
T Consensus 156 ~~g~n~f~~~~~~~~ls~~~~~flaGl-l~h~~~l~a~~~pt~nsykRl~~~~~ap--~~~~wG~~NR~a~iRi~~~~-~ 231 (259)
T PF00120_consen 156 KDGKNLFYDPDGPAGLSELARHFLAGL-LKHAPALTAFTAPTVNSYKRLVPGSWAP--TYISWGYDNRSAAIRIPSGG-G 231 (259)
T ss_dssp HTTEETTBSTTSHGHHHHHHHHHHHHH-HCHHHHHHHCHSTSTTHHHHSSSTSSSS--SBEEEEESHTTSSEEE-HHH-H
T ss_pred cccccccccccccccccHHHHHHHHHH-HHHHHHHHhhhCccCcchhhCCCCccce--eccchhhcccchhhheeccc-c
Confidence 21 2 2 344 679999999 999999999975 9999999999999 89999999999999999761 1
Q ss_pred CCccEEEecCCCCCCCHHHHHHHHHHHh
Q 018391 324 EGKGYFEDRRPASNMDPYVVTSMIAETT 351 (356)
Q Consensus 324 ~~~~riE~R~~da~aNPYLalAailaAg 351 (356)
.+.+|||+|++|++|||||++||+|+||
T Consensus 232 ~~~~~~E~R~~da~aNPYL~laailaAG 259 (259)
T PF00120_consen 232 PKGTRIENRLPDADANPYLALAAILAAG 259 (259)
T ss_dssp HGGSEEEEESSBTTSSHHHHHHHHHHHH
T ss_pred ccccEEeccCCCCCcCHHHHHHHHHhcC
Confidence 2357999999999999999999999998
No 8
>KOG0683 consensus Glutamine synthetase [Amino acid transport and metabolism]
Probab=100.00 E-value=4.1e-53 Score=400.31 Aligned_cols=349 Identities=64% Similarity=1.145 Sum_probs=322.7
Q ss_pred hHHhhcCCCCCCCcEEEEEEEEEeCCCCcceeeEEeCCCCCCCCCCCCcccccCCCCCCCCCCCccEEEEeeeceecCCC
Q 018391 4 LNDLLNLNLSESTEKVIAEYVWIGGSGMDLRSKARTLPAPTTDPTKLPKWNYDGSSTNQAPGDDSEVILYPQTVFKDPFR 83 (356)
Q Consensus 4 ~~~~~~~~~~~~~~~~~v~~~~~dg~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~g~~~~~~~D~~l~PDt~~~~Pw~ 83 (356)
...||.| +.+.+.+++.|+|+|+.|+.+|+|.++++...+.+++++.|+|||++++++++.+||.+++|..+...|++
T Consensus 17 ~~~~~~L--~~~~~kv~a~YVwidg~ge~~rsk~rt~d~~~~~~~~lp~wnydgsst~QA~g~nSd~~l~Pva~~~dPfr 94 (380)
T KOG0683|consen 17 ILEYLYL--RAKRKKVQAEYVWIDGTGENLRSKTRTLDAEPSSISELPIWNYDGSSTGQAPGENSDVYLRPVAIYPDPFR 94 (380)
T ss_pred hhhhccc--cccCceEEEEEEEecCccccchhhcccccCCccCcccCccccccCcccccccCCCCceEEeehhhcCCccc
Confidence 4566667 55579999999999999999999999999999999999999999999999998999999999988899999
Q ss_pred CCCeEEEEEEeecCCCccCCCChHHHHHHHHcCcccCCCcceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCcccccc
Q 018391 84 RGNNILVMCDAYTPAGEPIPTNKRFNAAKVFGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGA 163 (356)
Q Consensus 84 ~~~~a~V~cd~~~~~G~P~~~~PR~~Lkr~~~~l~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (356)
.+...+|+|+.++.+|.|.+.+-|..+.+++...+-..-++++|.|.||.+++.+..+++|||..++|.++++|||....
T Consensus 95 ~g~Nilv~c~~~~~~~~P~~tn~R~~c~~~~~~~~~~~~~PWfg~Eqeyt~l~~~~~~p~gwp~~GFp~Pqgpyyc~VGa 174 (380)
T KOG0683|consen 95 NGNNILVMCDTYDFDGKPTETNKRVACARIMPKLSTKDTEPWFGMEQEYTLLDALDGHPFGWPKGGFPGPQGPYYCGVGA 174 (380)
T ss_pred CCCCEEEEeeccCCCCCcccccchhhHHHHhccccccccCCchhhhHHHhhhccccCCcccCCccCCCCCCCCceeeccc
Confidence 98889999999999999999999999999999998889999999999999999966678999999999999999999888
Q ss_pred chhhHHHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCC
Q 018391 164 DKALGRDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDW 243 (356)
Q Consensus 164 ~~~~~~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~ 243 (356)
+..+.+++.+.-+.++--+||++..++.|+.||||||.+.|+.++.++|+++++|+++++||+++|+.|||.|||..++|
T Consensus 175 d~~~~rdiveahy~acLyaGl~i~G~N~EvmPgQwEfqvGp~~GI~~gD~lw~aR~il~rVae~~Gviasf~pKp~~g~W 254 (380)
T KOG0683|consen 175 DRVFGRDIVEAHYRACLYAGLNISGINVEVMPGQWEFQVGPCEGISMGDQLWMARYILHRVAEKFGVIASFDPKPILGDW 254 (380)
T ss_pred cccccchhhhhhHHHHHhhheeeccccccccCceeEEeecchhcccchhhHHHHHHHHHHHHHHhCeeEEecCCCCCCcc
Confidence 88788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCceeeeeecccccCCCCchhHHHHHHHHHHHHHHHhhccccc----cccccCCCCCCCCCCCceeeccCCCcceEeecc
Q 018391 244 NGAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGE----GNERRLTGRHETADINTFSWGVANRGASIRVGR 319 (356)
Q Consensus 244 ~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl~L~h~~al~a~~~----nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~ 319 (356)
+|+|+|.++|...+..++|.++....+..+..+|..++.+.-+ .+-+||...+++...+..+||.-||.+.||||.
T Consensus 255 ngaG~Htn~ST~~mr~~~g~~~i~~a~~~ls~rh~~hi~~ydp~~G~dN~rrltg~hEt~~i~~Fs~GvAnr~~siri~r 334 (380)
T KOG0683|consen 255 NGAGCHTNFSTKEMREAGGLKIIEEAIPKLSKRHREHIAAYDPKGGKDNERRLTGRHETGSIDNFSWGVANRNPSIRIPR 334 (380)
T ss_pred cCcccccccchhHHHhccCHHHHHHHhhhcchhhhhhhhhcCccCCccchhhhcCCCccccccccccccccCCceeeech
Confidence 9999999999987666678888889999998899999999853 567888876788877889999999999999998
Q ss_pred CCCCCCccEEEecCCCCCCCHHHHHHHHHHHhhcC
Q 018391 320 DTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILW 354 (356)
Q Consensus 320 ~~~~~~~~riE~R~~da~aNPYLalAailaAgl~g 354 (356)
.......+.+|.|.||..+.||+|..+++-..|+.
T Consensus 335 ~va~~~~Gy~edrrP~sN~Dpy~Vt~~~~~t~l~~ 369 (380)
T KOG0683|consen 335 TVAAEGKGYFEDRRPSSNCDPYAVTLMIIPTTLLE 369 (380)
T ss_pred hhhcccccccccCCCcCCCCcceeeHHHhhHHHhc
Confidence 77666678999999999999999999999887764
No 9
>COG3968 Uncharacterized protein related to glutamine synthetase [General function prediction only]
Probab=99.74 E-value=4.1e-17 Score=158.83 Aligned_cols=218 Identities=25% Similarity=0.332 Sum_probs=153.9
Q ss_pred CcceEeeeeeEEEeccCCC--CC----CCCCCCCCCCCC-----CCCccccccchhhHHHHHHHHHHHHHHcCceeeeec
Q 018391 122 EEPWYGIEQEYTLLQKDIN--WP----LGWPVGGYPGPQ-----GPYYCGVGADKALGRDIVNSHYKACLYAGINISGIN 190 (356)
Q Consensus 122 ~~~~~g~E~EF~l~~~~~~--~~----~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~ 190 (356)
.-..+|.|+||||++++.- .+ .|...=+.+.+. -+||...+. ....++.++...|-++||++..-|
T Consensus 214 V~s~~GaEQEYFlvd~~~~~~RpDLi~tGRTLFGa~ppkGQEldDHYFGaipe---RV~~FM~Dve~~LyaLGIpaKTrH 290 (724)
T COG3968 214 VFSNVGAEQEYFLVDKKSYDERPDLIFTGRTLFGAPPPKGQELDDHYFGAIPE---RVSAFMKDVEKELYALGIPAKTRH 290 (724)
T ss_pred hccCCCccceeEEechhhcccCcceeeechhhcCCCCCCCccccchhccccHH---HHHHHHHHHHHHHHHcCCcccccc
Confidence 4567999999999987531 00 011000112121 256665442 246788888888999999999999
Q ss_pred CCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCC-----CCch--
Q 018391 191 GEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRN-----DGGI-- 263 (356)
Q Consensus 191 ~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~-----~~g~-- 263 (356)
.|++||||||.--+.++--|+|+-.+.-+++|.+|+|||+..-..-|||.| .+|||-|.+||+-...+ ++++
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 999999999999999999999999999999999999999999999999995 99999999999953221 1111
Q ss_pred -h----H-HHHHHHHHHHHHHHhhccccc--cccccCCCCCCCCCCCcee------------------------------
Q 018391 264 -D----V-IKKAIEKLGKRHGEHIAAYGE--GNERRLTGRHETADINTFS------------------------------ 305 (356)
Q Consensus 264 -~----~-~~~fiaGl~L~h~~al~a~~~--nsYkRl~p~~~ap~~~~~~------------------------------ 305 (356)
+ + +...|-++ -++.+-|-+-.+ .+-.||..+ +||+ .-++
T Consensus 370 dN~QFL~Fc~AvIkaV-dkY~~LlRa~~a~AsNDhRLGAN-EAPP-AI~SVflGdqLedifEqi~~G~~~ssk~~g~mdL 446 (724)
T COG3968 370 DNKQFLLFCTAVIKAV-DKYADLLRASAANASNDHRLGAN-EAPP-AIISVFLGDQLEDIFEQIEKGKATSSKGNGKMDL 446 (724)
T ss_pred ccceeehhhHHHHHHH-HHHHHHHHHHHhccCCccccccC-CCCc-ceeEeeccchHHHHHHHHhcCCCcccccCccccc
Confidence 1 1 12346666 566555554432 445677654 4542 2222
Q ss_pred -----------eccCCCcceEeeccCCCCCCccEEEecCCCCC---CCHHHHHHHHHHHhhc
Q 018391 306 -----------WGVANRGASIRVGRDTEKEGKGYFEDRRPASN---MDPYVVTSMIAETTIL 353 (356)
Q Consensus 306 -----------WG~~NR~a~vRvp~~~~~~~~~riE~R~~da~---aNPYLalAailaAgl~ 353 (356)
-|..||+.++-.. +.+||+|.++++ +-|-.++-+++|-.|.
T Consensus 447 g~~vlP~v~kdAgDRNRTSPFAFT-------GNkFEFRavgSSqSvs~P~tVLN~~vAesl~ 501 (724)
T COG3968 447 GISVLPAVEKDAGDRNRTSPFAFT-------GNKFEFRAVGSSQSVSEPNTVLNVIVAESLS 501 (724)
T ss_pred chhhccccccccccccCCCCceec-------cceeeEecCCcccccccchHHHHHHHHHHHH
Confidence 3456666655543 368999999876 5688999888886553
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=99.47 E-value=2.2e-13 Score=107.00 Aligned_cols=79 Identities=27% Similarity=0.428 Sum_probs=62.3
Q ss_pred cEEEEEEEEEeCCCCcceeeEEeCCCCCCCCCCCCcccccCCCC-CCCCCCCccEEEEee--eceecCCCCCC--eEEEE
Q 018391 17 EKVIAEYVWIGGSGMDLRSKARTLPAPTTDPTKLPKWNYDGSST-NQAPGDDSEVILYPQ--TVFKDPFRRGN--NILVM 91 (356)
Q Consensus 17 ~~~~v~~~~~dg~G~~~rgK~~~~~~~~~~~~~~~~~~~dgs~~-g~~~~~~~D~~l~PD--t~~~~Pw~~~~--~a~V~ 91 (356)
++.+|++.|+|+.| .++.++++.+...+...+ .+++||||++ ||.++++||++|+|| |++++||++++ +++|+
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 46899999999999 778888776544211111 2469999999 999999999999999 89999999865 99999
Q ss_pred EEeecC
Q 018391 92 CDAYTP 97 (356)
Q Consensus 92 cd~~~~ 97 (356)
||+|+|
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=98.71 E-value=5.5e-07 Score=86.40 Aligned_cols=188 Identities=18% Similarity=0.177 Sum_probs=113.0
Q ss_pred eEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhhHHHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCC
Q 018391 125 WYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGP 204 (356)
Q Consensus 125 ~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~ 204 (356)
.+|+|.||+|+|+... .+.. ... .+++.++.. ..+ ..+++|...+|.||+..|
T Consensus 1 t~GvE~E~~lvD~~t~---------~~~~---------~~~---~~~l~~~~~---~~~---~~~~~El~~~qiEi~t~p 53 (287)
T TIGR02050 1 TLGVEEELLLVDPHTY---------DLAA---------SAS---AVLIGACRE---KIG---AGFKHELFESQVELATPV 53 (287)
T ss_pred CceeeeeeeeEcCCcc---------CcCc---------cCh---HHHHHhhhh---hcc---cccChhhhccEEEecCCC
Confidence 3799999999997541 1110 000 144444321 222 348999999999999999
Q ss_pred C-chhhhhHHHHHHHHHHHHHHHHcCceEEeccc-ccCC------------------------CCCCceeeeeecccccC
Q 018391 205 C-VGISSGDQLWMARYILERITEIAGVVLSFDPK-PIKG------------------------DWNGAGAHANYSTKSMR 258 (356)
Q Consensus 205 ~-~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpK-P~~~------------------------~~~GsG~H~H~Sl~~~~ 258 (356)
. +.-++.+.+..++..++++|+++|+...-.-- |+.. +..-+|+|+|+++-+.
T Consensus 54 ~~~~~~l~~~l~~~~~~l~~~a~~~g~~l~~~G~hP~~~~~~~~~~~~~RY~~m~~~~g~~~~~~~~~g~hVhv~v~d~- 132 (287)
T TIGR02050 54 CTTLAEAAAQIRAVRARLVQAASDHGLRICGAGTHPFARWRRQEVADNPRYQRLLERYGYVARQQLVFGLHVHVGVPSP- 132 (287)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHcCCEEEeccCCCCCCCccCCCCcHHHHHHHHHHHHHHHHhHceeeEEEEeCCCCH-
Confidence 7 56679999999999999999999986543322 3320 1124889999999642
Q ss_pred CCCchhHHHHHHHHHHHHHHHhhccccccc------------cccC----CCCCCCCCCCceeec--------------c
Q 018391 259 NDGGIDVIKKAIEKLGKRHGEHIAAYGEGN------------ERRL----TGRHETADINTFSWG--------------V 308 (356)
Q Consensus 259 ~~~g~~~~~~fiaGl~L~h~~al~a~~~ns------------YkRl----~p~~~ap~~~~~~WG--------------~ 308 (356)
..+-..+..+ ..++|.+.|+++|| ||.. .|..- +.+..-+|. .
T Consensus 133 -----~~~i~~~n~l-~~~lP~llALsANSPf~~G~dtg~~s~R~~i~~~~p~~G-~p~~f~~~~~y~~~~~~l~~~g~i 205 (287)
T TIGR02050 133 -----DDAVAVLNRL-LPWLPHLLALSASSPFWQGFDTGYASYRRNIFQAWPTAG-LPPAFGSWDAFEAYFADLLETGVI 205 (287)
T ss_pred -----HHHHHHHHHH-HHHHHHHHHHHhCCccccCcCCchHHHHHHHHHhCCCCC-CCCcCCCHHHHHHHHHHHHHcCCc
Confidence 1223334445 56677777776543 2211 11111 112444553 1
Q ss_pred CCCcce---EeeccCCCCCCccEEEecCCCCCCCH--HHHHHHHHHHhh
Q 018391 309 ANRGAS---IRVGRDTEKEGKGYFEDRRPASNMDP--YVVTSMIAETTI 352 (356)
Q Consensus 309 ~NR~a~---vRvp~~~~~~~~~riE~R~~da~aNP--YLalAailaAgl 352 (356)
.++... ||... +-.++|+|++|+..++ .+++||++.+-+
T Consensus 206 ~~~~~iww~vRp~~-----~~~tvE~Rv~D~~~~~~~~~~~aal~~~Lv 249 (287)
T TIGR02050 206 DDDGDLWWDIRPSP-----HFGTVEVRVADTCLNLEHAVAIAALIRALV 249 (287)
T ss_pred CCCCeeEEEeccCC-----CCCCeeEEcCCCCCCHHHHHHHHHHHHHHH
Confidence 222222 55321 2358999999988766 455666665543
No 12
>PRK13516 gamma-glutamyl:cysteine ligase; Provisional
Probab=98.59 E-value=1.7e-06 Score=85.98 Aligned_cols=130 Identities=18% Similarity=0.167 Sum_probs=84.8
Q ss_pred cceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhhHHHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEe
Q 018391 123 EPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGINISGINGEVMPGQWEFQV 202 (356)
Q Consensus 123 ~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l 202 (356)
.+.+|+|.||+|+++++. .+. +. ..++++.+ .... --+.+.+|...+|.|++.
T Consensus 11 ~~t~GvE~E~~LVD~~t~---------~~~---------~~----~~~vl~~~----~~~~-~~~~v~~El~~~qIEi~T 63 (373)
T PRK13516 11 PFTLGVELELQLVNPHDY---------DLT---------QD----SSDLLRAV----KNQP-TAGEIKPEITESMIEIAT 63 (373)
T ss_pred CCeeEEEEEEEeEcCCCc---------CcC---------cc----HHHHHHhc----cccc-cccccChhhhCceEEEcC
Confidence 459999999999997541 110 00 13444332 1100 023688999999999999
Q ss_pred CCC-chhhhhHHHHHHHHHHHHHHHHcCceEEeccc-ccCCCC-------------------------CCceeeeeeccc
Q 018391 203 GPC-VGISSGDQLWMARYILERITEIAGVVLSFDPK-PIKGDW-------------------------NGAGAHANYSTK 255 (356)
Q Consensus 203 ~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpK-P~~~~~-------------------------~GsG~H~H~Sl~ 255 (356)
.|. +.-++.+.+...+..++++|+++|+..-=..- |+. ++ .-+|+|||+.+-
T Consensus 64 ~p~~~~~el~~eL~~~r~~l~~~A~~~G~~lva~GthP~~-~~~~~~it~~~RY~~l~~~~~~~~~~~~i~G~HVHvg~~ 142 (373)
T PRK13516 64 GVCRDIDQALGQLSAMRDVLVQAADKLNIGICGGGTHPFQ-QWQRQRICDNPRFQYLSELYGYLAKQFTVFGQHVHIGCP 142 (373)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHcCCEEEeecCCCCC-CccccCCCCcHHHHHHHHHhhhhhhhheeeeeEEEeCCC
Confidence 997 55579999999999999999999986532211 221 11 246899999875
Q ss_pred ccCCCCchhHHHHHHHHHHHHHHHhhcccccc
Q 018391 256 SMRNDGGIDVIKKAIEKLGKRHGEHIAAYGEG 287 (356)
Q Consensus 256 ~~~~~~g~~~~~~fiaGl~L~h~~al~a~~~n 287 (356)
+. ...-..+..+ ..++|.|+|+++|
T Consensus 143 d~------~~av~~~~~l-~~~lP~llALsAs 167 (373)
T PRK13516 143 SG------DDALYLLHGL-SRYVPHFIALSAS 167 (373)
T ss_pred CH------HHHHHHHHHH-HhHhHHHHHHHhC
Confidence 42 1223345555 5666777777643
No 13
>PRK13515 carboxylate-amine ligase; Provisional
Probab=98.51 E-value=2.4e-06 Score=84.84 Aligned_cols=131 Identities=15% Similarity=0.132 Sum_probs=86.8
Q ss_pred cceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhhHHHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEe
Q 018391 123 EPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGINISGINGEVMPGQWEFQV 202 (356)
Q Consensus 123 ~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l 202 (356)
.+.+|+|.||+++++... .+.. . ..+++... ... .-..+++|..-+|.||+.
T Consensus 5 ~~t~GvE~E~~lVD~~t~---------~l~~---------~----~~~~l~~~----~~~--~~~~i~~El~~~qiEi~T 56 (371)
T PRK13515 5 EFTLGIEEEYLLVDPETR---------DLRS---------Y----PDALVEAC----RDT--LGEQVKPEMHQSQVEVGT 56 (371)
T ss_pred CCcceEeEeEEEecCCcc---------cccc---------c----HHHHHHhc----hhh--cCCccCcchhccEEEECC
Confidence 468999999999997531 1100 0 12333321 111 123789999999999999
Q ss_pred CCC-chhhhhHHHHHHHHHHHHHHHHcCceEEeccc-ccCC------------------------CCCCceeeeeecccc
Q 018391 203 GPC-VGISSGDQLWMARYILERITEIAGVVLSFDPK-PIKG------------------------DWNGAGAHANYSTKS 256 (356)
Q Consensus 203 ~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpK-P~~~------------------------~~~GsG~H~H~Sl~~ 256 (356)
.|. +.-++.+.+...+..+.++|+++|+...=+.- |+.. ...-+|+|+|+++-+
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 997 55578899999999999999999997732211 1110 113468999999854
Q ss_pred cCCCCchhHHHHHHHHHHHHHHHhhccccccc
Q 018391 257 MRNDGGIDVIKKAIEKLGKRHGEHIAAYGEGN 288 (356)
Q Consensus 257 ~~~~~g~~~~~~fiaGl~L~h~~al~a~~~ns 288 (356)
. ..+..++..+ ...+|.|.|+++||
T Consensus 137 ~------e~~~~~~n~~-~~~lP~llALsanS 161 (371)
T PRK13515 137 R------EDRIDLMNQV-RYFLPHLLALSTSS 161 (371)
T ss_pred H------HHHHHHHHHH-HHHHHHHHHHHcCC
Confidence 2 1234455566 67778788877665
No 14
>PRK13517 carboxylate-amine ligase; Provisional
Probab=98.50 E-value=1.6e-06 Score=86.11 Aligned_cols=132 Identities=18% Similarity=0.219 Sum_probs=88.8
Q ss_pred cceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhhHHHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEe
Q 018391 123 EPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGINISGINGEVMPGQWEFQV 202 (356)
Q Consensus 123 ~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l 202 (356)
.+.+|+|.||++++..+. .+. +. ..++++.+ ... -.-..+..|...+|.||+.
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 00 13444332 211 1124688999999999999
Q ss_pred CCC-chhhhhHHHHHHHHHHHHHHHHcCceEE---ecccccCCC----------------------CCCceeeeeecccc
Q 018391 203 GPC-VGISSGDQLWMARYILERITEIAGVVLS---FDPKPIKGD----------------------WNGAGAHANYSTKS 256 (356)
Q Consensus 203 ~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~aT---FmpKP~~~~----------------------~~GsG~H~H~Sl~~ 256 (356)
.|. +.-++.+.+...+..++++|+++|+..- ..|.....+ ..-+|+|+|+++-+
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 997 5667999999999999999999997554 233311000 13689999999964
Q ss_pred cCCCCchhHHHHHHHHHHHHHHHhhccccccc
Q 018391 257 MRNDGGIDVIKKAIEKLGKRHGEHIAAYGEGN 288 (356)
Q Consensus 257 ~~~~~g~~~~~~fiaGl~L~h~~al~a~~~ns 288 (356)
. ..+-..+..+ ..++|.++|+++||
T Consensus 143 ~------~~~i~~~n~l-~~~lP~llALsAnS 167 (373)
T PRK13517 143 R------EKVVPVINRL-RPWLPHLLALSANS 167 (373)
T ss_pred H------HHHHHHHHHH-HHHHHHHHHHHhCC
Confidence 2 1233456666 67788888887654
No 15
>PRK13518 carboxylate-amine ligase; Provisional
Probab=98.18 E-value=1.1e-05 Score=79.66 Aligned_cols=95 Identities=18% Similarity=0.106 Sum_probs=67.6
Q ss_pred eeecCCCCCCcEEEEeCCC-chhhhhHHHHHHHHHHHHHHHHcCceE--------------EecccccCC----------
Q 018391 187 SGINGEVMPGQWEFQVGPC-VGISSGDQLWMARYILERITEIAGVVL--------------SFDPKPIKG---------- 241 (356)
Q Consensus 187 e~~~~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~a--------------TFmpKP~~~---------- 241 (356)
+.+++|...+|.||+..+. +.-++.+++...|..+.++|+++|+.. ..+|||.-.
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 4689999999999999997 777899999999999999999999953 344554210
Q ss_pred -CCCCceeeeeecccccCCCCchhHHHHHHHHHHHHHHHhhccccccc
Q 018391 242 -DWNGAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGEGN 288 (356)
Q Consensus 242 -~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl~L~h~~al~a~~~ns 288 (356)
...=+|+|||+.+-+. ...-..+..+ ...+|.|+|+++||
T Consensus 129 ~~~~~~G~HVHVg~~d~------d~av~v~n~l-r~~LP~LlALsAnS 169 (357)
T PRK13518 129 HRNTTAGLHVHVGVDDA------DKAVWIANEL-RWHLPILLALSANS 169 (357)
T ss_pred hcceeeEEEEEeCCCCH------HHHHHHHHHH-HhHHHHHHHHHcCC
Confidence 0124689999987431 1111223445 56668888876543
No 16
>PLN02611 glutamate--cysteine ligase
Probab=98.08 E-value=3.5e-05 Score=78.58 Aligned_cols=147 Identities=14% Similarity=0.049 Sum_probs=91.5
Q ss_pred HHHHHcCcccCCCcceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhhHHHHHHHHHHHHHHcCce----
Q 018391 110 AAKVFGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGIN---- 185 (356)
Q Consensus 110 Lkr~~~~l~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~---- 185 (356)
|-.-++.-..-+=...+|.|+|.+.++.++. .|. +|. -...+++.+.+ ..|++
T Consensus 54 lv~~~~~gck~~~~~~iG~E~E~f~~~~~~~---------~pv---~y~--------~i~~lL~~l~~---~~gw~~~~e 110 (482)
T PLN02611 54 LVAYLASGCKPKEKWRIGTEHEKFGFELATL---------RPM---KYD--------QIAQLLEGLAE---RFGWEKIME 110 (482)
T ss_pred HHHHHHhcCCCCCCCeeEEeeeeeeccCCCC---------CCC---CHH--------HHHHHHHHHHH---hcCCceecc
Confidence 3333333333455689999999999986532 111 121 12455554422 12211
Q ss_pred --------e--eeecCCCCCCcEEEEeCCC-chhhhhHHHHHHHHHHHHHHHHcCceE--------------Eeccccc-
Q 018391 186 --------I--SGINGEVMPGQWEFQVGPC-VGISSGDQLWMARYILERITEIAGVVL--------------SFDPKPI- 239 (356)
Q Consensus 186 --------v--e~~~~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~a--------------TFmpKP~- 239 (356)
- ..+.-|-| ||+|++..|. +.-++++.+...+..++++|+++|+.. ..||||-
T Consensus 111 ~g~iIgl~~~g~~ITlEPG-gQiElSt~p~~si~e~~~el~~~~~~l~~~a~~~Gl~l~g~G~hP~~~~~~~~i~pk~RY 189 (482)
T PLN02611 111 GDNIIGLKQDGQSVSLEPG-GQFELSGAPLETLHQTCAEVNSHLYQVKAVAEEMGIGFLGIGFQPKWSVADIPIMPKGRY 189 (482)
T ss_pred CCceecccCCCCceEeccc-ceEEecccCcCCHHHHHHHHHHHHHHHHHHHHHcCCCeEccCCCCCCccccccCCCChHH
Confidence 0 25566777 9999999997 566899999999999999999999943 3344442
Q ss_pred --------------CCCC--CCceeeeeecccccCCCCchhHHHHHHHHHHHHHHHhhccccccc
Q 018391 240 --------------KGDW--NGAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGEGN 288 (356)
Q Consensus 240 --------------~~~~--~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl~L~h~~al~a~~~ns 288 (356)
. ++ .-+|+|||+.+-+. ..+-.-+.-+ +.+.|.++|+++||
T Consensus 190 ~~M~~y~~~~g~~g~-~MM~~t~g~QVhvd~~se------ed~v~~~~~~-~~l~Pvl~ALfANS 246 (482)
T PLN02611 190 KIMRNYMPKVGSLGL-DMMFRTCTVQVNLDFSSE------QDMVRKFRVG-LALQPIATALFANS 246 (482)
T ss_pred HHHHHHHHHhhhhhh-hhccceEEEEEEecCCCH------HHHHHHHHHH-HHHHHHHHHHHhCC
Confidence 1 11 35789999988542 1122333344 56777777776543
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=97.50 E-value=0.00039 Score=66.73 Aligned_cols=95 Identities=19% Similarity=0.219 Sum_probs=63.8
Q ss_pred eeeecCCCCCCcEEEEeCCC-chhhhhHHHHHHHHHHHHHHHHcCceEE--------------ecccc------------
Q 018391 186 ISGINGEVMPGQWEFQVGPC-VGISSGDQLWMARYILERITEIAGVVLS--------------FDPKP------------ 238 (356)
Q Consensus 186 ve~~~~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~aT--------------FmpKP------------ 238 (356)
-..+++|.-.+|.||+..|. +.-++.+.+..++..+.++|+++|+... ..|||
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 34788999999999999997 5557999999999999999999998753 22331
Q ss_pred --cCCCCCCceeeeeecccccCCCCchhHHHHHHHHHHHHHHHhhccccc
Q 018391 239 --IKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGE 286 (356)
Q Consensus 239 --~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl~L~h~~al~a~~~ 286 (356)
+..+..-+|+|+|+++-+. ....-..+..+ ...+|.+.|+++
T Consensus 114 g~~~~~~~~~g~hvhV~v~~~-----~e~~v~~~n~~-~~~~P~llALsA 157 (288)
T PF04107_consen 114 GVLARRMMTCGAHVHVGVDDG-----DEAAVRVMNAL-RPWLPVLLALSA 157 (288)
T ss_dssp -SGCCSHHBHEEEEEEEESSS-----HHHHHHHHHHH-HTTHHHHHHHH-
T ss_pred hhhhhhhhhcccceEEeCCCc-----cHHHHHHHHHH-HHHhHHHHHHHc
Confidence 1111234589999999542 11112445555 667777777764
No 18
>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=97.42 E-value=0.0054 Score=62.39 Aligned_cols=98 Identities=19% Similarity=0.140 Sum_probs=64.6
Q ss_pred HcCcccCCCcceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhhHHHHHHHHHHHHHHcCce--------
Q 018391 114 FGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGIN-------- 185 (356)
Q Consensus 114 ~~~l~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~-------- 185 (356)
+++-.+-+=..++|.|+|-+.|+.++. .|. +|... .. +.++++.+. ...|++
T Consensus 12 ~~~g~k~~~~~~iG~E~E~f~~~~~~~---------~~~---~y~~~----~g-i~~~l~~l~---~~~g~~~~~e~g~~ 71 (446)
T TIGR01436 12 LAAGCKPKEQWRIGTEHEKFGFEKNTL---------RPM---KYEQK----GG-IAELLNGIA---ERFGWQKVMEGDKI 71 (446)
T ss_pred HHhCCCcCCCCceEeeeeeeeeecCCC---------CCC---CCCCc----hh-HHHHHHHHH---hhcCCceeccCCce
Confidence 333333455789999999999987542 121 12110 01 245555442 122221
Q ss_pred ------eeeecCCCCCCcEEEEeCCC-chhhhhHHHHHHHHHHHHHHHHcCceE
Q 018391 186 ------ISGINGEVMPGQWEFQVGPC-VGISSGDQLWMARYILERITEIAGVVL 232 (356)
Q Consensus 186 ------ve~~~~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~a 232 (356)
=..+.-|-| ||+|++..|. +.-++++.+...+..++++|+++|+..
T Consensus 72 i~l~~~~~~itlEPg-gQlElS~~p~~~i~e~~~~l~~~~~~l~~~a~~~Gl~l 124 (446)
T TIGR01436 72 IGLKQDKQSISLEPG-GQFELSGAPLETIHETCDEINSHLYQVKEVAEEMGIGF 124 (446)
T ss_pred eeecCCCCeEEEcCc-CeEEecccccCCHHHHHHHHHHHHHHHHHHHHhcCCCe
Confidence 135556777 9999999997 566789999999999999999999854
No 19
>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=97.36 E-value=0.001 Score=66.24 Aligned_cols=92 Identities=14% Similarity=0.059 Sum_probs=63.9
Q ss_pred eecCCCCCCcEEEEeCCC-chhhhhHHHHHHHHHHHHHHHHcCc-e-EE-----eccc-cc---CC--------------
Q 018391 188 GINGEVMPGQWEFQVGPC-VGISSGDQLWMARYILERITEIAGV-V-LS-----FDPK-PI---KG-------------- 241 (356)
Q Consensus 188 ~~~~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl-~-aT-----FmpK-P~---~~-------------- 241 (356)
.+.+|.-..|.|++..+. +.-++.+++...|..+..+|.++|. . +. ||.- ++ ..
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 466688899999999996 6668999999999999999999997 3 21 2221 11 10
Q ss_pred CCCCceeeeeecccccCCCCchhHHHHHHHHHHHHHHHhhccccc
Q 018391 242 DWNGAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGE 286 (356)
Q Consensus 242 ~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl~L~h~~al~a~~~ 286 (356)
...=+|+|||+.+-|. ..+-..+..| .-++|.|.|+++
T Consensus 111 ~~~i~G~HVHVgv~d~------d~av~v~n~l-r~~LP~LlALSA 148 (376)
T TIGR02048 111 QVVTASVHINIGIPDP------EELMRACRLV-RMEAPLFLALSA 148 (376)
T ss_pred hheeeEEEEEcCCCCH------HHHHHHHHHH-HHHHHHHHHHhc
Confidence 1234689999999652 1233455666 667777777654
No 20
>COG2170 Uncharacterized conserved protein [Function unknown]
Probab=97.21 E-value=0.002 Score=62.53 Aligned_cols=149 Identities=19% Similarity=0.202 Sum_probs=91.0
Q ss_pred CCCCCCcEEEEeCCCchh-hhhHHHHHHHHHHHHHHHHcCceEE--------------ecccc-c----------CCCCC
Q 018391 191 GEVMPGQWEFQVGPCVGI-SSGDQLWMARYILERITEIAGVVLS--------------FDPKP-I----------KGDWN 244 (356)
Q Consensus 191 ~E~gpGQ~Ei~l~~~~~l-~aaD~~~~~k~~ik~vA~~~Gl~aT--------------FmpKP-~----------~~~~~ 244 (356)
+|.--.+.|+.......+ +|+-.+=-.|..++++|..||+..- =-+|| + .....
T Consensus 43 ~e~~e~~vE~~t~vc~~~~eA~~~~r~~r~~l~q~a~d~gL~~~~~GtHPfadw~~~~~~~~prY~~~ie~~~y~~~q~~ 122 (369)
T COG2170 43 HEITESTVELATGVCRLLAEAAAQLRALRDYLVQAASDHGLRICGGGTHPFADWRRQEVPDNPRYQRLIERTGYLGRQMT 122 (369)
T ss_pred HHHHHHhhcccchhhhhHHHHHHHHHHHHHHHHHHhhhcCceecccCCCchhhhhhccCCCChhHHHHHHHhhhHHhhee
Confidence 555555667777776555 5666777789999999999999742 12333 0 00011
Q ss_pred CceeeeeecccccCCCCchhHHHHHHHHHHHHHHHhhcccccc------------ccccCC----CCCCCCCCCceeec-
Q 018391 245 GAGAHANYSTKSMRNDGGIDVIKKAIEKLGKRHGEHIAAYGEG------------NERRLT----GRHETADINTFSWG- 307 (356)
Q Consensus 245 GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl~L~h~~al~a~~~n------------sYkRl~----p~~~ap~~~~~~WG- 307 (356)
=-|.|||+.+-+. ...-..+.++ +.++|.++|+.++ |+|+-. |. ..++|-.-+|+
T Consensus 123 v~G~HVHVGi~~~------d~~~~~l~~l-~~~~PhlLALSASSPf~~G~dTGyAS~R~~if~~~P~-~g~pp~f~sw~~ 194 (369)
T COG2170 123 VAGQHVHVGIPSP------DDAMYLLHRL-LRYVPHLLALSASSPFWQGTDTGYASARANIFSQLPT-NGLPPAFQSWAA 194 (369)
T ss_pred eeeEEEEecCCCH------HHHHHHHHHH-HhhhhHHHhhhcCCccccCccchhhhhhHhhhhhCCc-CCCCccccCHHH
Confidence 2478999888542 1244678888 9999999999752 444432 11 11122344554
Q ss_pred -------------cCCCc---ceEeeccCCCCCCccEEEecCCCCCCCHH--HHHHHHHHHhh
Q 018391 308 -------------VANRG---ASIRVGRDTEKEGKGYFEDRRPASNMDPY--VVTSMIAETTI 352 (356)
Q Consensus 308 -------------~~NR~---a~vRvp~~~~~~~~~riE~R~~da~aNPY--LalAailaAgl 352 (356)
.+|.. ..||-. +.=+++|+|++|...||= +++++++-|-+
T Consensus 195 f~~~~~~~~~tG~I~~~~~lwwdIRPs-----ph~gTlEvRi~D~~~~l~~~~aivaL~~Alv 252 (369)
T COG2170 195 FEAFFRDQLETGTIDSMGDLWWDIRPS-----PHLGTLEVRICDTVLNLAELLAIVALIHALV 252 (369)
T ss_pred HHHHHHHHHHhcccccccceEEecccC-----CCCCceEEEecCCCCCHHHHHHHHHHHHHHH
Confidence 22222 235521 223689999999999995 55667776654
No 21
>KOG0683 consensus Glutamine synthetase [Amino acid transport and metabolism]
Probab=95.14 E-value=0.005 Score=60.01 Aligned_cols=59 Identities=10% Similarity=-0.099 Sum_probs=49.7
Q ss_pred cccccCCCCCCCCCCCceeeccCCCcceEeeccCCCCCCccEEEecCCCCCCCHHHHHHHHHHHhhcCC
Q 018391 287 GNERRLTGRHETADINTFSWGVANRGASIRVGRDTEKEGKGYFEDRRPASNMDPYVVTSMIAETTILWK 355 (356)
Q Consensus 287 nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~~~~~~~~riE~R~~da~aNPYLalAailaAgl~g~ 355 (356)
++|+|.....|.| +||.+|+..+.+ +. +.++..+|....|++|||+.++.+.|++..|.
T Consensus 285 s~rh~~hi~~ydp-----~~G~dN~rrltg-~h----Et~~i~~Fs~GvAnr~~siri~r~va~~~~Gy 343 (380)
T KOG0683|consen 285 SKRHREHIAAYDP-----KGGKDNERRLTG-RH----ETGSIDNFSWGVANRNPSIRIPRTVAAEGKGY 343 (380)
T ss_pred chhhhhhhhhcCc-----cCCccchhhhcC-CC----ccccccccccccccCCceeeechhhhcccccc
Confidence 8899999887766 899999998888 32 23467888888888999999999999999885
No 22
>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=93.70 E-value=0.14 Score=51.08 Aligned_cols=44 Identities=23% Similarity=0.134 Sum_probs=36.6
Q ss_pred eecCCCCCCcEEEEeCCC-chhhhhHHHHHHHHHHHHHHHHcCceE
Q 018391 188 GINGEVMPGQWEFQVGPC-VGISSGDQLWMARYILERITEIAGVVL 232 (356)
Q Consensus 188 ~~~~E~gpGQ~Ei~l~~~-~~l~aaD~~~~~k~~ik~vA~~~Gl~a 232 (356)
.+.-|= -||+|++..|. +.-++++.+...+..++++|+++|+..
T Consensus 63 ~iTlEP-GgQvELSt~P~~sl~el~~el~~~l~~l~~~a~~~Gl~l 107 (390)
T TIGR03444 63 RITVEP-GGQLELSGPPADGLTAAVAALAADLAVLRAALAEDGLAL 107 (390)
T ss_pred eEEeCC-CCEEEecCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCEE
Confidence 333453 48999999997 666899999999999999999999954
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=87.04 E-value=1.9 Score=32.57 Aligned_cols=65 Identities=22% Similarity=0.213 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCC------CcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecc
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMP------GQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDP 236 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gp------GQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmp 236 (356)
.++.++.+.|.+.|+.|..+..+..+ ++|.+.+.-.-+ ... +.-.++..++++|++.|+..+|-|
T Consensus 11 Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p-~~~-~~~~l~~~l~~l~~~~~~~~~~~~ 81 (81)
T cd04869 11 GIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALP-AGT-DLDALREELEELCDDLNVDISLEP 81 (81)
T ss_pred CHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecC-CCC-CHHHHHHHHHHHHHHhcceEEecC
Confidence 46677778889999999999776654 788665554433 112 256789999999999999988854
No 24
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=83.11 E-value=3.9 Score=30.86 Aligned_cols=63 Identities=22% Similarity=0.214 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEe
Q 018391 169 RDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSF 234 (356)
Q Consensus 169 ~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTF 234 (356)
-.++.++.+.|.+.|.+++.++.-.-.|+|-+.+.-.-+ .|+.-.++..+++++++.|+.+.|
T Consensus 13 pGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~---~~~~~~l~~~L~~l~~~~~l~v~v 75 (76)
T PF13740_consen 13 PGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIP---EDSLERLESALEELAEELGLDVSV 75 (76)
T ss_dssp TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEES---HHHHHHHHHHHHHHHHHTT-EEEE
T ss_pred CcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeC---cccHHHHHHHHHHHHHHCCcEEEE
Confidence 357778888899999999999998889999887766544 567788999999999999999876
No 25
>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=82.06 E-value=7.3 Score=31.09 Aligned_cols=94 Identities=10% Similarity=0.016 Sum_probs=55.3
Q ss_pred HHHHHHHHcCcccCCCcceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhhHHHHHHHHHHHHHHcCcee
Q 018391 107 RFNAAKVFGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGINI 186 (356)
Q Consensus 107 R~~Lkr~~~~l~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~v 186 (356)
...-+++++.|++.|..+..-.++||++.-++. +-++.+...+.+.|..|
T Consensus 3 ~~~n~~vl~~L~~~Gddl~~~r~ieh~~~f~~~------------------------------~~~~~f~~~~~~~g~~v 52 (104)
T PF06877_consen 3 IIENREVLEALEEDGDDLSKPRPIEHWFYFEDE------------------------------EDAEKFAEELEKLGYEV 52 (104)
T ss_dssp HHHHHHHHHHHHHHT--TTS-EEEEEEEEES-H------------------------------HHHHHHHHHHHHHS---
T ss_pred HHHHHHHHHHHHhcCCCCCCCeEEEEEEEeCCH------------------------------HHHHHHHHHHHHCCCEE
Confidence 445577888888889999999999998875421 22333445568899999
Q ss_pred eeecC--CCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCce
Q 018391 187 SGING--EVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVV 231 (356)
Q Consensus 187 e~~~~--E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ 231 (356)
+.... |-+.+.|.+.+.....+.. +.+...-.-+-.+|+++|..
T Consensus 53 ~~~~~~~~d~~~~~~~~~~~~~~~~~-~~I~~~~~~l~~lA~~~~g~ 98 (104)
T PF06877_consen 53 ESAEEDEEDGDGPYCLDISREMVLDY-EDINAITQELEDLAKEFGGE 98 (104)
T ss_dssp B----B-SS-SSBEEEEEEEEE-S-H-HHHHHHHHHHHHHHHHHT-E
T ss_pred EEeecccCCCCceEEEEEEEecCCCH-HHHHHHHHHHHHHHHHhCcE
Confidence 98775 7788999999988766543 34444445566677777654
No 26
>COG3572 GshA Gamma-glutamylcysteine synthetase [Coenzyme metabolism]
Probab=81.31 E-value=2.5 Score=42.16 Aligned_cols=46 Identities=22% Similarity=0.190 Sum_probs=36.5
Q ss_pred eecCCCCCCcEEEEeCCCchhh-hhHHHHHHHHHHHHHHHHcCceEEe
Q 018391 188 GINGEVMPGQWEFQVGPCVGIS-SGDQLWMARYILERITEIAGVVLSF 234 (356)
Q Consensus 188 ~~~~E~gpGQ~Ei~l~~~~~l~-aaD~~~~~k~~ik~vA~~~Gl~aTF 234 (356)
.+.-|-| ||||++..|.+.+. +|-..-.--.+||++|...|+...+
T Consensus 90 aIslEpg-gq~Elsgapletihq~~~e~n~hlavlr~~a~~~gl~fvG 136 (456)
T COG3572 90 AISLEPG-GQFELSGAPLETIHQTCGEMNQHLAVLREIAAELGLGFVG 136 (456)
T ss_pred eEEeccC-ceEEecCCchHHHHHHHHHHHHHHHHHHHHHHhcCCceEe
Confidence 3455777 99999999998875 5555666678899999999987764
No 27
>KOG0558 consensus Dihydrolipoamide transacylase (alpha-keto acid dehydrogenase E2 subunit) [Energy production and conversion]
Probab=78.92 E-value=1.8 Score=42.38 Aligned_cols=28 Identities=29% Similarity=0.311 Sum_probs=26.4
Q ss_pred hhHHHHHHHHHHHHHHHHcCceEEeccc
Q 018391 210 SGDQLWMARYILERITEIAGVVLSFDPK 237 (356)
Q Consensus 210 aaD~~~~~k~~ik~vA~~~Gl~aTFmpK 237 (356)
-+|.++.+|+-+|++|+..|++.||||-
T Consensus 275 n~~sLvklr~elk~~a~e~~IKltfmPf 302 (474)
T KOG0558|consen 275 NCDSLVKLRQELKENAKERGIKLTFMPF 302 (474)
T ss_pred ChHHHHHHHHHHhhhhhhcCceeeehHH
Confidence 3699999999999999999999999995
No 28
>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=77.78 E-value=5.1 Score=30.96 Aligned_cols=67 Identities=18% Similarity=0.157 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEeccc
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPK 237 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpK 237 (356)
.++.++.+.+.+.|+.|..++...-.|+|.+.+.-.-+ ...++.-.++..+++++.+.|+..++-+.
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 56777778889999999999998888888876655533 11345778899999999999999998654
No 29
>PRK00194 hypothetical protein; Validated
Probab=76.81 E-value=6.1 Score=30.53 Aligned_cols=66 Identities=17% Similarity=0.176 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecc
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDP 236 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmp 236 (356)
.++.++.+.|.+.|++|..++.....|+|.+.+.-.-+ ...++.-.++..+++++.+.|+..+|-+
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 56777788889999999999999888888874443222 1123456778999999999999999843
No 30
>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=74.98 E-value=8.8 Score=28.68 Aligned_cols=65 Identities=12% Similarity=0.128 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecc
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDP 236 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmp 236 (356)
.++.++.+.+.+.|++++.++.-.-.|+|-+.+.-.-+ ...+.-.++..+..+|++.|+.++.-|
T Consensus 11 Giv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~~v~~p--~~~~~~~l~~~l~~l~~~l~l~i~~~~ 75 (75)
T cd04870 11 GLTSALTEVLAAHGVRILDVGQAVIHGRLSLGILVQIP--DSADSEALLKDLLFKAHELGLQVRFEP 75 (75)
T ss_pred CHHHHHHHHHHHCCCCEEecccEEEcCeeEEEEEEEcC--CCCCHHHHHHHHHHHHHHcCceEEEeC
Confidence 46777888889999999999877777887776644322 112466789999999999999988643
No 31
>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=71.10 E-value=43 Score=31.54 Aligned_cols=110 Identities=14% Similarity=0.106 Sum_probs=69.8
Q ss_pred CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHH
Q 018391 194 MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKL 273 (356)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl 273 (356)
-|-+.-|+|.|.++.. =++++.+=..+|++..+.|+.+ .|| . ..|.|+|+.+-|... -+....+.|...|
T Consensus 113 ~PD~lvfDLDP~~~~~-f~~v~~~A~~~r~~L~~lgL~~--f~K--T--SG~kGlHV~vPl~~~---~~~~~~r~fa~~i 182 (245)
T TIGR02778 113 KPDRIVFDLDPGPGVA-WKLVVEAAQLIRELLDELGLES--FVK--T--SGGKGLHVYVPLRPT---LSWDEVKDFAKAL 182 (245)
T ss_pred CCCEEEEECCCCCCCC-HHHHHHHHHHHHHHHHHcCCcc--ceE--c--cCCCeEEEEEECCCC---CCHHHHHHHHHHH
Confidence 4899999999998764 3445555667899999999984 356 2 358999999999652 2233445555555
Q ss_pred H---HHHHHhhccccccccccCCCCCCCCCCCceeeccCCCcceEeeccC
Q 018391 274 G---KRHGEHIAAYGEGNERRLTGRHETADINTFSWGVANRGASIRVGRD 320 (356)
Q Consensus 274 ~---L~h~~al~a~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~ 320 (356)
+ -+..|.+. +.+-.|....+ ..++-|..|+|...+=-|-+
T Consensus 183 A~~l~~~~Pd~~--t~~~~k~~R~g-----kvfiDylqN~~g~T~vapYS 225 (245)
T TIGR02778 183 AQALAQQMPDRF--TAEMSKKNRVG-----KIFVDYLRNARGKTTVAPYS 225 (245)
T ss_pred HHHHHHHCchhh--hhHhhHHhCCC-----CEEEECccCCCCCeEEeccc
Confidence 2 22223322 22333333333 26889988888877665643
No 32
>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=70.53 E-value=47 Score=30.64 Aligned_cols=22 Identities=23% Similarity=0.341 Sum_probs=18.2
Q ss_pred cEEEecCCCCCCCHHHHHHHHH
Q 018391 327 GYFEDRRPASNMDPYVVTSMIA 348 (356)
Q Consensus 327 ~riE~R~~da~aNPYLalAail 348 (356)
..||+|.+.++-++--+.+.+-
T Consensus 225 ~TvEFR~~~~s~d~~~~~~wi~ 246 (252)
T PF12224_consen 225 PTVEFRQPNGSLDAEEISAWIE 246 (252)
T ss_pred CeEEEecCCCCCCHHHHHHHHH
Confidence 4899999999999987766553
No 33
>PRK02471 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional
Probab=69.18 E-value=14 Score=40.40 Aligned_cols=16 Identities=25% Similarity=0.495 Sum_probs=14.5
Q ss_pred cceEeeeeeEEEeccC
Q 018391 123 EPWYGIEQEYTLLQKD 138 (356)
Q Consensus 123 ~~~~g~E~EF~l~~~~ 138 (356)
...+|+|-|+.+++.+
T Consensus 18 ~~~~GiE~E~lrVd~~ 33 (752)
T PRK02471 18 QANFGLEKESLRVDSD 33 (752)
T ss_pred cCCcceEeeeeEECCC
Confidence 6789999999999986
No 34
>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=68.12 E-value=55 Score=30.48 Aligned_cols=109 Identities=12% Similarity=0.125 Sum_probs=71.3
Q ss_pred CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHH
Q 018391 194 MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKL 273 (356)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl 273 (356)
-|-+.-|+|.|. +. .=++++.+=..+|++-.+.|+.+ .|| . ..|.|+|+.+-|... -+....+.|...|
T Consensus 99 ~PD~~vfDLDP~-~~-~f~~v~~~A~~~r~~L~~~gL~~--f~K--T--SG~kGlHv~vPl~~~---~~~~~~r~fa~~l 167 (228)
T cd04864 99 HPDLMVFDLDPS-AD-DIEAVRTAALAVRELLDELGLPS--FVK--T--TGSRGFHVVVPLDGR---GDFDDVRAFAAEA 167 (228)
T ss_pred CCCEEEEecCCC-CC-CHHHHHHHHHHHHHHHHHcCCcc--ceE--c--cCCCeEEEEEEcCCC---CCHHHHHHHHHHH
Confidence 489999999998 44 56777888888999999999984 356 2 358999999999652 2233445555444
Q ss_pred H---HHHHHhhccccccccccCCCCCCCCCCCceeeccCCCcceEeeccC
Q 018391 274 G---KRHGEHIAAYGEGNERRLTGRHETADINTFSWGVANRGASIRVGRD 320 (356)
Q Consensus 274 ~---L~h~~al~a~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~ 320 (356)
+ -+..|.+. +.+-.|.-..| ..++-|..|+|...+=-|-+
T Consensus 168 A~~l~~~~P~~~--t~~~~k~~R~g-----rvfiDylqN~~g~T~vapYS 210 (228)
T cd04864 168 ADALAKRDPDLL--TTEARKAKRGD-----RVFLDIGRNAYGQTAVAPYA 210 (228)
T ss_pred HHHHHHHCchhh--hHHhhHHhCCC-----cEEEECccCCCCCeEEeccc
Confidence 2 22223222 22333333333 26888988888877666643
No 35
>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=66.40 E-value=21 Score=26.87 Aligned_cols=64 Identities=14% Similarity=0.089 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEec
Q 018391 169 RDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFD 235 (356)
Q Consensus 169 ~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFm 235 (356)
..++..+.+.+.+.|.+|..++.-.-.|+|-+.+....+ .+..-.++..++.+|++.|+.++.+
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 357788888899999999999888888888776665533 2356678999999999999988753
No 36
>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=66.08 E-value=66 Score=29.95 Aligned_cols=110 Identities=16% Similarity=0.183 Sum_probs=69.0
Q ss_pred CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHH
Q 018391 194 MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKL 273 (356)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl 273 (356)
-|-+.-|+|.|.+++. =++++.+=..+|++-.+.|+.+ .|| . ..|.|+|+.+-|... .+....+.|...+
T Consensus 97 ~PD~lvfDLDP~~~~~-f~~v~~~A~~vr~~L~~lgL~~--f~K--T--SG~kGlHV~vPl~~~---~~~~~~r~fa~~i 166 (227)
T cd04861 97 RPDRLVFDLDPGPGVP-FEDVVEAALLLRELLDELGLES--FPK--T--SGGKGLHVYVPLAPR---YTWDEVRAFAKAL 166 (227)
T ss_pred CCCEEEEECCCCCCCC-HHHHHHHHHHHHHHHHHcCCcc--ceE--c--cCCCeEEEEEEcCCC---CCHHHHHHHHHHH
Confidence 4899999999998863 3455666677888889999984 356 3 358999999999642 2233445554444
Q ss_pred H---HHHHHhhccccccccccCCCCCCCCCCCceeeccCCCcceEeeccC
Q 018391 274 G---KRHGEHIAAYGEGNERRLTGRHETADINTFSWGVANRGASIRVGRD 320 (356)
Q Consensus 274 ~---L~h~~al~a~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~ 320 (356)
+ -+..|.+.. .+-.|....+ ..++-|..|+|...+=-|-+
T Consensus 167 A~~l~~~~P~~~t--~~~~k~~R~g-----rvfiDy~qN~~g~T~vapYS 209 (227)
T cd04861 167 ARELARRLPDLFT--AEMAKAKRGG-----KIFVDYLQNARGKTTVAPYS 209 (227)
T ss_pred HHHHHHHCchhhh--hHhhHHhCCC-----CEEEECccCCCCCeEEeccc
Confidence 2 222233322 2222222222 26888888888877665543
No 37
>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=65.86 E-value=67 Score=29.83 Aligned_cols=112 Identities=12% Similarity=0.008 Sum_probs=71.4
Q ss_pred CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHH
Q 018391 194 MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKL 273 (356)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl 273 (356)
-|.+.-|+|.|.+++. =++++.+=..+|++-.+.|+.. .|| . ..|.|+|+.+-|.+. ..+....+.|...|
T Consensus 92 ~PD~lvfDLDP~~~~~-f~~v~~~A~~vr~~L~~lgL~~--f~K--T--SG~kGlHV~vPl~~~--~~~~~~~r~fa~~i 162 (223)
T cd04866 92 KPSEIVFDLDPPSRDH-FSLAVEAANLLKEILDALGLTS--FVK--T--SGNKGLQVYIPLPDN--KFTYDETRLFTEFI 162 (223)
T ss_pred CCCeEEEECCCCCCCC-HHHHHHHHHHHHHHHHHcCCcc--ceE--c--cCCCeEEEEEEcCCC--CCCHHHHHHHHHHH
Confidence 5999999999998763 3455677778899999999984 356 2 358999999999621 12334456666666
Q ss_pred HHHHHHhhcc--ccccccccCCCCCCCCCCCceeeccCCCcceEeeccC
Q 018391 274 GKRHGEHIAA--YGEGNERRLTGRHETADINTFSWGVANRGASIRVGRD 320 (356)
Q Consensus 274 ~L~h~~al~a--~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~ 320 (356)
+ +++..-.. ++.+-.|....+ ..++-|..|+|...+=-|-+
T Consensus 163 A-~~l~~~~P~~~t~~~~k~~R~g-----kVfiDylqN~~g~T~vapYS 205 (223)
T cd04866 163 A-EYLCQQFPELFTTERLKKNRHN-----RLYLDYVQHAEGKTIIAPYS 205 (223)
T ss_pred H-HHHHHHCchhhhHHhhHHhCCC-----CEEEECccCCCCCeEEeccc
Confidence 2 33322221 222333333333 26888988888877665543
No 38
>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=65.53 E-value=70 Score=29.87 Aligned_cols=110 Identities=14% Similarity=0.112 Sum_probs=68.7
Q ss_pred CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHH
Q 018391 194 MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKL 273 (356)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl 273 (356)
-|-+.-|+|.|.+++.= ++++.+=..+|++-.+.|+.. .|| . ..|.|+|+.+-|... -+....+.|...|
T Consensus 101 ~PD~~vfDLDP~~~~~f-~~v~~~A~~~r~~L~~lgL~s--~~K--T--SG~kGlHV~vPl~~~---~~~~~vr~fa~~~ 170 (231)
T cd04863 101 PPDRLVFDLDPGEPAGL-VECARVALWLRDRLAALGLAS--FPK--T--SGSKGLHLYVPLDGP---VSSDQTKEFAKAL 170 (231)
T ss_pred CCCEEEEECCCCCCCCH-HHHHHHHHHHHHHHHHcCCcc--ceE--C--CCCCeEEEEEEcCCC---CCHHHHHHHHHHH
Confidence 49999999999987643 344555566899999999984 356 2 358999999999642 2233445555444
Q ss_pred H---HHHHHhhccccccccccCCCCCCCCCCCceeeccCCCcceEeeccC
Q 018391 274 G---KRHGEHIAAYGEGNERRLTGRHETADINTFSWGVANRGASIRVGRD 320 (356)
Q Consensus 274 ~---L~h~~al~a~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~ 320 (356)
+ -+..|.+.. .+..|.-..+ ..++-|..|+|...+=-|-+
T Consensus 171 A~~l~~~~P~~~t--~~~~k~~R~g-----rvfiDylqN~~g~T~vapYS 213 (231)
T cd04863 171 ARELEREHPDLVV--SRMTKSLRAG-----KVFVDWSQNDAAKTTIAPYS 213 (231)
T ss_pred HHHHHHHCchhhh--hHhhHhhCCC-----cEEEECccCCCCCeEEeccc
Confidence 2 222233322 2333322222 26888888888876665543
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=65.16 E-value=8.4 Score=30.25 Aligned_cols=60 Identities=5% Similarity=-0.055 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEE
Q 018391 169 RDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLS 233 (356)
Q Consensus 169 ~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aT 233 (356)
.+.+....+.+.+.|++++-+..|+--..--+.+.|. ||.-+-||.++|++++.++..+=
T Consensus 25 ~~al~~c~~~~~~~~L~m~lvd~e~~~D~~k~~fyy~-----a~~rvDFR~Lvr~L~~~f~~RIe 84 (88)
T PF04468_consen 25 EEALKFCRELVKELGLPMKLVDVEYQFDGSKLTFYYT-----AESRVDFRELVRDLAREFKTRIE 84 (88)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEEEEEcCCCEEEEEEE-----eCCcCcHHHHHHHHHHHhCceEE
Confidence 5666777777889999999999999888888888887 88899999999999999988753
No 40
>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=64.35 E-value=72 Score=29.72 Aligned_cols=111 Identities=16% Similarity=0.161 Sum_probs=69.7
Q ss_pred CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHH
Q 018391 194 MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKL 273 (356)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl 273 (356)
-|.+.-|+|.|.+++.= ++++.+=..+|++..+.|+.+ .|| . ..|.|+|+.+-|... -+....+.|...|
T Consensus 97 ~PD~lvfDLDP~~~~~f-~~v~~~A~~~r~~L~~lgL~~--~~K--T--SG~kGlHV~vPl~~~---~~~~~~r~fa~~l 166 (227)
T cd04862 97 RPDRIVFDLDPGPGVPW-KAVVEAALLVRELLDELGLES--FVK--T--SGGKGLHVVVPLAPR---AGWDEVKAFAKAL 166 (227)
T ss_pred CCCEEEEECCCCCCCCH-HHHHHHHHHHHHHHHHcCCcc--ceE--c--cCCCeEEEEEEcCCC---CCHHHHHHHHHHH
Confidence 58999999999987633 445666678888999999984 355 2 358999999999642 1233445555555
Q ss_pred HHHHHHhhcc--ccccccccCCCCCCCCCCCceeeccCCCcceEeeccC
Q 018391 274 GKRHGEHIAA--YGEGNERRLTGRHETADINTFSWGVANRGASIRVGRD 320 (356)
Q Consensus 274 ~L~h~~al~a--~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~ 320 (356)
-+++..-.. ++.+-.|....| ..++-|..|+|...+=-|-+
T Consensus 167 -A~~l~~~~P~~~t~~~~k~~R~g-----kvfiDylqN~~g~T~vapYS 209 (227)
T cd04862 167 -AQHLARTNPDRFVATMGKAKRVG-----KIFIDYLRNGRGATAVAPYS 209 (227)
T ss_pred -HHHHHHHCchhhhHHhhHHhCCC-----cEEEECccCCCCCeEEeccc
Confidence 222222211 222223333333 26899998888877666643
No 41
>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=56.98 E-value=1.2e+02 Score=28.25 Aligned_cols=110 Identities=15% Similarity=0.178 Sum_probs=69.1
Q ss_pred CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHH
Q 018391 194 MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKL 273 (356)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl 273 (356)
-|.+.-|+|.|.+++. =++++.+=..+|++..+.|+.+ .|| . ..|.|+|+.+-|... -+....+.|...|
T Consensus 98 ~PD~lvfDLDP~~~~~-f~~v~~~A~~vr~~L~~lgL~s--f~K--T--SG~kGlHv~vPl~~~---~~~~~~r~fa~~i 167 (228)
T cd04865 98 HPDELVIDLDPQPGTS-FEDVVEVALLVREVLDELGLRG--YPK--T--SGARGLHIYVPIAPR---YTFEEVRRFAELL 167 (228)
T ss_pred CCCEEEEECCCCCCCC-HHHHHHHHHHHHHHHHHcCCcc--ceE--c--cCCCeEEEEEEcCCC---CCHHHHHHHHHHH
Confidence 4899999999998763 3456666778899999999984 355 3 358999999999642 2233344454444
Q ss_pred H---HHHHHhhccccccccccCCCCCCCCCCCceeeccCCCcceEeeccC
Q 018391 274 G---KRHGEHIAAYGEGNERRLTGRHETADINTFSWGVANRGASIRVGRD 320 (356)
Q Consensus 274 ~---L~h~~al~a~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~~ 320 (356)
+ -+..|.+. +.+-.|.-..+ ..++-|..|+|...+=-|-+
T Consensus 168 A~~l~~~~P~~~--t~~~~k~~R~g-----rvfiDylqN~~g~T~vapYS 210 (228)
T cd04865 168 AREVERRLPDLA--TTERWKKERGG-----RVYLDYLQNARGKTLAAPYS 210 (228)
T ss_pred HHHHHHHCchhh--hhHhhHHhCCC-----CEEEECccCCCCCeEEeccc
Confidence 2 22223332 22223333322 26888888888876655543
No 42
>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=53.74 E-value=39 Score=24.91 Aligned_cols=60 Identities=12% Similarity=-0.104 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHcCceeeeecCC--CCCCcEEEEeCCCchhhhh-HHHHHHHHHHHHHHHHcCce
Q 018391 170 DIVNSHYKACLYAGINISGINGE--VMPGQWEFQVGPCVGISSG-DQLWMARYILERITEIAGVV 231 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E--~gpGQ~Ei~l~~~~~l~aa-D~~~~~k~~ik~vA~~~Gl~ 231 (356)
.++.++.+.+.+.|+.+..++.- ...++|.+.+.-.-+ +. .+.-.++..++.+|.+.++.
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 56777888889999999999776 466777766554433 21 24667889999999987763
No 43
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=49.70 E-value=38 Score=24.79 Aligned_cols=47 Identities=13% Similarity=0.082 Sum_probs=31.6
Q ss_pred HHHHHHHHcCceeeeecCCCCCCcEEEEeCCC--chhhhhHHHHHHHHHHHHHHHHcCc
Q 018391 174 SHYKACLYAGINISGINGEVMPGQWEFQVGPC--VGISSGDQLWMARYILERITEIAGV 230 (356)
Q Consensus 174 ~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~--~~l~aaD~~~~~k~~ik~vA~~~Gl 230 (356)
++.+.|..+|++++. . + ..+++++...+- |-+..+ .++-+||+-+|+
T Consensus 23 ei~~~L~~lg~~~~~-~-~-~~~~~~v~~P~~R~Di~~~~-------DliEei~r~~Gy 71 (71)
T smart00874 23 EIEEILKRLGFEVEV-S-G-DDDTLEVTVPSYRFDILIEA-------DLIEEVARIYGY 71 (71)
T ss_pred HHHHHHHHCCCeEEe-c-C-CCCeEEEECCCCccccCccc-------HHHHHHHHHhCC
Confidence 455668899999965 1 1 145688877764 444444 477888888885
No 44
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=45.66 E-value=12 Score=30.30 Aligned_cols=24 Identities=25% Similarity=0.253 Sum_probs=19.2
Q ss_pred HHcCceeeeecCCCCCCcEEEEeCC
Q 018391 180 LYAGINISGINGEVMPGQWEFQVGP 204 (356)
Q Consensus 180 ~~~Gi~ve~~~~E~gpGQ~Ei~l~~ 204 (356)
-++|=++|++.-+ +|||||||+.-
T Consensus 55 ~a~ge~ietIrI~-~pG~YeiNl~~ 78 (112)
T COG3364 55 GAQGEPIETIRIL-RPGVYEINLES 78 (112)
T ss_pred hcccCcceEEEEe-cCceEEEehhh
Confidence 4577788888866 69999999864
No 45
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=43.53 E-value=54 Score=29.58 Aligned_cols=68 Identities=9% Similarity=0.037 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHHcCceeeeecCCCCCC------cEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccc
Q 018391 169 RDIVNSHYKACLYAGINISGINGEVMPG------QWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKP 238 (356)
Q Consensus 169 ~~~~~~l~~~l~~~Gi~ve~~~~E~gpG------Q~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP 238 (356)
-.|+.++.+.|.+.||.|+.++++..+. .|.+.+.-.-| +.-++-.+|..+.++|.+.++.+++-|.=
T Consensus 106 PGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v~lP--~~~~~~~L~~~l~~l~~eL~vd~~l~~~~ 179 (190)
T PRK11589 106 PHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITAHSP--ASQDAANIEQAFKALCTELNAQGSINVVN 179 (190)
T ss_pred CCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEEEcC--CCCCHHHHHHHHHHHHHHhCceEEEEEee
Confidence 4688888899999999999999986654 44444332211 11225567999999999999999988763
No 46
>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=42.09 E-value=2e+02 Score=30.47 Aligned_cols=111 Identities=14% Similarity=0.073 Sum_probs=66.8
Q ss_pred CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHH
Q 018391 194 MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKL 273 (356)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl 273 (356)
-|.+.-|+|.|.+++. =+.++.+=..+|++-.+.|+.+ .||- ..|.|+|+.+-|... ..+....+.|...|
T Consensus 390 ~Pd~~v~DLDP~~~~~-f~~v~~~A~~~r~~L~~~gl~~--~~Kt----SG~kGlhv~vPl~~~--~~~~~~~~~fa~~~ 460 (552)
T TIGR02776 390 KPDRIVFDLDPPPGVA-FKLAVEAAQLMKQLLDELGLVS--FVKT----SGGKGLHVVVPLRPN--TFTWDETKLFAKAI 460 (552)
T ss_pred CCCEEEEECCCCCCCC-HHHHHHHHHHHHHHHHHcCCcc--ceEc----cCCCeEEEEEEcCCC--CCCHHHHHHHHHHH
Confidence 5899999999987753 3455555666899999999974 4562 358999999999641 12333455555555
Q ss_pred HHHHHHhhcc--ccccccccCCCCCCCCCCCceeeccCCCcceEeecc
Q 018391 274 GKRHGEHIAA--YGEGNERRLTGRHETADINTFSWGVANRGASIRVGR 319 (356)
Q Consensus 274 ~L~h~~al~a--~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~ 319 (356)
-+++..-.. ++.+-.|.-..+ ..++-|..|+|...+=-|-
T Consensus 461 -a~~~~~~~P~~~t~~~~k~~R~g-----rv~iDy~qn~~~~T~~apY 502 (552)
T TIGR02776 461 -AEYLARQFPERFTTEMGKKNRVG-----RIFIDYLRNARGKTTVAPY 502 (552)
T ss_pred -HHHHHHHCcceehhhhhHhhCCC-----CEEEEcccCCCCCeEEecc
Confidence 233322211 222222222222 1577777777775555443
No 47
>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=41.35 E-value=71 Score=22.22 Aligned_cols=49 Identities=16% Similarity=0.004 Sum_probs=28.0
Q ss_pred HHHHHHHHHHcCceeeeecCCCC--CCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCce
Q 018391 172 VNSHYKACLYAGINISGINGEVM--PGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVV 231 (356)
Q Consensus 172 ~~~l~~~l~~~Gi~ve~~~~E~g--pGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~ 231 (356)
+.++.+.+.+.|+.|.++++... .|.-.+.+.-.+ ...+++.-+++|+.
T Consensus 13 L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~ve~-----------~~~~~~~L~~~G~~ 63 (65)
T cd04882 13 LHEILQILSEEGINIEYMYAFVEKKGGKALLIFRTED-----------IEKAIEVLQERGVE 63 (65)
T ss_pred HHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEeCC-----------HHHHHHHHHHCCce
Confidence 44455667889999976654222 344455544443 23445556667764
No 48
>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=41.25 E-value=92 Score=23.00 Aligned_cols=47 Identities=21% Similarity=0.176 Sum_probs=32.9
Q ss_pred HHHHHHHHHcCceeeeecCCCCCCcEEEEeCCC--chhhhhHHHHHHHHHHHHHHHHcCc
Q 018391 173 NSHYKACLYAGINISGINGEVMPGQWEFQVGPC--VGISSGDQLWMARYILERITEIAGV 230 (356)
Q Consensus 173 ~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~--~~l~aaD~~~~~k~~ik~vA~~~Gl 230 (356)
+++.+.|+.+|+.++.. ....+++...+- |-...+| ++-+||+-+|+
T Consensus 22 ~~i~~~L~~lg~~~~~~----~~~~~~v~vP~~R~Di~~~~D-------liEEiaR~yGY 70 (70)
T PF03484_consen 22 EEIIKILKRLGFKVEKI----DGDTLEVTVPSYRFDIEHEED-------LIEEIARIYGY 70 (70)
T ss_dssp HHHHHHHHHTT-EEEE-----CTTEEEEEEETTSTT-SSHHH-------HHHHHHHHHTG
T ss_pred HHHHHHHHHCCCEEEEC----CCCEEEEEcCCCcCCcCcccH-------HHHHHHHHhCC
Confidence 45556789999999876 667788888773 6666665 66888888875
No 49
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=40.32 E-value=60 Score=31.20 Aligned_cols=66 Identities=15% Similarity=0.063 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHcCceeeeecCC--CCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecc
Q 018391 169 RDIVNSHYKACLYAGINISGINGE--VMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDP 236 (356)
Q Consensus 169 ~~~~~~l~~~l~~~Gi~ve~~~~E--~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmp 236 (356)
-.|+.++.+.|.+.|++|+.+... .+.++|.+.+.-..+ +..+.-.+|+.+.++|++.|+.++.-+
T Consensus 18 pGIVa~VT~~La~~~vNI~dls~~~~~~~~~F~m~~~~~~p--~~~~~~~L~~~L~~l~~~l~l~i~i~~ 85 (286)
T PRK13011 18 AGIVAAVTGFLAEHGCYITELHSFDDRLSGRFFMRVEFHSE--EGLDEDALRAGFAPIAARFGMQWELHD 85 (286)
T ss_pred CCHHHHHHHHHHhCCCCEEEeeeeecCCCCeEEEEEEEecC--CCCCHHHHHHHHHHHHHHhCcEEEEee
Confidence 468888888999999999999985 678899886654322 223477889999999999998887663
No 50
>COG4456 VagC Virulence-associated protein and related proteins [Function unknown]
Probab=37.86 E-value=24 Score=26.92 Aligned_cols=28 Identities=18% Similarity=0.203 Sum_probs=20.6
Q ss_pred cCCCcceEeeccCCCCCCccEEEecCCCC
Q 018391 308 VANRGASIRVGRDTEKEGKGYFEDRRPAS 336 (356)
Q Consensus 308 ~~NR~a~vRvp~~~~~~~~~riE~R~~da 336 (356)
..|||-+||+|....-+. .++|+++-+.
T Consensus 7 ~snrSQAVRLP~e~~f~~-~~VeI~r~G~ 34 (74)
T COG4456 7 RSNRSQAVRLPKEFRFPE-DRVEIIREGD 34 (74)
T ss_pred ecCCeeeEecchheecCC-cEEEEEEeCC
Confidence 579999999997643332 6888877654
No 51
>PRK05972 ligD ATP-dependent DNA ligase; Reviewed
Probab=36.52 E-value=2.4e+02 Score=31.56 Aligned_cols=123 Identities=15% Similarity=0.132 Sum_probs=73.3
Q ss_pred HHcC-ceeeeecCCC----CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecc
Q 018391 180 LYAG-INISGINGEV----MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYST 254 (356)
Q Consensus 180 ~~~G-i~ve~~~~E~----gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl 254 (356)
.++| |++-.+..-. -|.+.-|+|.|.+++. =+.++.+=..+|++..+.|+.. .|| . .-|.|+||.+-|
T Consensus 664 an~~~iE~H~w~~~~~~~~~Pd~lvfDLDP~~~~~-f~~v~~aA~~~r~~L~~lgL~s--f~K--T--SG~kGlHv~vPl 736 (860)
T PRK05972 664 AQMGAVELHTWNATPDRIEVPDRLVFDLDPGPGVP-WKAVVEAARLMRTRLDELGLES--FLK--T--SGGKGLHVVVPL 736 (860)
T ss_pred HHhCcEEeecCCCCCCCCCCCCEEEEECCCCCCCC-HHHHHHHHHHHHHHHHHcCCce--eeE--C--CCCCeEEEEEEc
Confidence 3444 5555444322 4899999999998864 4555666677899999999984 355 2 358999999999
Q ss_pred cccCCCCchhHHHHHHHHHHHHHHHhhcc--ccccccccCCCCCCCCCCCceeeccCCCcceEeec
Q 018391 255 KSMRNDGGIDVIKKAIEKLGKRHGEHIAA--YGEGNERRLTGRHETADINTFSWGVANRGASIRVG 318 (356)
Q Consensus 255 ~~~~~~~g~~~~~~fiaGl~L~h~~al~a--~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp 318 (356)
... .+....+.|...| -+++..-.. ++.+..|....+. .++-|-.|+|...+=-|
T Consensus 737 ~~~---~~~~~~~~fa~~i-a~~l~~~~P~~~t~~~~k~~R~gr-----ifiDylqN~~g~T~vap 793 (860)
T PRK05972 737 ARR---LDWDEVKAFAQAV-CQHMARDLPERFLAKMGKKNRVGK-----IFLDYLRNGRGATTVAA 793 (860)
T ss_pred CCC---CCHHHHHHHHHHH-HHHHHHHCchhehhhhhHhhCCCc-----EEEEccccCCCCeEEec
Confidence 642 2334455565555 333333322 2223333333321 56666666666554444
No 52
>PF14395 COOH-NH2_lig: Phage phiEco32-like COOH.NH2 ligase-type 2
Probab=36.00 E-value=51 Score=31.18 Aligned_cols=17 Identities=18% Similarity=0.319 Sum_probs=14.0
Q ss_pred cceEeeeeeEEEeccCC
Q 018391 123 EPWYGIEQEYTLLQKDI 139 (356)
Q Consensus 123 ~~~~g~E~EF~l~~~~~ 139 (356)
++.+|...||.|.+.+.
T Consensus 2 ~~~lGaDpEFmL~~~~g 18 (261)
T PF14395_consen 2 DVLLGADPEFMLRNPNG 18 (261)
T ss_pred cccccCChHHHeecCCC
Confidence 46789999999998764
No 53
>PRK09633 ligD ATP-dependent DNA ligase; Reviewed
Probab=33.16 E-value=3.3e+02 Score=29.18 Aligned_cols=109 Identities=12% Similarity=0.004 Sum_probs=64.8
Q ss_pred CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHH
Q 018391 194 MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKL 273 (356)
Q Consensus 194 gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl 273 (356)
-|.+.-|+|.|.+++ .=+.++.+=..+|++-.+.|+.. .|| . ..|.|+|+.+-|.... -+....+.|...|
T Consensus 431 ~pd~~v~DLDP~~~~-~~~~v~~~A~~~r~~L~~~gl~~--~~k--t--SG~kGlhv~vPl~~~~--~~~~~~~~fa~~~ 501 (610)
T PRK09633 431 RPTEIVFDLDPPSRD-EFPLAVEAALELKRLFDQFGLTS--FVK--T--SGNKGLQLYIPLSKNA--FTYEETRLFTEFI 501 (610)
T ss_pred CCCEEEEECCCCCCC-CHHHHHHHHHHHHHHHHHcCCcc--ceE--c--cCCCeEEEEEEcCCCC--CCHHHHHHHHHHH
Confidence 489999999998886 33455566677888889999973 356 2 3589999999996410 1233445555555
Q ss_pred H---HHHHHhhccccccccccCCCCCCCCCCCceeeccCCCcceEeec
Q 018391 274 G---KRHGEHIAAYGEGNERRLTGRHETADINTFSWGVANRGASIRVG 318 (356)
Q Consensus 274 ~---L~h~~al~a~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp 318 (356)
+ -+..|.+. +.+-.|....+ ..++-|..|+|...+=-|
T Consensus 502 a~~~~~~~P~~~--t~~~~k~~R~g-----rvfiDy~qN~~~~T~~ap 542 (610)
T PRK09633 502 AEYLCSQFPELF--TTERLKKNRGN-----RLYLDYVQHAEGKTIIAP 542 (610)
T ss_pred HHHHHHHCccee--hhhhhHhhCCC-----CEEEEcccCCCCCeEEec
Confidence 2 11223322 22223332222 156667666666555444
No 54
>PRK11191 RNase E inhibitor protein; Provisional
Probab=31.39 E-value=3.4e+02 Score=23.27 Aligned_cols=91 Identities=11% Similarity=-0.026 Sum_probs=57.9
Q ss_pred HHHHHHcCcccCCCcceEeeeeeEEEeccCCCCCCCCCCCCCCCCCCCCccccccchhhHHHHHHHHHHHHHHcCceeee
Q 018391 109 NAAKVFGHPDVVAEEPWYGIEQEYTLLQKDINWPLGWPVGGYPGPQGPYYCGVGADKALGRDIVNSHYKACLYAGINISG 188 (356)
Q Consensus 109 ~Lkr~~~~l~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~ve~ 188 (356)
.=+++++.|.+.|-.+..-.++|+++.-.+. +-++.+...+.++|.+|..
T Consensus 13 ~~~eVi~~L~edGsd~~~~~~IEH~~~f~d~------------------------------~~lek~a~~a~klGyeV~~ 62 (138)
T PRK11191 13 ETREIIEELLEDGSDPDALYTIEHHFSADDF------------------------------DKLEKAAVEAFKLGYEVTD 62 (138)
T ss_pred HHHHHHHHHHHcCCCcCCCEEEEEEEecCCH------------------------------HHHHHHHHHHHHcCCeeec
Confidence 3456777777888888888888888753321 2233344456889999943
Q ss_pred ---ecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCc
Q 018391 189 ---INGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGV 230 (356)
Q Consensus 189 ---~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl 230 (356)
+..|-+..-|-+.+.....+.+.+=- ..-.-+-.+|+++|.
T Consensus 63 ~ee~e~edg~~~~~~~~~~e~~l~~e~I~-~~~~~L~~LA~k~~g 106 (138)
T PRK11191 63 AEELELEDGDVIFCCDAVSEVALNAELID-AQVEQLLALAEKFDV 106 (138)
T ss_pred ccccccCCCCeEEEEEEEecCCCCHHHHH-HHHHHHHHHHHHhCC
Confidence 23455666777777777776654433 333445567777765
No 55
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=31.19 E-value=1.3e+02 Score=28.82 Aligned_cols=67 Identities=16% Similarity=-0.038 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHcCceeeeecCCC--CCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecc
Q 018391 169 RDIVNSHYKACLYAGINISGINGEV--MPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDP 236 (356)
Q Consensus 169 ~~~~~~l~~~l~~~Gi~ve~~~~E~--gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmp 236 (356)
-.++.++.+.|.+.|++++.++... -.|+|.+.+.-.-- ...+++-.+++.+.+++++.|+.++.-.
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 PGIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEFEGD-GLIFNLETLRADFAALAEEFEMDWRLLD 85 (286)
T ss_pred CcHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEEEeC-CCCCCHHHHHHHHHHHHHHhCCEEEEcc
Confidence 4678888888999999999998887 67788776553320 1112266789999999999999987654
No 56
>COG4326 Spo0M Sporulation control protein [General function prediction only]
Probab=30.23 E-value=66 Score=29.59 Aligned_cols=38 Identities=16% Similarity=0.180 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHcCceeeeecCCCCCCc-------EEEEeCCCc
Q 018391 169 RDIVNSHYKACLYAGINISGINGEVMPGQ-------WEFQVGPCV 206 (356)
Q Consensus 169 ~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ-------~Ei~l~~~~ 206 (356)
.++++.+..+++.+|+.+.+...|.+++- .|+.|.|+.
T Consensus 154 hP~m~~vl~AiE~lGfrL~~vdCEqa~yF~~a~PFVQEfEFvPTt 198 (270)
T COG4326 154 HPMMDGVLSAIEALGFRLRQVDCEQAKYFGGALPFVQEFEFVPTT 198 (270)
T ss_pred chHHHHHHHHHHhhccEeeeccccccccccccccceeEEEEeccC
Confidence 68899999999999999999999999864 477777763
No 57
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=29.24 E-value=24 Score=29.95 Aligned_cols=20 Identities=25% Similarity=0.449 Sum_probs=13.1
Q ss_pred CceeeeecCCCCCCcEEEEeC
Q 018391 183 GINISGINGEVMPGQWEFQVG 203 (356)
Q Consensus 183 Gi~ve~~~~E~gpGQ~Ei~l~ 203 (356)
+-.+|++.- .+||||||||.
T Consensus 83 ~~~iESIrI-~~pG~YElNL~ 102 (131)
T PF09845_consen 83 NDRIESIRI-LEPGSYELNLE 102 (131)
T ss_pred ccCcceEEE-ecCceEEecHH
Confidence 334444443 36999999984
No 58
>PRK09632 ATP-dependent DNA ligase; Reviewed
Probab=28.84 E-value=4.8e+02 Score=28.83 Aligned_cols=108 Identities=9% Similarity=0.078 Sum_probs=65.0
Q ss_pred CCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEecccccCCCCCCceeeeeecccccCCCCchhHHHHHHHHHH
Q 018391 195 PGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSFDPKPIKGDWNGAGAHANYSTKSMRNDGGIDVIKKAIEKLG 274 (356)
Q Consensus 195 pGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTFmpKP~~~~~~GsG~H~H~Sl~~~~~~~g~~~~~~fiaGl~ 274 (356)
|.+.-|+|.|.+++. =++++.+=..+|++-...|+.. .|| . .-|.|+|+.+-|... .+....+.|...|+
T Consensus 135 PD~lv~DLDP~~~~~-f~~v~~~A~~~r~~L~~lgL~~--~~K--T--SG~kGlHv~vPl~~~---~~~~~~~~fa~~~A 204 (764)
T PRK09632 135 ATRLVFDLDPGEGVG-LAECAEVARAVRDLLADIGLET--FPV--T--SGSKGIHLYAPLDGP---VSSEGASVVAKEVA 204 (764)
T ss_pred CCEEEEECCCCCCCC-HHHHHHHHHHHHHHHHHcCCce--eeE--C--CCCCeEEEEEECCCC---CCHHHHHHHHHHHH
Confidence 458999999988763 3455566677888889999974 356 2 358999999999642 22333445544442
Q ss_pred ---HHHHHhhccccccccccCCCCCCCCCCCceeeccCCCcceEeecc
Q 018391 275 ---KRHGEHIAAYGEGNERRLTGRHETADINTFSWGVANRGASIRVGR 319 (356)
Q Consensus 275 ---L~h~~al~a~~~nsYkRl~p~~~ap~~~~~~WG~~NR~a~vRvp~ 319 (356)
-+..|.+.. .+-.|....+ ..++-|..|+|...+=.|-
T Consensus 205 ~~l~~~~P~~~t--~~~~k~~R~g-----kvfiDy~qN~~g~T~vapY 245 (764)
T PRK09632 205 RALEQDHPDLVT--STMTKSLRAG-----KVFVDWSQNNGSKTTIAPY 245 (764)
T ss_pred HHHHHHCcceeh--hhhhHhhCCC-----CEEEECccCCCCCeEEecc
Confidence 222233322 2222222222 2677777777776555553
No 59
>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=26.42 E-value=1.9e+02 Score=21.69 Aligned_cols=35 Identities=6% Similarity=-0.030 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCc
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCV 206 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~ 206 (356)
.++.++.+.|.+.||.|+.+.. +..++-+++...+
T Consensus 16 g~~~~IF~~La~~~I~VDmI~~--s~~~iSftv~~~d 50 (75)
T cd04932 16 GFLAKVFGILAKHNISVDLITT--SEISVALTLDNTG 50 (75)
T ss_pred CHHHHHHHHHHHcCCcEEEEee--cCCEEEEEEeccc
Confidence 4555666778999999999975 3377888887765
No 60
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=25.42 E-value=1.8e+02 Score=24.50 Aligned_cols=56 Identities=20% Similarity=0.128 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHHHcCceEEe
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITEIAGVVLSF 234 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~aTF 234 (356)
.....+.+.|++.||.+.++..|.+ +..|.|.-. |+-..+|.++++.-.. ++.+.+
T Consensus 50 ~~~~~v~~~L~~~gI~~ksi~~~~~--~~~irf~~~------~~Ql~Ak~vL~~~L~~-~y~VAl 105 (127)
T PRK10629 50 PDGFYVYQHLDANGIHIKSITPEND--SLLIRFDSP------EQSAAAKEVLDRTLPH-GYIIAQ 105 (127)
T ss_pred chHHHHHHHHHHCCCCcceEEeeCC--EEEEEECCH------HHHHHHHHHHHHHcCC-CCEEEE
Confidence 4566778889999999999988854 777777654 7778889988887654 455443
No 61
>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=25.40 E-value=2.4e+02 Score=19.97 Aligned_cols=21 Identities=24% Similarity=0.172 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHcCceeeeecC
Q 018391 171 IVNSHYKACLYAGINISGING 191 (356)
Q Consensus 171 ~~~~l~~~l~~~Gi~ve~~~~ 191 (356)
.+.++.+.|.+.||.|+++..
T Consensus 14 ~La~v~~~l~~~~inI~~i~~ 34 (66)
T cd04908 14 RLAAVTEILSEAGINIRALSI 34 (66)
T ss_pred hHHHHHHHHHHCCCCEEEEEE
Confidence 455666778899999998875
No 62
>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=25.31 E-value=1.3e+02 Score=21.62 Aligned_cols=32 Identities=13% Similarity=0.117 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCC-CcEEEE
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMP-GQWEFQ 201 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gp-GQ~Ei~ 201 (356)
.++.++.+.+.+.|+.+..+++...+ |+.++.
T Consensus 12 g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~ 44 (76)
T cd04888 12 GVLSKVLNTIAQVRGNVLTINQNIPIHGRANVT 44 (76)
T ss_pred chHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEE
Confidence 35666777789999999999875443 444333
No 63
>PF11657 Activator-TraM: Transcriptional activator TraM
Probab=24.51 E-value=52 Score=28.44 Aligned_cols=18 Identities=28% Similarity=0.386 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHcCceEE
Q 018391 216 MARYILERITEIAGVVLS 233 (356)
Q Consensus 216 ~~k~~ik~vA~~~Gl~aT 233 (356)
.+.++|++||++||...+
T Consensus 4 k~~eiI~~IA~khgI~L~ 21 (144)
T PF11657_consen 4 KIEEIIAEIARKHGIALS 21 (144)
T ss_pred HHHHHHHHHHHHcCCccC
Confidence 368899999999999853
No 64
>PRK13895 conjugal transfer protein TraM; Provisional
Probab=24.06 E-value=55 Score=28.15 Aligned_cols=17 Identities=12% Similarity=0.350 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHcCceEE
Q 018391 217 ARYILERITEIAGVVLS 233 (356)
Q Consensus 217 ~k~~ik~vA~~~Gl~aT 233 (356)
+.++||+||.|||...+
T Consensus 5 i~e~I~~IA~KHGIal~ 21 (144)
T PRK13895 5 IEELIKEIAAKHGIAVG 21 (144)
T ss_pred HHHHHHHHHHHcCcccC
Confidence 57899999999999854
No 65
>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=23.96 E-value=3e+02 Score=20.92 Aligned_cols=36 Identities=8% Similarity=0.102 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCch
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVG 207 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~ 207 (356)
.+..++.+.|++.||+|+.+.. +...+-+++...+.
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 4556666778999999999975 33667777776554
No 66
>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=23.08 E-value=2.9e+02 Score=20.31 Aligned_cols=52 Identities=13% Similarity=0.283 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHHH
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERITE 226 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA~ 226 (356)
.++.++.+.|.+.||++..+.. ++.++-+.+...+... |+- ..+.++|++.+
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 5667777888999999999964 3455666655544322 222 45667777665
No 67
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=23.02 E-value=1.4e+02 Score=22.03 Aligned_cols=36 Identities=17% Similarity=0.284 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCC
Q 018391 169 RDIVNSHYKACLYAGINISGINGEVMPGQWEFQVGP 204 (356)
Q Consensus 169 ~~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~ 204 (356)
.++++++...|...||.-.-...+...+.|++.+.-
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 688999999999999998665455678889999854
No 68
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=23.02 E-value=2.1e+02 Score=22.91 Aligned_cols=45 Identities=22% Similarity=0.195 Sum_probs=34.6
Q ss_pred HHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCchhhhhHHHHHHHHHHHHHH
Q 018391 173 NSHYKACLYAGINISGINGEVMPGQWEFQVGPCVGISSGDQLWMARYILERIT 225 (356)
Q Consensus 173 ~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~ik~vA 225 (356)
..+.+.|++.||.++++..| .+|..|.|.-. |+-..+|.++++.-
T Consensus 49 ~~v~~~L~~~~I~~k~i~~~--~~~llirf~~~------~~Ql~Ak~~L~~~L 93 (101)
T PF13721_consen 49 FQVEQALKAAGIAVKSIEQE--GDSLLIRFDST------DQQLKAKDVLSKAL 93 (101)
T ss_pred HHHHHHHHHCCCCcceEEee--CCEEEEEECCH------HHHHHHHHHHHHHc
Confidence 47788899999999998866 47888888754 66667777776643
No 69
>PF11679 DUF3275: Protein of unknown function (DUF3275); InterPro: IPR021693 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=21.32 E-value=48 Score=30.44 Aligned_cols=30 Identities=17% Similarity=0.095 Sum_probs=24.2
Q ss_pred cCCCccCCCCh---HHHHHHHHcCcccCCCcce
Q 018391 96 TPAGEPIPTNK---RFNAAKVFGHPDVVAEEPW 125 (356)
Q Consensus 96 ~~~G~P~~~~P---R~~Lkr~~~~l~~~G~~~~ 125 (356)
++-|+|+..|| |..|+++.++|.++||.+.
T Consensus 173 Wplge~VKLD~TvDR~~lR~q~~rLg~LGY~~d 205 (214)
T PF11679_consen 173 WPLGEPVKLDPTVDRRRLRQQRARLGQLGYAFD 205 (214)
T ss_pred ccCCCceeccCccCHHHHHHHHHHHHhcCeeec
Confidence 45677776654 9999999999999998754
No 70
>PF10411 DsbC_N: Disulfide bond isomerase protein N-terminus; InterPro: IPR018950 This is the N-terminal domain of the disulphide bond isomerase DsbC. The whole molecule is V-shaped, where each arm is a DsbC monomer of two domains linked by a hinge; and the N-termini of each monomer join to form the dimer interface at the base of the V, so are vital for dimerisation []. DsbC is required for disulphide bond formation and functions as a disulphide bond isomerase during oxidative protein-folding in bacterial periplasm. It also has chaperone activity []. ; PDB: 1EEJ_B 2IYJ_A 1TJD_A 1JZD_B 1JZO_A 1G0T_B 1T3B_A.
Probab=21.12 E-value=65 Score=22.93 Aligned_cols=26 Identities=23% Similarity=0.494 Sum_probs=20.4
Q ss_pred HHHHHc--CceeeeecCCCCCCcEEEEe
Q 018391 177 KACLYA--GINISGINGEVMPGQWEFQV 202 (356)
Q Consensus 177 ~~l~~~--Gi~ve~~~~E~gpGQ~Ei~l 202 (356)
++|++. |++|+++..---||-||+.+
T Consensus 3 ~~l~~~~p~~~v~~v~~spi~GlyeV~~ 30 (57)
T PF10411_consen 3 QALKKAFPGLKVESVSPSPIPGLYEVVL 30 (57)
T ss_dssp HHHHCT--T-TCEEEEE-SSTTEEEEEE
T ss_pred hHHHhhcCCCceeEEEcCCCCCeEEEEE
Confidence 445666 89999999888999999998
No 71
>cd04935 ACT_AKiii-DAPDC_1 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. This CD includes the first of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.10 E-value=3e+02 Score=20.47 Aligned_cols=35 Identities=6% Similarity=0.124 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCc
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCV 206 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~ 206 (356)
.++.++.+.|++.||.|+.+.. +.-.+-+++...+
T Consensus 16 g~~~~IF~~La~~~I~vDmI~~--s~~~isftv~~~~ 50 (75)
T cd04935 16 GFLADVFAPFKKHGVSVDLVST--SETNVTVSLDPDP 50 (75)
T ss_pred CHHHHHHHHHHHcCCcEEEEEe--CCCEEEEEEeCcc
Confidence 4566677778999999999975 3356667777665
No 72
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=20.68 E-value=2.2e+02 Score=27.38 Aligned_cols=68 Identities=13% Similarity=0.071 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHcCceeeeecCC--CCCCcEEEEeCCCchhh-hhHHHHHHHHHHHHHHHHcCceEEeccc
Q 018391 169 RDIVNSHYKACLYAGINISGINGE--VMPGQWEFQVGPCVGIS-SGDQLWMARYILERITEIAGVVLSFDPK 237 (356)
Q Consensus 169 ~~~~~~l~~~l~~~Gi~ve~~~~E--~gpGQ~Ei~l~~~~~l~-aaD~~~~~k~~ik~vA~~~Gl~aTFmpK 237 (356)
-.|+..+.+.|.+.|++|..+..- ...|+|-+-+.-.+-.. .. ..-.+|..+++++++.|+..+.-+.
T Consensus 20 ~GIVA~Vs~~Lae~g~NI~disq~~d~~~~~ffm~i~~~~~~~~~~-~~~~l~~~l~~l~~~l~l~~~i~~~ 90 (289)
T PRK13010 20 PGIVAAVSGFLAEKGCYIVELTQFDDDESGRFFMRVSFHAQSAEAA-SVDTFRQEFQPVAEKFDMQWAIHPD 90 (289)
T ss_pred CCcHHHHHHHHHHCCCCEEecccccccccCcEEEEEEEEcCCCCCC-CHHHHHHHHHHHHHHhCCeEEEecC
Confidence 467778888899999999998884 55677776543321111 12 2447899999999999998877644
No 73
>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=20.53 E-value=3.4e+02 Score=27.12 Aligned_cols=143 Identities=17% Similarity=0.128 Sum_probs=69.4
Q ss_pred EEEEEEeecCCCccCCCChHHHHHHH--HcCcccCCCcceEeeeeeEEEeccCCCC----CCCCCCC------CCCCCCC
Q 018391 88 ILVMCDAYTPAGEPIPTNKRFNAAKV--FGHPDVVAEEPWYGIEQEYTLLQKDINW----PLGWPVG------GYPGPQG 155 (356)
Q Consensus 88 a~V~cd~~~~~G~P~~~~PR~~Lkr~--~~~l~~~G~~~~~g~E~EF~l~~~~~~~----~~~~~~~------~~~~~~~ 155 (356)
-.|+..=+.+.|.|.-..-|.+++-- ...|+++|.. .+|.++-.+-+. +.+.|.. +.|...-
T Consensus 24 ~~v~~sG~sPSG~~HIGn~rEv~~~~~V~~al~~~g~~------~r~i~~~DD~D~lRKvP~~~p~~~~~~ylg~Plt~V 97 (360)
T PF01921_consen 24 PYVFASGISPSGLPHIGNFREVLRADMVARALRDRGKD------VRLIYFSDDMDPLRKVPPNVPNPELEKYLGKPLTRV 97 (360)
T ss_dssp EEEEEEEE--SS---HHHHHHHHHHHHHHHHHHTTT-E------EEEEEEE-TTSB-----TTS-CC-CCCCTTSBTTTS
T ss_pred cEEEecCCCCCCCcccccccchhhHHHHHHHHHHcCCC------EEEEEEeecCCcccCCCCCCChHHHHHhcCCccccC
Confidence 46777778899999999999988753 2334666665 678777554330 1111100 1111111
Q ss_pred CCccccccchhhHHHHHHHHHHHHHHcCceeeeec--CCCCCCcEEEEeCCCchh-hhhHHHHHHHHHHHHHHHHcCceE
Q 018391 156 PYYCGVGADKALGRDIVNSHYKACLYAGINISGIN--GEVMPGQWEFQVGPCVGI-SSGDQLWMARYILERITEIAGVVL 232 (356)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~l~~~l~~~Gi~ve~~~--~E~gpGQ~Ei~l~~~~~l-~aaD~~~~~k~~ik~vA~~~Gl~a 232 (356)
+. ......++.+.+...+.+.|+..||++|-+. .-|..|.| .+.+ .+..+.-..+.++.++-.+. +..
T Consensus 98 Pd--P~G~~~SyaeH~~~~~~~~L~~~gie~e~~s~te~Y~sG~y------~~~i~~aL~~~~~I~~Il~~~~~~~-~~~ 168 (360)
T PF01921_consen 98 PD--PFGCHESYAEHFNAPFEEFLDEFGIEYEFISQTEMYRSGRY------DEQIRTALENRDEIREILNEYRGRE-RPE 168 (360)
T ss_dssp B---TTSSSSCHHHHHHHHHHHHHHTTT---EEEECCCCCCTTTT------HHHHCHHHHTHHHHHHHHHHHHHHT---T
T ss_pred CC--CCCCCccHHHHHHHHHHHHHHHcCCceEEEeHHHhhhCCch------HHHHHHHHHhHHHHHHHHHHhcCcC-CCC
Confidence 10 0011235678888889999999999887654 34446654 2222 23344444455565554443 677
Q ss_pred Eeccc-ccCCCCCCc
Q 018391 233 SFDPK-PIKGDWNGA 246 (356)
Q Consensus 233 TFmpK-P~~~~~~Gs 246 (356)
++.|= |.. ..+|.
T Consensus 169 ~y~Pf~piC-~~cGr 182 (360)
T PF01921_consen 169 TYSPFLPIC-EKCGR 182 (360)
T ss_dssp T--SEEEEE-TTTEE
T ss_pred Ceeeeeeec-cccCC
Confidence 77763 665 34554
No 74
>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=20.21 E-value=1.8e+02 Score=20.12 Aligned_cols=37 Identities=24% Similarity=0.034 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHcCceeeeecCCCCCCcEEEEeCCCc
Q 018391 170 DIVNSHYKACLYAGINISGINGEVMPGQWEFQVGPCV 206 (356)
Q Consensus 170 ~~~~~l~~~l~~~Gi~ve~~~~E~gpGQ~Ei~l~~~~ 206 (356)
.+...+.+.|.+.||++..+.......++-+.+...+
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 4455666778999999999986544456666666544
Done!