Query 026354
Match_columns 240
No_of_seqs 145 out of 1532
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 06:57:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026354.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026354hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03036 glutamine synthetase; 100.0 5.4E-59 1.2E-63 428.2 28.3 239 1-239 61-300 (432)
2 PLN02284 glutamine synthetase 100.0 1.7E-57 3.7E-62 411.8 27.4 239 1-239 1-240 (354)
3 COG0174 GlnA Glutamine synthet 100.0 1.4E-53 2.9E-58 393.2 24.1 220 14-240 11-237 (443)
4 TIGR00653 GlnA glutamine synth 100.0 2E-51 4.3E-56 383.3 22.8 218 16-239 10-253 (460)
5 PRK09469 glnA glutamine synthe 100.0 1.3E-50 2.8E-55 378.4 23.6 220 16-240 13-263 (469)
6 TIGR03105 gln_synth_III glutam 100.0 6.3E-50 1.4E-54 371.1 22.3 216 16-239 8-228 (435)
7 KOG0683 Glutamine synthetase [ 100.0 1.2E-39 2.7E-44 286.8 15.1 233 7-239 18-251 (380)
8 PF00120 Gln-synt_C: Glutamine 100.0 4.5E-36 9.9E-41 261.8 12.9 134 103-240 1-140 (259)
9 PF03951 Gln-synt_N: Glutamine 99.7 3.6E-16 7.9E-21 114.0 8.8 79 17-97 1-84 (84)
10 COG3968 Uncharacterized protei 99.4 2.4E-12 5.3E-17 117.3 10.6 115 122-240 214-341 (724)
11 TIGR02050 gshA_cyan_rel unchar 96.7 0.0047 1E-07 54.9 6.9 79 125-230 1-80 (287)
12 PLN02611 glutamate--cysteine l 96.5 0.028 6.1E-07 53.4 10.6 86 121-230 65-165 (482)
13 TIGR01436 glu_cys_lig_pln glut 96.1 0.08 1.7E-06 49.9 11.6 95 121-236 19-132 (446)
14 PRK13517 carboxylate-amine lig 96.0 0.033 7.2E-07 51.3 8.4 81 123-230 10-91 (373)
15 PRK13516 gamma-glutamyl:cystei 95.8 0.046 9.9E-07 50.4 8.4 81 123-230 11-92 (373)
16 PRK13515 carboxylate-amine lig 95.3 0.082 1.8E-06 48.6 8.1 80 123-230 5-85 (371)
17 PF04107 GCS2: Glutamate-cyste 95.1 0.075 1.6E-06 47.1 7.2 45 186-230 34-79 (288)
18 PRK13518 carboxylate-amine lig 94.9 0.13 2.7E-06 47.3 8.2 80 124-230 13-93 (357)
19 TIGR02048 gshA_cyano glutamate 91.9 0.48 1E-05 43.8 6.7 43 188-230 31-74 (376)
20 TIGR03444 gshA_related glutama 90.1 1.1 2.4E-05 41.5 7.2 48 188-236 63-115 (390)
21 PF06877 RraB: Regulator of ri 84.6 8.2 0.00018 28.4 7.9 94 106-230 2-97 (104)
22 cd04869 ACT_GcvR_2 ACT domains 84.6 2.7 5.8E-05 29.2 5.0 63 171-235 12-81 (81)
23 COG2170 Uncharacterized conser 79.7 2.7 5.8E-05 38.4 4.2 78 124-230 3-83 (369)
24 PF13740 ACT_6: ACT domain; PD 78.4 7.7 0.00017 26.9 5.5 61 170-233 14-75 (76)
25 KOG0558 Dihydrolipoamide trans 74.1 2.8 6.1E-05 38.2 2.7 51 166-235 250-301 (474)
26 cd04872 ACT_1ZPV ACT domain pr 73.2 6.2 0.00013 28.1 4.0 65 170-235 13-78 (88)
27 PRK00194 hypothetical protein; 70.5 8.4 0.00018 27.4 4.2 63 170-233 15-78 (90)
28 cd04870 ACT_PSP_1 CT domains f 69.3 14 0.0003 25.5 4.9 62 170-233 11-73 (75)
29 COG3364 Zn-ribbon containing p 68.1 3.7 8E-05 30.8 1.8 25 179-204 54-78 (112)
30 COG3572 GshA Gamma-glutamylcys 67.7 11 0.00024 35.1 5.1 48 188-236 90-142 (456)
31 PF04468 PSP1: PSP1 C-terminal 60.6 15 0.00032 26.6 3.8 57 169-230 25-81 (88)
32 cd04875 ACT_F4HF-DF N-terminal 57.4 34 0.00073 23.3 5.1 59 170-230 11-72 (74)
33 cd04893 ACT_GcvR_1 ACT domains 55.3 36 0.00077 23.6 5.0 58 170-230 13-70 (77)
34 PF09904 HTH_43: Winged helix- 53.6 38 0.00083 24.8 4.9 20 105-124 33-52 (90)
35 PF09845 DUF2072: Zn-ribbon co 51.6 6.8 0.00015 30.7 0.8 21 182-203 82-102 (131)
36 TIGR03884 sel_bind_Methan sele 47.4 37 0.0008 24.0 3.8 29 105-133 26-54 (74)
37 smart00874 B5 tRNA synthetase 45.7 78 0.0017 21.3 5.4 42 179-230 28-71 (71)
38 PF03484 B5: tRNA synthetase B 40.2 83 0.0018 21.4 4.8 42 178-230 27-70 (70)
39 PF11679 DUF3275: Protein of u 37.1 33 0.00071 29.2 2.8 35 89-124 167-204 (214)
40 PF09899 DUF2126: Putative ami 35.8 1.1E+02 0.0024 31.1 6.6 63 168-235 347-426 (819)
41 PF04417 DUF501: Protein of un 35.7 64 0.0014 25.5 4.1 39 80-122 5-48 (139)
42 PF07582 AP_endonuc_2_N: AP en 35.0 39 0.00085 22.4 2.3 21 111-131 3-23 (55)
43 PRK11589 gcvR glycine cleavage 31.6 1.6E+02 0.0035 24.5 6.1 66 169-236 106-178 (190)
44 PF06135 DUF965: Bacterial pro 31.6 43 0.00093 23.9 2.2 22 103-124 14-35 (79)
45 PRK13011 formyltetrahydrofolat 31.3 85 0.0018 27.8 4.6 59 170-230 19-79 (286)
46 PF14528 LAGLIDADG_3: LAGLIDAD 30.5 1.2E+02 0.0025 20.6 4.4 36 169-204 31-66 (77)
47 cd04882 ACT_Bt0572_2 C-termina 30.3 1.4E+02 0.003 19.0 4.6 35 168-206 13-49 (65)
48 COG0296 GlgB 1,4-alpha-glucan 30.3 4.2E+02 0.0091 26.5 9.5 77 104-195 161-241 (628)
49 PF10411 DsbC_N: Disulfide bon 30.0 43 0.00093 22.0 1.9 26 177-202 3-30 (57)
50 COG1654 BirA Biotin operon rep 29.1 63 0.0014 23.0 2.8 21 104-124 30-50 (79)
51 cd04932 ACT_AKiii-LysC-EC_1 AC 27.3 2E+02 0.0044 19.8 5.1 34 167-206 17-50 (75)
52 KOG3243 6,7-dimethyl-8-ribityl 27.0 71 0.0015 25.2 2.9 38 166-203 30-67 (158)
53 PF01921 tRNA-synt_1f: tRNA sy 25.6 5.4E+02 0.012 23.8 9.0 129 87-228 23-165 (360)
54 cd02641 R3H_Smubp-2_like R3H d 24.4 71 0.0015 21.3 2.2 28 198-232 18-45 (60)
55 TIGR00114 lumazine-synth 6,7-d 23.9 49 0.0011 26.1 1.6 39 165-203 12-50 (138)
56 cd04888 ACT_PheB-BS C-terminal 23.8 1.8E+02 0.004 19.2 4.4 31 168-202 14-45 (76)
57 PF00070 Pyr_redox: Pyridine n 23.7 2.3E+02 0.0049 19.2 4.9 41 94-134 27-67 (80)
58 PLN02404 6,7-dimethyl-8-ribity 23.6 51 0.0011 26.2 1.6 39 165-203 19-57 (141)
59 PRK02877 hypothetical protein; 23.4 1.3E+02 0.0029 22.6 3.8 32 104-135 56-87 (106)
60 PF07004 SHIPPO-rpt: Sperm-tai 23.3 33 0.0007 19.2 0.4 11 194-204 3-13 (37)
61 PLN02284 glutamine synthetase 22.8 91 0.002 28.5 3.3 41 2-43 5-47 (354)
62 PF08532 Glyco_hydro_42M: Beta 22.4 1.4E+02 0.0029 24.8 4.1 41 169-209 29-69 (207)
63 cd03143 A4_beta-galactosidase_ 22.4 2.2E+02 0.0049 22.0 5.2 57 170-230 26-82 (154)
64 PRK01060 endonuclease IV; Prov 22.4 4.9E+02 0.011 22.2 9.2 55 172-230 49-103 (281)
65 cd02640 R3H_NRF R3H domain of 22.3 82 0.0018 21.1 2.2 28 197-232 17-45 (60)
66 PRK10629 EnvZ/OmpR regulon mod 22.3 3.2E+02 0.0069 21.2 5.8 52 170-230 50-101 (127)
67 PRK06027 purU formyltetrahydro 22.1 2.1E+02 0.0046 25.3 5.4 62 170-232 18-82 (286)
68 PRK12856 hypothetical protein; 21.7 1.3E+02 0.0028 22.6 3.4 32 104-135 56-87 (103)
69 cd06007 R3H_DEXH_helicase R3H 21.0 82 0.0018 21.1 2.0 28 197-232 16-44 (59)
70 PF00325 Crp: Bacterial regula 21.0 1.2E+02 0.0026 17.7 2.4 19 104-122 13-31 (32)
71 PF12116 SpoIIID: Stage III sp 20.7 1.2E+02 0.0026 21.8 2.9 25 206-230 7-31 (82)
72 cd04889 ACT_PDH-BS-like C-term 20.7 2.3E+02 0.0049 17.7 4.2 39 168-210 12-51 (56)
73 KOG0257 Kynurenine aminotransf 20.4 72 0.0016 29.9 2.1 50 86-138 173-222 (420)
74 PRK05473 hypothetical protein; 20.2 92 0.002 22.6 2.2 21 104-124 18-38 (86)
No 1
>PLN03036 glutamine synthetase; Provisional
Probab=100.00 E-value=5.4e-59 Score=428.23 Aligned_cols=239 Identities=73% Similarity=1.327 Sum_probs=217.4
Q ss_pred ChhhHHHhcCCCCCCCCeEEEEEEEEcCCCCceeeeeeeCCCCCCCCCCCCccccccCCCCCCCCCCCcEEEEceeeEec
Q 026354 1 MSLLSDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSSTGQAPGEDSEVILYPQAIFKD 80 (240)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~v~~~~~D~~G~~~R~K~~~~~~~~~~~~~~~~~~~d~~~~g~~~~~~~D~~l~PD~~~~l 80 (240)
|+.+.+|++|+..++++++.++|+|+|.+||-+|||++.++..++.+++++.|+||||++++..++++|++++||.++++
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 46788999999999999999999999999977999999998777888889899999999998889999999999999999
Q ss_pred CCCCCCeEEEEEEEECCCCCCCCCChHHHHHHHHHHHhhcCCeeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCccc
Q 026354 81 PFRRGNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCG 160 (240)
Q Consensus 81 Pw~~~~~a~vl~d~~~~~G~p~~~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (240)
||+.+++++|+||+|+.||+|++.|||++|++++++++.+|+++++|+|+|||||+.+.+.+.+++..+.|.+.++||+.
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 99775699999999999999999999999999999999999999999999999998653223455543466788888877
Q ss_pred CCcchHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeeccCCC
Q 026354 161 VGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRSQANS 239 (240)
Q Consensus 161 ~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmPKp~~ 239 (240)
.+.+..+.++++++++++|+.+||+|+++|+|+|||||||++.|+++|+|||++++||++||+||++||+ +||||||+.
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 7666666789999999999999999999999999999999999999999999999999999999999999 899999964
No 2
>PLN02284 glutamine synthetase
Probab=100.00 E-value=1.7e-57 Score=411.81 Aligned_cols=239 Identities=88% Similarity=1.483 Sum_probs=210.3
Q ss_pred ChhhHHHhcCCCCCCCCeEEEEEEEEcCCCCceeeeeeeCCCCCCCCCCCCccccccCCCCCCCCCCCcEEEEceeeEec
Q 026354 1 MSLLSDLLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSSTGQAPGEDSEVILYPQAIFKD 80 (240)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~v~~~~~D~~G~~~R~K~~~~~~~~~~~~~~~~~~~d~~~~g~~~~~~~D~~l~PD~~~~l 80 (240)
||..+.+++++++++.++..++|+|+|+.+.-+|||.+.+...++.+++.+.|+||||++++..++++|++++||.++++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~y~wi~~~~~dl~g~~~~~~~~~~~~~~~~~~~fdGssi~~~~~~~sD~~l~PDt~~~~ 80 (354)
T PLN02284 1 MSLLSDLINLNLSDSTDKIIAEYIWIGGSGMDLRSKARTLPGPVTDPSKLPKWNYDGSSTGQAPGEDSEVILYPQAIFKD 80 (354)
T ss_pred CchhhhhHhhcccCcCCeEEEEEEEEEEEecCCCCceEEecccccccccCCceeecCCCCCCccCCCceEEEEccEEEEC
Confidence 46667788899999999999999999988866888888887656677777779999999988888999999999998899
Q ss_pred CCCCCCeEEEEEEEECCCCCCCCCChHHHHHHHHHHHhhcCCeeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCccc
Q 026354 81 PFRRGNNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCG 160 (240)
Q Consensus 81 Pw~~~~~a~vl~d~~~~~G~p~~~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~ 160 (240)
||.++++++|+||++++||+|++.|||++|+|+++++++.|+++++|+|+|||||+.+...+.+++..+.+.+.++||+.
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 99765689999999999999999999999999999999999999999999999998643112334322355677788776
Q ss_pred CCcchHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeeccCCC
Q 026354 161 VGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRSQANS 239 (240)
Q Consensus 161 ~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmPKp~~ 239 (240)
.+.+..+.++++++++++|+++||+|+++|||+|||||||++.|.++|+|||++++||++||+||++||+ +||||||+.
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 6655556799999999999999999999999999999999999999999999999999999999999999 899999964
No 3
>COG0174 GlnA Glutamine synthetase [Amino acid transport and metabolism]
Probab=100.00 E-value=1.4e-53 Score=393.18 Aligned_cols=220 Identities=27% Similarity=0.429 Sum_probs=187.3
Q ss_pred CCCCeEEEEEEEEcCCCCceeeeeeeCCCCCCCCCCCCc--cccccCCC-CCCCCCCCcEEEEcee--eEecCCCCCCeE
Q 026354 14 ESTDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPK--WNYDGSST-GQAPGEDSEVILYPQA--IFKDPFRRGNNI 88 (240)
Q Consensus 14 ~~~~~~~v~~~~~D~~G~~~R~K~~~~~~~~~~~~~~~~--~~~d~~~~-g~~~~~~~D~~l~PD~--~~~lPw~~~~~a 88 (240)
+..+|++|+++|+|+.| ++|+|++|+.+....+..... ..||||++ |+...+++|++++||+ ++++||.++++|
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 66789999999999999 999999999841112222222 55899998 6666699999999999 999999996699
Q ss_pred EEEEEEECCCCCCCCCChHHHHHHHHHHHhhcCCe-eEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHH
Q 026354 89 LVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEE-PWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAW 167 (240)
Q Consensus 89 ~vl~d~~~~~G~p~~~~PR~~L~r~l~~l~~~Gl~-~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (240)
+|+||+++++|+|++.|||++|+|++++|+++|+. +++|+|+|||||+.+...... +.+.+.++||+..+.+.
T Consensus 90 ~v~cdv~~~~g~p~~~dPR~vlkr~~~~l~~~G~~~~~~g~E~EFfLfd~~~~~~~~----~~~~~~~~yf~~~~~~~-- 163 (443)
T COG0174 90 RVLCDVYDPDGTPYPRDPRSVLKRALARLKDEGLAPAVVGPELEFFLFDRDGRDPDG----GRPADKGGYFDVAPLDE-- 163 (443)
T ss_pred EEEEEEECCCCCcCCCChHHHHHHHHHHHHhcCCccceeecceeEEEeecccCCccc----CccCCCCcccCcccccc--
Confidence 99999999999999999999999999999999997 599999999999975411111 25678899998888654
Q ss_pred HHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeeccCCCC
Q 026354 168 GRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRSQANSG 240 (240)
Q Consensus 168 ~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmPKp~~~ 240 (240)
..++.++++..|+++||+++++|||+|||||||++++.++|++||+++++|++||+||++||+ +||||||+.|
T Consensus 164 ~~~~~~di~~~l~~~Gi~ie~~hhEva~gQ~EI~~~~~~~l~~AD~~~~~K~vvk~vA~~hG~~aTFMpKP~~g 237 (443)
T COG0174 164 AEDFRRDIVEALEAAGIEIEAIHHEVAPGQFEINLRFDDALKAADQIVIFKYVVKEVAEKHGLTATFMPKPFFG 237 (443)
T ss_pred HHHHHHHHHHHHHHCCCCcEeccccccCCceEEecCCCCHHHHHHHHHHHHHHHHHHHHHhCCeEEEeCCCCCC
Confidence 334444444449999999999999999999999999999999999999999999999999999 8999999865
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=2e-51 Score=383.34 Aligned_cols=218 Identities=21% Similarity=0.287 Sum_probs=180.0
Q ss_pred CCeEEEEEEEEcCCCCceeeeeeeCCCCCC-CCCCCCccccccCCC-CCCCCCCCcEEEEcee--eEecCCCCCCeEEEE
Q 026354 16 TDKIIAEYIWIGGSGMDMRSKARTLPGPVS-DPSKLPKWNYDGSST-GQAPGEDSEVILYPQA--IFKDPFRRGNNILVM 91 (240)
Q Consensus 16 ~~~~~v~~~~~D~~G~~~R~K~~~~~~~~~-~~~~~~~~~~d~~~~-g~~~~~~~D~~l~PD~--~~~lPw~~~~~a~vl 91 (240)
.++.+|+++|+|++| ++|||++|++.+.+ .+.. ..+||++++ ++...+++|++++||+ ++++||.++++|+|+
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 579999999999999 99999999986632 1111 156788776 6667788999999999 999999765699999
Q ss_pred EEEECC-CCCCCCCChHHHHHHHHHHHh-hcCCeeEEeeeeeEEEEecCCCCCC-------------------CCCCCCC
Q 026354 92 CDAYTP-AGEPIPTNKRHAAAKIFSHSD-VVAEEPWYGIEQEYTLLQKDVKWPL-------------------GWPIGGY 150 (240)
Q Consensus 92 ~d~~~~-~G~p~~~~PR~~L~r~l~~l~-~~Gl~~~~g~E~EF~L~~~~~~~~~-------------------~~~~~~~ 150 (240)
||+++. ||+|++.|||++|+|++++++ ++|+++++|+|+|||||+.+..... ++. ...
T Consensus 87 ~d~~~~~dg~p~~~~PR~~L~r~~~~l~~~~G~~~~~g~E~EF~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 165 (460)
T TIGR00653 87 CDVYEPFTGEPYERDPRSIAKRAEEYLKSGIGDTAYFGPEPEFFLFDSVEFGSLANGSFYEVDSEEGRWNEESGNR-GYK 165 (460)
T ss_pred EEEEECCCCCCCCCCHHHHHHHHHHHHHhCCCCceeEEcceEEEEEecCccCcccccceeeeccccccccccCCcC-CCc
Confidence 999998 999999999999999999999 8999999999999999986431100 000 012
Q ss_pred CCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 151 PGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 151 ~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
+.+.+.||+..+.+. ..++++++.+.|+++||+|+++|+|+|||||||++.|+++|+|||++++||++||+||++||+
T Consensus 166 ~~~~~~~~~~~~~~~--~~~~~~~i~~~l~~~Gi~v~~~~~E~gpGQ~Ei~l~~~~~l~aAD~~~~~k~~ik~vA~~~G~ 243 (460)
T TIGR00653 166 PRDKGGYFPVAPTDT--AVDIRREMVLYLEQLGFDVEVHHHEVATGQHEIDFKFDTLLKTADDIQTYKYVVKNVARKHGK 243 (460)
T ss_pred ccCCccccCCCCccc--HHHHHHHHHHHHHHcCCCceeeecCcCCCceeEecCCCCHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 344455666665443 344555555559999999999999999999999999999999999999999999999999999
Q ss_pred -ceeeccCCC
Q 026354 231 -AFFRSQANS 239 (240)
Q Consensus 231 -aTFmPKp~~ 239 (240)
+||||||+.
T Consensus 244 ~ATFmpKP~~ 253 (460)
T TIGR00653 244 TATFMPKPLF 253 (460)
T ss_pred EEEEecccCC
Confidence 899999975
No 5
>PRK09469 glnA glutamine synthetase; Provisional
Probab=100.00 E-value=1.3e-50 Score=378.42 Aligned_cols=220 Identities=20% Similarity=0.268 Sum_probs=178.9
Q ss_pred CCeEEEEEEEEcCCCCceeeeeeeCCCCCC-CCCCCCccccccCCC-CCCCCCCCcEEEEcee--eEecCCCCCCeEEEE
Q 026354 16 TDKIIAEYIWIGGSGMDMRSKARTLPGPVS-DPSKLPKWNYDGSST-GQAPGEDSEVILYPQA--IFKDPFRRGNNILVM 91 (240)
Q Consensus 16 ~~~~~v~~~~~D~~G~~~R~K~~~~~~~~~-~~~~~~~~~~d~~~~-g~~~~~~~D~~l~PD~--~~~lPw~~~~~a~vl 91 (240)
.++++|++.|+|++| ++|||+++++.+.+ .+.. ...||++++ |+...+++|++++||+ ++++||.++++|+|+
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 479999999999999 99999999986642 1221 157888777 6657789999999999 999999654699999
Q ss_pred EEEECCC-CCCCCCChHHHHHHHHHHHhhcCC--eeEEeeeeeEEEEecCCC--CCC-----------CCCC-----CC-
Q 026354 92 CDAYTPA-GEPIPTNKRHAAAKIFSHSDVVAE--EPWYGIEQEYTLLQKDVK--WPL-----------GWPI-----GG- 149 (240)
Q Consensus 92 ~d~~~~~-G~p~~~~PR~~L~r~l~~l~~~Gl--~~~~g~E~EF~L~~~~~~--~~~-----------~~~~-----~~- 149 (240)
||+++.+ |+|++.|||++|+|++++++++|+ ++++|+|+|||||+.... .+. .+.. .+
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 999999999999985320 000 0000 00
Q ss_pred ---CCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCeEeeeecCcC-CCeeeeecCCChhhHHHHHHHHHHHHHHHHH
Q 026354 150 ---YPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVM-PGQWEFQVGPAVGISAGDQLWVARYILEDYR 225 (240)
Q Consensus 150 ---~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h~E~g-pGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA 225 (240)
.+.+.+.||+..+.+. ..++++.+.+.|+.+||+|+++|||+| ||||||++.|.++|+|||++++||++||+||
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 1233344666666544 345556666669999999999999999 5999999999999999999999999999999
Q ss_pred HHcCC-ceeeccCCCC
Q 026354 226 DCWSC-AFFRSQANSG 240 (240)
Q Consensus 226 ~~~Gl-aTFmPKp~~~ 240 (240)
++||+ +||||||+.+
T Consensus 248 ~~~g~~atFmpKP~~~ 263 (469)
T PRK09469 248 HAFGKTATFMPKPMFG 263 (469)
T ss_pred HHhCCEEEEeccccCC
Confidence 99999 8999999753
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=6.3e-50 Score=371.14 Aligned_cols=216 Identities=16% Similarity=0.147 Sum_probs=175.6
Q ss_pred CCeEEEEEEEEcCCCCceeeeeeeCCCCCCCCCCCCccccccCCCC--CCCCCCCcEEEEcee--eEecCCCCCCeEEEE
Q 026354 16 TDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSSTG--QAPGEDSEVILYPQA--IFKDPFRRGNNILVM 91 (240)
Q Consensus 16 ~~~~~v~~~~~D~~G~~~R~K~~~~~~~~~~~~~~~~~~~d~~~~g--~~~~~~~D~~l~PD~--~~~lPw~~~~~a~vl 91 (240)
.++.+|+++|+|++| ++|||++|++++.+.+.. ..+|+++++. ....+++|++++||+ ++++||.+ ++|+|+
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--GAGFAGFAAWGLGQSPADPDLMAIPDLDSLTQLPWQP-GVAWVA 83 (435)
T ss_pred CCCCEEEEEEECCCC-CeeEEEEeHHHHHHHHcC--CCcccchhhhccCCCCCCCCEEEEeccccceeCCCCC-CeEEEE
Confidence 479999999999999 999999999865432211 1456666552 335678999999999 99999988 599999
Q ss_pred EEEECCCCCCCCCChHHHHHHHHHHHhhcCCeeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHH
Q 026354 92 CDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDI 171 (240)
Q Consensus 92 ~d~~~~~G~p~~~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 171 (240)
||++. +|+|++.|||++|+|++++++++|+++++|+|+|||||+...+ ....+....+....++|+....+. ..++
T Consensus 84 ~d~~~-~G~p~~~~PR~vL~r~~~~~~~~G~~~~~g~E~EF~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~--~~~~ 159 (435)
T TIGR03105 84 ADLHV-NGKPYPQAPRVVLKRQLAEAAELGLTLNTGVECEFFLLRRDED-GSLSIADRADTLAKPCYDQRGLMR--RYDV 159 (435)
T ss_pred EEEee-CCCcCCCCHHHHHHHHHHHHHhcCCceeEEeceEEEEEecCCC-CCcccCCCCCCCCccCCCCcchhh--hhHH
Confidence 99976 8999999999999999999999999999999999999987531 000111001111233455444433 4567
Q ss_pred HHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeeccCCC
Q 026354 172 VDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRSQANS 239 (240)
Q Consensus 172 ~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmPKp~~ 239 (240)
++++.+.|+.+||+|+++|+|+|||||||++.|.++|+|||+++++|++||+||++||+ +||||||+.
T Consensus 160 ~~~i~~~l~~~gi~ve~~~~E~gpGQ~Ei~l~~~~~l~aaD~~~~~k~~vk~vA~~~Gl~atFmpKP~~ 228 (435)
T TIGR03105 160 LTEISDAMNALGWDPYQNDHEDANGQFEMNFTYADALTTADRHAFFRYMVKEIAEKHGMRATFMPKPFA 228 (435)
T ss_pred HHHHHHHHHHCCCCeEEeecCcCCCceEEecCcchHHHHHHHHHHHHHHHHHHHHHhCCEEEecCccCC
Confidence 77777779999999999999999999999999999999999999999999999999999 899999975
No 7
>KOG0683 consensus Glutamine synthetase [Amino acid transport and metabolism]
Probab=100.00 E-value=1.2e-39 Score=286.82 Aligned_cols=233 Identities=61% Similarity=1.100 Sum_probs=220.5
Q ss_pred HhcCCCCCCCCeEEEEEEEEcCCCCceeeeeeeCCCCCCCCCCCCccccccCCCCCCCCCCCcEEEEceeeEecCCCCCC
Q 026354 7 LLNLNLSESTDKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSSTGQAPGEDSEVILYPQAIFKDPFRRGN 86 (240)
Q Consensus 7 ~~~~~~~~~~~~~~v~~~~~D~~G~~~R~K~~~~~~~~~~~~~~~~~~~d~~~~g~~~~~~~D~~l~PD~~~~lPw~~~~ 86 (240)
...++|+...+.+.+.|+|.|..||-+|+|+..++..++.+..+|.|.||+++++++.+.+||.+|+|..+.+.|++.++
T Consensus 18 ~~~~~L~~~~~kv~a~YVwidg~ge~~rsk~rt~d~~~~~~~~lp~wnydgsst~QA~g~nSd~~l~Pva~~~dPfr~g~ 97 (380)
T KOG0683|consen 18 LEYLYLRAKRKKVQAEYVWIDGTGENLRSKTRTLDAEPSSISELPIWNYDGSSTGQAPGENSDVYLRPVAIYPDPFRNGN 97 (380)
T ss_pred hhhccccccCceEEEEEEEecCccccchhhcccccCCccCcccCccccccCcccccccCCCCceEEeehhhcCCcccCCC
Confidence 34567788889999999999999999999999999888899999999999999999999999999999998899999988
Q ss_pred eEEEEEEEECCCCCCCCCChHHHHHHHHHHHhhcCCeeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchH
Q 026354 87 NILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKA 166 (240)
Q Consensus 87 ~a~vl~d~~~~~G~p~~~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 166 (240)
..+|+|+.++.+|.|.+.+-|..+.+++...+-..-+|+.|.|+||.+++...++++|||..++|.++++||+..+.+..
T Consensus 98 Nilv~c~~~~~~~~P~~tn~R~~c~~~~~~~~~~~~~PWfg~Eqeyt~l~~~~~~p~gwp~~GFp~Pqgpyyc~VGad~~ 177 (380)
T KOG0683|consen 98 NILVMCDTYDFDGKPTETNKRVACARIMPKLSTKDTEPWFGMEQEYTLLDALDGHPFGWPKGGFPGPQGPYYCGVGADRV 177 (380)
T ss_pred CEEEEeeccCCCCCcccccchhhHHHHhccccccccCCchhhhHHHhhhccccCCcccCCccCCCCCCCCceeecccccc
Confidence 99999999999999999999999999999887778899999999999999855578999999999999999999988888
Q ss_pred HHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeeccCCC
Q 026354 167 WGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRSQANS 239 (240)
Q Consensus 167 ~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmPKp~~ 239 (240)
+.++++++.+++|-.+||.+..++.|++|||||+.+.|+.++.+|||++++|+++|+||+++|+ +||.|||.-
T Consensus 178 ~~rdiveahy~acLyaGl~i~G~N~EvmPgQwEfqvGp~~GI~~gD~lw~aR~il~rVae~~Gviasf~pKp~~ 251 (380)
T KOG0683|consen 178 FGRDIVEAHYRACLYAGLNISGINVEVMPGQWEFQVGPCEGISMGDQLWMARYILHRVAEKFGVIASFDPKPIL 251 (380)
T ss_pred ccchhhhhhHHHHHhhheeeccccccccCceeEEeecchhcccchhhHHHHHHHHHHHHHHhCeeEEecCCCCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999 899999953
No 8
>PF00120 Gln-synt_C: Glutamine synthetase, catalytic domain; InterPro: IPR008146 Glutamine synthetase (6.3.1.2 from EC) (GS) [] plays an essential role in the metabolism of nitrogen by catalyzing the condensation of glutamate and ammonia to form glutamine. There seem to be three different classes of GS [, , ]: Class I enzymes (GSI) are specific to prokaryotes, and are oligomers of 12 identical subunits. The activity of GSI-type enzyme is controlled by the adenylation of a tyrosine residue. The adenylated enzyme is inactive (see IPR001637 from INTERPRO). Class II enzymes (GSII) are found in eukaryotes and in bacteria belonging to the Rhizobiaceae, Frankiaceae, and Streptomycetaceae families (these bacteria have also a class-I GS). GSII are octamer of identical subunits. Plants have two or more isozymes of GSII, one of the isozymes is translocated into the chloroplast. Class III enzymes (GSIII) have been found in Bacteroides fragilis. in Butyrivibrio fibrisolvens. It is a hexamer of identical chains and in some protozoa. It is much larger (about 700 amino acids) than the GSI (450 to 470 amino acids) or GSII (350 to 420 amino acids) enzymes. While the three classes of GS's are clearly structurally related, the sequence similarities are not so extensive.; GO: 0004356 glutamate-ammonia ligase activity, 0006807 nitrogen compound metabolic process; PDB: 2J9I_E 3ZXV_D 1HTQ_D 1HTO_F 2BVC_F 2WGS_G 3ZXR_B 2WHI_D 3NG0_A 1LGR_C ....
Probab=100.00 E-value=4.5e-36 Score=261.85 Aligned_cols=134 Identities=29% Similarity=0.460 Sum_probs=105.9
Q ss_pred CCChHHHHHHHHHHHhhcCCeeEEeeeeeEEEEecCCCCCCCCCC-CCCC----CCCCCCcccCCcchHHHHHHHHHHHH
Q 026354 103 PTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPI-GGYP----GPQGPYYCGVGADKAWGRDIVDSHYK 177 (240)
Q Consensus 103 ~~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~~~~~~~~~~~~~-~~~~----~~~~~~~~~~~~~~~~~~~i~~~l~~ 177 (240)
+.|||++|+|++++++++|+++++|+|+|||||+.+.. .+++. .+.+ ...+++|+....+. ..++++++.+
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 47999999999999999999999999999999998631 12221 1111 13455666555333 4556666666
Q ss_pred HHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeeccCCCC
Q 026354 178 ACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRSQANSG 240 (240)
Q Consensus 178 ~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmPKp~~~ 240 (240)
.|+++||+|+++|+|+|||||||++.|.++|+|||+++++|++||+||++||+ +||||||+.+
T Consensus 77 ~l~~~Gi~ve~~h~E~gpgQ~Ei~~~~~~~l~aaD~~~~~k~~ik~vA~~~Gl~atFmpKP~~~ 140 (259)
T PF00120_consen 77 ALEQAGIPVEQIHHEVGPGQYEINLGPCDPLEAADNLVLFKEIIKEVARKHGLTATFMPKPFSG 140 (259)
T ss_dssp HHHHCT--EEEEEEESSTTEEEEEEEEEECHHHHHHHHHHHHHHHHHHHHTTEEEE-SSSSSTT
T ss_pred HHHHhhccccccccccchHhhccccccCcHHHHHHHHHHHHHHHHHHHHHcCCceeeeccccCC
Confidence 69999999999999999999999999999999999999999999999999999 8999999764
No 9
>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=99.66 E-value=3.6e-16 Score=113.97 Aligned_cols=79 Identities=27% Similarity=0.416 Sum_probs=64.4
Q ss_pred CeEEEEEEEEcCCCCceeeeeeeCCCCCCCCCCCCccccccCCC-CCCCCCCCcEEEEcee--eEecCCCCCC--eEEEE
Q 026354 17 DKIIAEYIWIGGSGMDMRSKARTLPGPVSDPSKLPKWNYDGSST-GQAPGEDSEVILYPQA--IFKDPFRRGN--NILVM 91 (240)
Q Consensus 17 ~~~~v~~~~~D~~G~~~R~K~~~~~~~~~~~~~~~~~~~d~~~~-g~~~~~~~D~~l~PD~--~~~lPw~~~~--~a~vl 91 (240)
+|++|+++|+|+.| .+|.++++++.+.+...+.. .+|||||+ |+..+++||++|+||+ ++++||++++ +++|+
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-RLKHVTIPASEFDEDALEDG-IGFDGSSIRGFATIEESDMYLKPDPSTFFIDPWRPDPGKTARVI 78 (84)
T ss_dssp T-EEEEEEEE-TTS-SEEEEEEEGCCESCSGGGS--EEEECCGTTTSSBSCCEEEEEEEEGGEEEESTTTSTT-TEEEEE
T ss_pred CeEEEEEEEEcCCC-CcceEEEEHHHCCchHhhCC-CCCCcccCcCcccCCCCCEEEecCcccEEECccCCCCceEEEEE
Confidence 58999999999999 89888888876522222222 58999999 9999999999999998 9999999854 99999
Q ss_pred EEEECC
Q 026354 92 CDAYTP 97 (240)
Q Consensus 92 ~d~~~~ 97 (240)
||+|++
T Consensus 79 cdv~~P 84 (84)
T PF03951_consen 79 CDVYDP 84 (84)
T ss_dssp EEEEST
T ss_pred EEeECc
Confidence 999974
No 10
>COG3968 Uncharacterized protein related to glutamine synthetase [General function prediction only]
Probab=99.38 E-value=2.4e-12 Score=117.26 Aligned_cols=115 Identities=25% Similarity=0.291 Sum_probs=87.4
Q ss_pred CeeEEeeeeeEEEEecCCC--CCC----CCCCCCCCCCCC-----CCcccCC-cchHHHHHHHHHHHHHHHHcCCeEeee
Q 026354 122 EEPWYGIEQEYTLLQKDVK--WPL----GWPIGGYPGPQG-----PYYCGVG-ADKAWGRDIVDSHYKACLYAGINISGI 189 (240)
Q Consensus 122 l~~~~g~E~EF~L~~~~~~--~~~----~~~~~~~~~~~~-----~~~~~~~-~~~~~~~~i~~~l~~~l~~~GI~ve~~ 189 (240)
.-..+|.|+||||++...- +|. |+..-+.+++.| +||...+ .-..|+.++=.+ |-+.|||+.+-
T Consensus 214 V~s~~GaEQEYFlvd~~~~~~RpDLi~tGRTLFGa~ppkGQEldDHYFGaipeRV~~FM~Dve~~----LyaLGIpaKTr 289 (724)
T COG3968 214 VFSNVGAEQEYFLVDKKSYDERPDLIFTGRTLFGAPPPKGQELDDHYFGAIPERVSAFMKDVEKE----LYALGIPAKTR 289 (724)
T ss_pred hccCCCccceeEEechhhcccCcceeeechhhcCCCCCCCccccchhccccHHHHHHHHHHHHHH----HHHcCCccccc
Confidence 5678999999999987531 110 110002233333 4555544 234556666555 66999999999
Q ss_pred ecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCCce-eeccCCCC
Q 026354 190 NGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSCAF-FRSQANSG 240 (240)
Q Consensus 190 h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~GlaT-FmPKp~~~ 240 (240)
|.|++||||||.--+.++--|+|+-.+..+++|.+|++||+++ ..-|||-|
T Consensus 290 HNEVAPgQfEIApife~~N~A~DhqQL~M~vLk~tA~KhGlVCLLHEKPFAG 341 (724)
T COG3968 290 HNEVAPGQFEIAPIFESGNLATDHQQLVMEVLKKTALKHGLVCLLHEKPFAG 341 (724)
T ss_pred ccccCCCceeeeeeeccccccchHHHHHHHHHHHHHHhcceEEEeecCCccC
Confidence 9999999999999999999999999999999999999999975 88999865
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=96.72 E-value=0.0047 Score=54.87 Aligned_cols=79 Identities=16% Similarity=0.123 Sum_probs=57.9
Q ss_pred EEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCC
Q 026354 125 WYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGP 204 (240)
Q Consensus 125 ~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~ 204 (240)
.+|+|.||+|.+.... .+ .+... .+++..+. +..+ ..+++|...+|.|++..+
T Consensus 1 t~GvE~E~~lvD~~t~----~~--------------~~~~~---~~~l~~~~---~~~~---~~~~~El~~~qiEi~t~p 53 (287)
T TIGR02050 1 TLGVEEELLLVDPHTY----DL--------------AASAS---AVLIGACR---EKIG---AGFKHELFESQVELATPV 53 (287)
T ss_pred CceeeeeeeeEcCCcc----Cc--------------CccCh---HHHHHhhh---hhcc---cccChhhhccEEEecCCC
Confidence 3799999999987541 11 01011 24444422 1222 349999999999999999
Q ss_pred C-hhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 205 A-VGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 205 ~-~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
. +.-.+.+.+..++..++++|.++|+
T Consensus 54 ~~~~~~l~~~l~~~~~~l~~~a~~~g~ 80 (287)
T TIGR02050 54 CTTLAEAAAQIRAVRARLVQAASDHGL 80 (287)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 6 7788999999999999999999998
No 12
>PLN02611 glutamate--cysteine ligase
Probab=96.46 E-value=0.028 Score=53.36 Aligned_cols=86 Identities=15% Similarity=0.094 Sum_probs=61.1
Q ss_pred CCeeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCC------------eE--
Q 026354 121 AEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGI------------NI-- 186 (240)
Q Consensus 121 Gl~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI------------~v-- 186 (240)
+=...+|+|+|.|+|+.+.. . |. .| . . +..+++.+.+ ..|. .-
T Consensus 65 ~~~~~iG~E~E~f~~~~~~~----~-----pv---~y-~-----~--i~~lL~~l~~---~~gw~~~~e~g~iIgl~~~g 121 (482)
T PLN02611 65 KEKWRIGTEHEKFGFELATL----R-----PM---KY-D-----Q--IAQLLEGLAE---RFGWEKIMEGDNIIGLKQDG 121 (482)
T ss_pred CCCCeeEEeeeeeeccCCCC----C-----CC---CH-H-----H--HHHHHHHHHH---hcCCceeccCCceecccCCC
Confidence 44679999999999986531 1 11 12 1 1 4555555321 1221 00
Q ss_pred eeeecCcCCCeeeeecCCC-hhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 187 SGINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 187 e~~h~E~gpGQ~Ei~l~~~-~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
..+.-|-| ||+|++..+. +.-++++.+...+..++++|.++|+
T Consensus 122 ~~ITlEPG-gQiElSt~p~~si~e~~~el~~~~~~l~~~a~~~Gl 165 (482)
T PLN02611 122 QSVSLEPG-GQFELSGAPLETLHQTCAEVNSHLYQVKAVAEEMGI 165 (482)
T ss_pred CceEeccc-ceEEecccCcCCHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 35666777 9999999996 7888999999999999999999999
No 13
>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=96.10 E-value=0.08 Score=49.93 Aligned_cols=95 Identities=19% Similarity=0.156 Sum_probs=64.3
Q ss_pred CCeeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCe--------------E
Q 026354 121 AEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGIN--------------I 186 (240)
Q Consensus 121 Gl~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~--------------v 186 (240)
+=...+|+|+|-|.|+.+.. .|. +| .... . +.++++.+. ...|.. =
T Consensus 19 ~~~~~iG~E~E~f~~~~~~~---------~~~---~y-~~~~--g--i~~~l~~l~---~~~g~~~~~e~g~~i~l~~~~ 78 (446)
T TIGR01436 19 KEQWRIGTEHEKFGFEKNTL---------RPM---KY-EQKG--G--IAELLNGIA---ERFGWQKVMEGDKIIGLKQDK 78 (446)
T ss_pred CCCCceEeeeeeeeeecCCC---------CCC---CC-CCch--h--HHHHHHHHH---hhcCCceeccCCceeeecCCC
Confidence 44678999999999987642 111 12 1111 1 345555531 123321 1
Q ss_pred eeeecCcCCCeeeeecCCC-hhhHHHHHHHHHHHHHHHHHHHcCC--ce--eecc
Q 026354 187 SGINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILEDYRDCWSC--AF--FRSQ 236 (240)
Q Consensus 187 e~~h~E~gpGQ~Ei~l~~~-~~l~aAD~~~~~r~~ik~vA~~~Gl--aT--FmPK 236 (240)
..+.-|-| ||+|++..+. +.-++++.+...+..++++|.++|+ .. +.|+
T Consensus 79 ~~itlEPg-gQlElS~~p~~~i~e~~~~l~~~~~~l~~~a~~~Gl~l~~~G~~P~ 132 (446)
T TIGR01436 79 QSISLEPG-GQFELSGAPLETIHETCDEINSHLYQVKEVAEEMGIGFLGLGFQPK 132 (446)
T ss_pred CeEEEcCc-CeEEecccccCCHHHHHHHHHHHHHHHHHHHHhcCCCeEecCCCCC
Confidence 45666777 9999999996 6788999999999999999999999 22 6665
No 14
>PRK13517 carboxylate-amine ligase; Provisional
Probab=96.00 E-value=0.033 Score=51.26 Aligned_cols=81 Identities=16% Similarity=0.170 Sum_probs=60.5
Q ss_pred eeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeec
Q 026354 123 EPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQV 202 (240)
Q Consensus 123 ~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l 202 (240)
...+|+|.||++++... +.+ . +. ..++++. +... -.-..+..|..-+|.|++.
T Consensus 10 ~~tiGvE~E~~lVD~~t----~~~-----~---~~----------~~~vl~~----~~~~-~~~~~i~~El~~~qiEi~t 62 (373)
T PRK13517 10 RPTLGVEWELLLVDPET----GEL-----S---PR----------AAEVLAA----AGED-DEGPHLQKELLRNTVEVVT 62 (373)
T ss_pred CCeeEeeeeEeeECCCc----CCc-----C---cc----------HHHHHHh----cccc-cCCCcccccccCCEEEECC
Confidence 45899999999998753 111 0 11 2445544 2211 1135789999999999999
Q ss_pred CCC-hhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 203 GPA-VGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 203 ~~~-~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
.+. +.-++.+.+...+..++++|.++|+
T Consensus 63 ~p~~~~~el~~~L~~~~~~l~~~a~~~g~ 91 (373)
T PRK13517 63 GVCDTVAEARADLRRTRALARRAAERRGA 91 (373)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 996 7788999999999999999999998
No 15
>PRK13516 gamma-glutamyl:cysteine ligase; Provisional
Probab=95.80 E-value=0.046 Score=50.43 Aligned_cols=81 Identities=19% Similarity=0.070 Sum_probs=60.1
Q ss_pred eeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeec
Q 026354 123 EPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQV 202 (240)
Q Consensus 123 ~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l 202 (240)
.+.+|+|.||+|++.... .+ .+. ..++++. +..-. --+.+++|..-+|.|++.
T Consensus 11 ~~t~GvE~E~~LVD~~t~----~~--------------~~~----~~~vl~~----~~~~~-~~~~v~~El~~~qIEi~T 63 (373)
T PRK13516 11 PFTLGVELELQLVNPHDY----DL--------------TQD----SSDLLRA----VKNQP-TAGEIKPEITESMIEIAT 63 (373)
T ss_pred CCeeEEEEEEEeEcCCCc----Cc--------------Ccc----HHHHHHh----ccccc-cccccChhhhCceEEEcC
Confidence 459999999999987631 10 000 2455554 22111 123689999999999999
Q ss_pred CCC-hhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 203 GPA-VGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 203 ~~~-~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
.|. +.-++.+.+...+..++++|+++|+
T Consensus 64 ~p~~~~~el~~eL~~~r~~l~~~A~~~G~ 92 (373)
T PRK13516 64 GVCRDIDQALGQLSAMRDVLVQAADKLNI 92 (373)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 996 6777999999999999999999999
No 16
>PRK13515 carboxylate-amine ligase; Provisional
Probab=95.26 E-value=0.082 Score=48.61 Aligned_cols=80 Identities=19% Similarity=0.134 Sum_probs=59.1
Q ss_pred eeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeec
Q 026354 123 EPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQV 202 (240)
Q Consensus 123 ~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l 202 (240)
...+|+|.||++.+... +.+ .+. ..+++.. +... .-..+++|..-+|.||+.
T Consensus 5 ~~t~GvE~E~~lVD~~t----~~l--------------~~~----~~~~l~~----~~~~--~~~~i~~El~~~qiEi~T 56 (371)
T PRK13515 5 EFTLGIEEEYLLVDPET----RDL--------------RSY----PDALVEA----CRDT--LGEQVKPEMHQSQVEVGT 56 (371)
T ss_pred CCcceEeEeEEEecCCc----ccc--------------ccc----HHHHHHh----chhh--cCCccCcchhccEEEECC
Confidence 45799999999998753 111 000 1344443 2221 123799999999999999
Q ss_pred CCC-hhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 203 GPA-VGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 203 ~~~-~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
.+. +.-.+.+.+...+..++++|+++|+
T Consensus 57 ~p~~~~~el~~~L~~~~~~l~~~a~~~g~ 85 (371)
T PRK13515 57 PVCATIAEAREELGRLRQRVAQLAAQFGL 85 (371)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 996 6777899999999999999999999
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=95.14 E-value=0.075 Score=47.07 Aligned_cols=45 Identities=18% Similarity=0.074 Sum_probs=39.7
Q ss_pred EeeeecCcCCCeeeeecCCC-hhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 186 ISGINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 186 ve~~h~E~gpGQ~Ei~l~~~-~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
-..+++|..-+|.||+..+. +.-++.+.+..++..++.+|+++|+
T Consensus 34 ~~~~~~E~~~~qvEi~t~p~~~~~el~~~l~~~~~~l~~~a~~~g~ 79 (288)
T PF04107_consen 34 GGRVVTELPQSQVEISTPPCRSLAELREELRALRRALADAAAELGL 79 (288)
T ss_dssp SSEEEEESSTTEEEEE--SBSSHHHHHHHHHHHHHHHHHHHHCTTE
T ss_pred CCceeeccCCCEEEEeCCCCCCHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 45899999999999999995 7788999999999999999999999
No 18
>PRK13518 carboxylate-amine ligase; Provisional
Probab=94.93 E-value=0.13 Score=47.26 Aligned_cols=80 Identities=18% Similarity=0.096 Sum_probs=59.0
Q ss_pred eEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecC
Q 026354 124 PWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVG 203 (240)
Q Consensus 124 ~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~ 203 (240)
-.+|+|.||.|.+.. . .+. +.. ...++.. +..... -..+++|...+|.||+..
T Consensus 13 ~TlGvEeE~~lvD~~-~---------~~~---------~~~---~~~vl~~----~~~~~~-~~~~~~El~~~qvEi~T~ 65 (357)
T PRK13518 13 GTLGIEEEFFVVDEY-G---------RPT---------SGT---DELVYEH----EPPEIL-AGRLDHELFKFVIETQTP 65 (357)
T ss_pred CceEEEEEEEEECCC-C---------Ccc---------cch---hHHHHHh----cccccC-CCcccccccCceEEEcCc
Confidence 379999999999864 2 000 000 1344443 222111 246999999999999999
Q ss_pred CC-hhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 204 PA-VGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 204 ~~-~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
+. +.-++.+.+...|..+..+|.++|+
T Consensus 66 ~~~~~~el~~~L~~~r~~l~~aa~~~g~ 93 (357)
T PRK13518 66 LIEDPSEAGAALREVRDALVDHAAAHGY 93 (357)
T ss_pred CcCCHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 96 8888999999999999999999999
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=91.93 E-value=0.48 Score=43.79 Aligned_cols=43 Identities=19% Similarity=0.026 Sum_probs=38.7
Q ss_pred eeecCcCCCeeeeecCCC-hhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 188 GINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 188 ~~h~E~gpGQ~Ei~l~~~-~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
.+.+|.-..|.|++-.+. +.-.+.+++...|..+..+|.++|.
T Consensus 31 ~~~~El~~~~IE~~T~~~~~~~el~~~L~~~r~~l~~~a~~~g~ 74 (376)
T TIGR02048 31 GFVREPDSRNVEYTTPPLNSYDRLLCGLLRPRRQLRHYLSQLGD 74 (376)
T ss_pred CCccchhhcEEEecCCCcCCHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 466688899999999995 7788999999999999999999996
No 20
>TIGR03444 gshA_related glutamate--cysteine ligase family protein. Members of this bacterial protein family bear homology to glutamate--cysteine ligase, an enzyme in the two-step pathway of glutathione (GSH) biosynthesis, but are distinctly different. Among the bacterial genomes that carry the uncharacterized methyltransferase (TIGR03438) and conserved hypothetical protein TIGR03440, this protein is found in a subset, always in the vicinity of these other genes. Conserved hypothetical protein TIGR03442 is found in these same genomes. The role of this cassette is probably biosynthetic, but the product is unknown.
Probab=90.07 E-value=1.1 Score=41.48 Aligned_cols=48 Identities=21% Similarity=-0.070 Sum_probs=39.5
Q ss_pred eeecCcCCCeeeeecCCC-hhhHHHHHHHHHHHHHHHHHHHcCC--c--eeecc
Q 026354 188 GINGEVMPGQWEFQVGPA-VGISAGDQLWVARYILEDYRDCWSC--A--FFRSQ 236 (240)
Q Consensus 188 ~~h~E~gpGQ~Ei~l~~~-~~l~aAD~~~~~r~~ik~vA~~~Gl--a--TFmPK 236 (240)
.+.-|=| ||+|++..+. +.-++++.+...+..++++|+++|+ . -+.|+
T Consensus 63 ~iTlEPG-gQvELSt~P~~sl~el~~el~~~l~~l~~~a~~~Gl~lva~G~~P~ 115 (390)
T TIGR03444 63 RITVEPG-GQLELSGPPADGLTAAVAALAADLAVLRAALAEDGLALVGLGADPL 115 (390)
T ss_pred eEEeCCC-CEEEecCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCEEEEeccCCC
Confidence 4444533 8999999996 7788999999999999999999999 2 26666
No 21
>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=84.58 E-value=8.2 Score=28.44 Aligned_cols=94 Identities=10% Similarity=0.027 Sum_probs=54.7
Q ss_pred hHHHHHHHHHHHhhcCCeeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCe
Q 026354 106 KRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGIN 185 (240)
Q Consensus 106 PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~ 185 (240)
|...-+++++.|++.|-.+..-.++||++.-.+. .-+..+... +...|..
T Consensus 2 ~~~~n~~vl~~L~~~Gddl~~~r~ieh~~~f~~~--------------------------~~~~~f~~~----~~~~g~~ 51 (104)
T PF06877_consen 2 QIIENREVLEALEEDGDDLSKPRPIEHWFYFEDE--------------------------EDAEKFAEE----LEKLGYE 51 (104)
T ss_dssp HHHHHHHHHHHHHHHT--TTS-EEEEEEEEES-H--------------------------HHHHHHHHH----HHHHS--
T ss_pred cHHHHHHHHHHHHhcCCCCCCCeEEEEEEEeCCH--------------------------HHHHHHHHH----HHHCCCE
Confidence 3455678999999999999999999999875432 013455555 7789999
Q ss_pred Eeeeec--CcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 186 ISGING--EVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 186 ve~~h~--E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
++.... |-+.+.|.+.+.....+...+=. -.-.-+-.+|+++|-
T Consensus 52 v~~~~~~~~d~~~~~~~~~~~~~~~~~~~I~-~~~~~l~~lA~~~~g 97 (104)
T PF06877_consen 52 VESAEEDEEDGDGPYCLDISREMVLDYEDIN-AITQELEDLAKEFGG 97 (104)
T ss_dssp -B----B-SS-SSBEEEEEEEEE-S-HHHHH-HHHHHHHHHHHHHT-
T ss_pred EEEeecccCCCCceEEEEEEEecCCCHHHHH-HHHHHHHHHHHHhCc
Confidence 998775 77889999999887665543333 333444556666653
No 22
>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=84.57 E-value=2.7 Score=29.24 Aligned_cols=63 Identities=22% Similarity=0.159 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHcCCeEeeeecCcCC------CeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeec
Q 026354 171 IVDSHYKACLYAGINISGINGEVMP------GQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRS 235 (240)
Q Consensus 171 i~~~l~~~l~~~GI~ve~~h~E~gp------GQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmP 235 (240)
++..+.+.|.+.|++|..+..+..+ ++|.+.+.-.-+ ...| .-.++..++.+|++.|+ .+|-|
T Consensus 12 iv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p-~~~~-~~~l~~~l~~l~~~~~~~~~~~~ 81 (81)
T cd04869 12 IVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALP-AGTD-LDALREELEELCDDLNVDISLEP 81 (81)
T ss_pred HHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecC-CCCC-HHHHHHHHHHHHHHhcceEEecC
Confidence 3444555588999999999876655 788665555433 1122 45788889999999998 56643
No 23
>COG2170 Uncharacterized conserved protein [Function unknown]
Probab=79.75 E-value=2.7 Score=38.37 Aligned_cols=78 Identities=21% Similarity=0.196 Sum_probs=49.6
Q ss_pred eEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCcchHHHHHHHHHHHHHHHHcCCeEeeee--cCcCCCeeeee
Q 026354 124 PWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGADKAWGRDIVDSHYKACLYAGINISGIN--GEVMPGQWEFQ 201 (240)
Q Consensus 124 ~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~l~~~GI~ve~~h--~E~gpGQ~Ei~ 201 (240)
+..|+|.|||+.++.. |+..+.+ ..+++. ..=++..-| +|.--.+.|+.
T Consensus 3 ltlGvE~E~~lvd~~g------------------~dl~~~s----~~ii~~-------~~~~~~~~~~~~e~~e~~vE~~ 53 (369)
T COG2170 3 LTLGVELEFQLVDPQG------------------YDLVGSS----DAIIEA-------LKGKVTAGHLKHEITESTVELA 53 (369)
T ss_pred cccceEEEEEecCCCC------------------ccccccc----HHHHHh-------cCCCCCCcchhHHHHHHhhccc
Confidence 5689999999998643 1222211 133333 222333333 66555677777
Q ss_pred cCCChh-hHHHHHHHHHHHHHHHHHHHcCC
Q 026354 202 VGPAVG-ISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 202 l~~~~~-l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
-.+.+. -+|+=..--.|..++++|..|||
T Consensus 54 t~vc~~~~eA~~~~r~~r~~l~q~a~d~gL 83 (369)
T COG2170 54 TGVCRLLAEAAAQLRALRDYLVQAASDHGL 83 (369)
T ss_pred chhhhhHHHHHHHHHHHHHHHHHHhhhcCc
Confidence 777644 44666777789999999999999
No 24
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=78.39 E-value=7.7 Score=26.94 Aligned_cols=61 Identities=18% Similarity=0.144 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-cee
Q 026354 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFF 233 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTF 233 (240)
.++..+.+.+.+.|++|...+.-.-.|+|-+.+.-+-+ .|+.-.++..+++++++.|+ ..|
T Consensus 14 Giv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~---~~~~~~l~~~L~~l~~~~~l~v~v 75 (76)
T PF13740_consen 14 GIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIP---EDSLERLESALEELAEELGLDVSV 75 (76)
T ss_dssp THHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEES---HHHHHHHHHHHHHHHHHTT-EEEE
T ss_pred cHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeC---cccHHHHHHHHHHHHHHCCcEEEE
Confidence 44555666688999999999999999999888876544 56777899999999999998 443
No 25
>KOG0558 consensus Dihydrolipoamide transacylase (alpha-keto acid dehydrogenase E2 subunit) [Energy production and conversion]
Probab=74.07 E-value=2.8 Score=38.22 Aligned_cols=51 Identities=20% Similarity=0.124 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeec
Q 026354 166 AWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRS 235 (240)
Q Consensus 166 ~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmP 235 (240)
.|.+.++..+. ++.-||=-.+..| |+ +|.++-+|+-+|++|..+|+ .||||
T Consensus 250 Gf~rAMvKtMt---~alkiPHF~y~dE-------In---------~~sLvklr~elk~~a~e~~IKltfmP 301 (474)
T KOG0558|consen 250 GFSRAMVKTMT---EALKIPHFGYVDE-------IN---------CDSLVKLRQELKENAKERGIKLTFMP 301 (474)
T ss_pred hHHHHHHHHHH---HHhcCCccccccc-------cC---------hHHHHHHHHHHhhhhhhcCceeeehH
Confidence 34555555533 3455665555554 33 69999999999999999999 79998
No 26
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein. This CD, ACT_1ZPV, includes those single ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein (pdb structure 1ZPV). Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=73.19 E-value=6.2 Score=28.14 Aligned_cols=65 Identities=14% Similarity=0.095 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeec
Q 026354 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRS 235 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmP 235 (240)
.++..+.+.+.+.|++|...+.-...|+|-+.+.-.-+ ...++.-.++..++.+|.+.|+ .++-+
T Consensus 13 Giva~vt~~la~~g~nI~~~~~~~~~~~f~~~~~v~~~-~~~~~~~~L~~~l~~l~~~~~l~~~i~~ 78 (88)
T cd04872 13 GIVAGVSTKLAELNVNILDISQTIMDGYFTMIMIVDIS-ESNLDFAELQEELEELGKELGVKIRIQH 78 (88)
T ss_pred CHHHHHHHHHHHcCCCEEechhHhhCCccEEEEEEEeC-CCCCCHHHHHHHHHHHHHHcCCEEEEEh
Confidence 34455555588999999999999888888877655533 1234567889999999999999 56543
No 27
>PRK00194 hypothetical protein; Validated
Probab=70.45 E-value=8.4 Score=27.44 Aligned_cols=63 Identities=13% Similarity=0.114 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-cee
Q 026354 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFF 233 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTF 233 (240)
.++..+.+.|.+.|++|..++.....|.|.+.+.-.-+ ...++.-.++..+++++.+.|+ .+|
T Consensus 15 Giva~vt~~la~~g~nI~~~~~~~~~~~~~~~~~v~~~-~~~~~~~~l~~~l~~l~~~~~~~~~~ 78 (90)
T PRK00194 15 GIIAGVSTVLAELNVNILDISQTIMDGYFTMIMLVDIS-ESKKDFAELKEELEELGKELGVKIRI 78 (90)
T ss_pred CHHHHHHHHHHHcCCCEEehhhHhhCCeeEEEEEEEec-CCCCCHHHHHHHHHHHHHHcCCEEEE
Confidence 34445555588999999999999888888874433211 1123356778889999999999 565
No 28
>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=69.31 E-value=14 Score=25.48 Aligned_cols=62 Identities=10% Similarity=0.008 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-cee
Q 026354 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFF 233 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTF 233 (240)
.|+..+.+.+.+.|++|..++.-.-.|+|-+.+.-.-+ ...+.-.++..+..+|.+.|+ .+.
T Consensus 11 Giv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~~v~~p--~~~~~~~l~~~l~~l~~~l~l~i~~ 73 (75)
T cd04870 11 GLTSALTEVLAAHGVRILDVGQAVIHGRLSLGILVQIP--DSADSEALLKDLLFKAHELGLQVRF 73 (75)
T ss_pred CHHHHHHHHHHHCCCCEEecccEEEcCeeEEEEEEEcC--CCCCHHHHHHHHHHHHHHcCceEEE
Confidence 34555555588999999999877777887776644322 112456789999999999999 554
No 29
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=68.14 E-value=3.7 Score=30.77 Aligned_cols=25 Identities=24% Similarity=0.201 Sum_probs=20.6
Q ss_pred HHHcCCeEeeeecCcCCCeeeeecCC
Q 026354 179 CLYAGINISGINGEVMPGQWEFQVGP 204 (240)
Q Consensus 179 l~~~GI~ve~~h~E~gpGQ~Ei~l~~ 204 (240)
-.++|=+++++--+ +|||||||+.-
T Consensus 54 ~~a~ge~ietIrI~-~pG~YeiNl~~ 78 (112)
T COG3364 54 DGAQGEPIETIRIL-RPGVYEINLES 78 (112)
T ss_pred hhcccCcceEEEEe-cCceEEEehhh
Confidence 45788889998877 79999999864
No 30
>COG3572 GshA Gamma-glutamylcysteine synthetase [Coenzyme metabolism]
Probab=67.67 E-value=11 Score=35.05 Aligned_cols=48 Identities=17% Similarity=0.098 Sum_probs=36.8
Q ss_pred eeecCcCCCeeeeecCCChhh-HHHHHHHHHHHHHHHHHHHcCC-ce---eecc
Q 026354 188 GINGEVMPGQWEFQVGPAVGI-SAGDQLWVARYILEDYRDCWSC-AF---FRSQ 236 (240)
Q Consensus 188 ~~h~E~gpGQ~Ei~l~~~~~l-~aAD~~~~~r~~ik~vA~~~Gl-aT---FmPK 236 (240)
.+.-|-| ||||++..|.+.+ ++|-..-.--.+||++|...|+ -. +.||
T Consensus 90 aIslEpg-gq~Elsgapletihq~~~e~n~hlavlr~~a~~~gl~fvGlG~~Pk 142 (456)
T COG3572 90 AISLEPG-GQFELSGAPLETIHQTCGEMNQHLAVLREIAAELGLGFVGLGGSPK 142 (456)
T ss_pred eEEeccC-ceEEecCCchHHHHHHHHHHHHHHHHHHHHHHhcCCceEeecCCCc
Confidence 4566777 9999999998665 4666666667889999999999 34 5565
No 31
>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=60.59 E-value=15 Score=26.64 Aligned_cols=57 Identities=7% Similarity=-0.020 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 169 RDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 169 ~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
.+.+....+.+.+.|++++-+..|+--..--+.+.|. ||+-+=||.++|++++.++.
T Consensus 25 ~~al~~c~~~~~~~~L~m~lvd~e~~~D~~k~~fyy~-----a~~rvDFR~Lvr~L~~~f~~ 81 (88)
T PF04468_consen 25 EEALKFCRELVKELGLPMKLVDVEYQFDGSKLTFYYT-----AESRVDFRELVRDLAREFKT 81 (88)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEEEEEcCCCEEEEEEE-----eCCcCcHHHHHHHHHHHhCc
Confidence 4555555666889999999999999877778888887 88889999999999999987
No 32
>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=57.43 E-value=34 Score=23.25 Aligned_cols=59 Identities=12% Similarity=-0.079 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHcCCeEeeeecC--cCCCeeeeecCCChhhHHH-HHHHHHHHHHHHHHHHcCC
Q 026354 170 DIVDSHYKACLYAGINISGINGE--VMPGQWEFQVGPAVGISAG-DQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E--~gpGQ~Ei~l~~~~~l~aA-D~~~~~r~~ik~vA~~~Gl 230 (240)
.++..+.+.+.+.|+.+..++.- .+.+.|.+.+.-.-+ +. -+.-.++..+..+|.+.|+
T Consensus 11 Giv~~it~~l~~~g~nI~~~~~~~~~~~~~f~~~~~~~~~--~~~~~~~~l~~~l~~l~~~l~~ 72 (74)
T cd04875 11 GIVAAVSGFLAEHGGNIVESDQFVDPDSGRFFMRVEFELE--GFDLSREALEAAFAPVAAEFDM 72 (74)
T ss_pred CHHHHHHHHHHHcCCCEEeeeeeecCCCCeEEEEEEEEeC--CCCCCHHHHHHHHHHHHHHcCC
Confidence 34455555588999999999776 456677665554322 22 1356788888889888775
No 33
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=55.34 E-value=36 Score=23.59 Aligned_cols=58 Identities=12% Similarity=0.050 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
.++..+.+.+.+.|++|.....-.-.|+|-+-+..... .+..--++..++.+|++.|+
T Consensus 13 GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~~~~---~~~~~~l~~~l~~~~~~~~l 70 (77)
T cd04893 13 GILNELTRAVSESGCNILDSRMAILGTEFALTMLVEGS---WDAIAKLEAALPGLARRLDL 70 (77)
T ss_pred hHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEEEec---cccHHHHHHHHHHHHHHcCC
Confidence 45566666688999999998888888998776666533 23456788889999999998
No 34
>PF09904 HTH_43: Winged helix-turn helix; InterPro: IPR017162 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 3KE2_B.
Probab=53.61 E-value=38 Score=24.82 Aligned_cols=20 Identities=10% Similarity=-0.036 Sum_probs=14.8
Q ss_pred ChHHHHHHHHHHHhhcCCee
Q 026354 105 NKRHAAAKIFSHSDVVAEEP 124 (240)
Q Consensus 105 ~PR~~L~r~l~~l~~~Gl~~ 124 (240)
=||..++.+++.|.+.|+++
T Consensus 33 mPrRT~Qd~i~aL~~~~I~~ 52 (90)
T PF09904_consen 33 MPRRTIQDTIKALPELGIEC 52 (90)
T ss_dssp --HHHHHHHHHGGGGGT-EE
T ss_pred CCHhHHHHHHHHhhcCCeEE
Confidence 38999999999998777654
No 35
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=51.62 E-value=6.8 Score=30.73 Aligned_cols=21 Identities=24% Similarity=0.409 Sum_probs=14.3
Q ss_pred cCCeEeeeecCcCCCeeeeecC
Q 026354 182 AGINISGINGEVMPGQWEFQVG 203 (240)
Q Consensus 182 ~GI~ve~~h~E~gpGQ~Ei~l~ 203 (240)
.+-.+|++-- .+|||||+||.
T Consensus 82 ~~~~iESIrI-~~pG~YElNL~ 102 (131)
T PF09845_consen 82 LNDRIESIRI-LEPGSYELNLE 102 (131)
T ss_pred cccCcceEEE-ecCceEEecHH
Confidence 3445555544 37999999984
No 36
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=47.44 E-value=37 Score=23.95 Aligned_cols=29 Identities=3% Similarity=-0.051 Sum_probs=27.2
Q ss_pred ChHHHHHHHHHHHhhcCCeeEEeeeeeEE
Q 026354 105 NKRHAAAKIFSHSDVVAEEPWYGIEQEYT 133 (240)
Q Consensus 105 ~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~ 133 (240)
||-..+++..++++++|-...+|+-+++.
T Consensus 26 d~d~Al~eM~e~A~~lGAnAVVGvr~d~s 54 (74)
T TIGR03884 26 NVDEIVENLREKVKAKGGMGLIAFRITCA 54 (74)
T ss_pred CHHHHHHHHHHHHHHcCCCEEEEEEEEcC
Confidence 89999999999999999999999988875
No 37
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=45.70 E-value=78 Score=21.25 Aligned_cols=42 Identities=12% Similarity=0.101 Sum_probs=28.8
Q ss_pred HHHcCCeEeeeecCcCCCeeeeecCC--ChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 179 CLYAGINISGINGEVMPGQWEFQVGP--AVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 179 l~~~GI~ve~~h~E~gpGQ~Ei~l~~--~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
|..+|+.++. .+ ..+++++...+ .|.+..+| ++-+||+-+|+
T Consensus 28 L~~lg~~~~~--~~-~~~~~~v~~P~~R~Di~~~~D-------liEei~r~~Gy 71 (71)
T smart00874 28 LKRLGFEVEV--SG-DDDTLEVTVPSYRFDILIEAD-------LIEEVARIYGY 71 (71)
T ss_pred HHHCCCeEEe--cC-CCCeEEEECCCCccccCcccH-------HHHHHHHHhCC
Confidence 8899999965 11 13567776665 36566655 67888888885
No 38
>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=40.19 E-value=83 Score=21.39 Aligned_cols=42 Identities=14% Similarity=0.101 Sum_probs=29.9
Q ss_pred HHHHcCCeEeeeecCcCCCeeeeecCC--ChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 178 ACLYAGINISGINGEVMPGQWEFQVGP--AVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 178 ~l~~~GI~ve~~h~E~gpGQ~Ei~l~~--~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
.|+.+|+.++.. ....+++...+ .|....+| ++-+||+-+|+
T Consensus 27 ~L~~lg~~~~~~----~~~~~~v~vP~~R~Di~~~~D-------liEEiaR~yGY 70 (70)
T PF03484_consen 27 ILKRLGFKVEKI----DGDTLEVTVPSYRFDIEHEED-------LIEEIARIYGY 70 (70)
T ss_dssp HHHHTT-EEEE-----CTTEEEEEEETTSTT-SSHHH-------HHHHHHHHHTG
T ss_pred HHHHCCCEEEEC----CCCEEEEEcCCCcCCcCcccH-------HHHHHHHHhCC
Confidence 388999999987 56778888766 47777777 56888888775
No 39
>PF11679 DUF3275: Protein of unknown function (DUF3275); InterPro: IPR021693 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=37.12 E-value=33 Score=29.19 Aligned_cols=35 Identities=14% Similarity=0.163 Sum_probs=26.3
Q ss_pred EEEEEEECCCCCCCCCCh---HHHHHHHHHHHhhcCCee
Q 026354 89 LVMCDAYTPAGEPIPTNK---RHAAAKIFSHSDVVAEEP 124 (240)
Q Consensus 89 ~vl~d~~~~~G~p~~~~P---R~~L~r~l~~l~~~Gl~~ 124 (240)
-+++.+ ++-|+++-.|| |..|+++.++|.++||.+
T Consensus 167 ~Lfg~l-Wplge~VKLD~TvDR~~lR~q~~rLg~LGY~~ 204 (214)
T PF11679_consen 167 ELFGEL-WPLGEPVKLDPTVDRRRLRQQRARLGQLGYAF 204 (214)
T ss_pred hhhhhc-ccCCCceeccCccCHHHHHHHHHHHHhcCeee
Confidence 444433 34677776654 999999999999999875
No 40
>PF09899 DUF2126: Putative amidoligase enzyme (DUF2126); InterPro: IPR018667 This domain is found in bacterial transglutaminase and transglutaminase-like proteins. Their exact function is, as yet, unknown.
Probab=35.75 E-value=1.1e+02 Score=31.07 Aligned_cols=63 Identities=17% Similarity=0.108 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHcCCeEeeeecCc---------------CCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCCc-
Q 026354 168 GRDIVDSHYKACLYAGINISGINGEV---------------MPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSCA- 231 (240)
Q Consensus 168 ~~~i~~~l~~~l~~~GI~ve~~h~E~---------------gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gla- 231 (240)
.-+++.++.++.++.|++| +..-| -||-.|||++|+.- -|.++-.-+.+-+-|++.+|.
T Consensus 347 yL~LiaaiE~tA~~l~~pv--~lEGY~PP~D~rl~~~~vTPDPGVIEVNi~Pa~s---W~e~v~~t~~LYe~Ar~~rL~t 421 (819)
T PF09899_consen 347 YLDLIAAIEATAAELGMPV--VLEGYPPPRDPRLEVLKVTPDPGVIEVNIHPAAS---WDELVEITETLYEEARQSRLGT 421 (819)
T ss_pred HHHHHHHHHHHHHHcCCCE--EEecCCcCCCCccceEEEeCCCceEEecCCCCcC---HHHHHHHHHHHHHHHHHhCcch
Confidence 4688899999999999875 22222 24999999999743 344455557788999999994
Q ss_pred -eeec
Q 026354 232 -FFRS 235 (240)
Q Consensus 232 -TFmP 235 (240)
-||-
T Consensus 422 eKFm~ 426 (819)
T PF09899_consen 422 EKFML 426 (819)
T ss_pred hhhcc
Confidence 4873
No 41
>PF04417 DUF501: Protein of unknown function (DUF501); InterPro: IPR007511 This is a family of uncharacterised bacterial proteins.
Probab=35.68 E-value=64 Score=25.50 Aligned_cols=39 Identities=18% Similarity=0.167 Sum_probs=28.0
Q ss_pred cCCCCCCeEEEEEEEECCCCCCCCC-----ChHHHHHHHHHHHhhcCC
Q 026354 80 DPFRRGNNILVMCDAYTPAGEPIPT-----NKRHAAAKIFSHSDVVAE 122 (240)
Q Consensus 80 lPw~~~~~a~vl~d~~~~~G~p~~~-----~PR~~L~r~l~~l~~~Gl 122 (240)
.+|... .-+.|.....||+|++. ||+ |.+.+.+|++.|.
T Consensus 5 c~~G~P--~Vi~~~P~l~~g~PFPTlfwLtcP~--L~~~isrLE~~G~ 48 (139)
T PF04417_consen 5 CPCGFP--QVIRTAPRLVDGKPFPTLFWLTCPY--LVKAISRLEAEGG 48 (139)
T ss_pred CCCCCC--eEEEeccCCCCCccCCccHhhcCHH--HHHHHHHHHhcCH
Confidence 466542 33566665679999876 896 7788999998885
No 42
>PF07582 AP_endonuc_2_N: AP endonuclease family 2 C terminus; InterPro: IPR011418 DNA damaging agents such as the anti-tumour drugs bleomycin and neocarzinostatin or those that generate oxygen radicals produce a variety of lesions in DNA. Amongst these is base-loss which forms apurinic/apyrimidinic (AP) sites or strand breaks with atypical 3' termini. DNA repair at the AP sites is initiated by specific endonuclease cleavage of the phosphodiester backbone. Such endonucleases are also generally capable of removing blocking groups from the 3' terminus of DNA strand breaks. AP endonucleases can be classified into two families based on sequence similarity []. This entry represents a highly-conserved sequence found at the C terminus of several apurinic/apyrimidinic (AP) endonucleases in a range of Gram-positive and Gram-negative bacteria. ; PDB: 3LMZ_A 2ZDS_D.
Probab=34.96 E-value=39 Score=22.36 Aligned_cols=21 Identities=33% Similarity=0.626 Sum_probs=14.2
Q ss_pred HHHHHHHhhcCCeeEEeeeee
Q 026354 111 AKIFSHSDVVAEEPWYGIEQE 131 (240)
Q Consensus 111 ~r~l~~l~~~Gl~~~~g~E~E 131 (240)
++++..|++.||.-.+.+|.|
T Consensus 3 ~~i~~~L~~~GYdG~~siE~E 23 (55)
T PF07582_consen 3 KRIFSALREIGYDGWLSIEHE 23 (55)
T ss_dssp HHHHHHHHHTT--SEEEE---
T ss_pred HHHHHHHHHcCCCceEEEEee
Confidence 567888999999999999999
No 43
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=31.61 E-value=1.6e+02 Score=24.47 Aligned_cols=66 Identities=9% Similarity=0.048 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHcCCeEeeeecCcCCC------eeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ceeecc
Q 026354 169 RDIVDSHYKACLYAGINISGINGEVMPG------QWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AFFRSQ 236 (240)
Q Consensus 169 ~~i~~~l~~~l~~~GI~ve~~h~E~gpG------Q~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aTFmPK 236 (240)
-.|+.++.+.+.+.||+|+.+.++..+. .|.+.+.-.-| +.-+.--+|..+.++|.+.++ +++-|.
T Consensus 106 PGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v~lP--~~~~~~~L~~~l~~l~~eL~vd~~l~~~ 178 (190)
T PRK11589 106 PHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITAHSP--ASQDAANIEQAFKALCTELNAQGSINVV 178 (190)
T ss_pred CCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEEEcC--CCCCHHHHHHHHHHHHHHhCceEEEEEe
Confidence 3556666666899999999999997664 34333322211 111244678889999999999 666553
No 44
>PF06135 DUF965: Bacterial protein of unknown function (DUF965); InterPro: IPR009309 This family consists of several hypothetical bacterial proteins. The function of the family is unknown.
Probab=31.57 E-value=43 Score=23.93 Aligned_cols=22 Identities=9% Similarity=0.220 Sum_probs=20.1
Q ss_pred CCChHHHHHHHHHHHhhcCCee
Q 026354 103 PTNKRHAAAKIFSHSDVVAEEP 124 (240)
Q Consensus 103 ~~~PR~~L~r~l~~l~~~Gl~~ 124 (240)
....|.+|+.|-+.|+++||.|
T Consensus 14 ~~~~~~iL~~Vy~AL~EKGYnP 35 (79)
T PF06135_consen 14 EKEIREILKQVYAALEEKGYNP 35 (79)
T ss_pred hhhHHHHHHHHHHHHHHcCCCh
Confidence 4679999999999999999987
No 45
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=31.25 E-value=85 Score=27.83 Aligned_cols=59 Identities=14% Similarity=0.033 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHcCCeEeeeecC--cCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 170 DIVDSHYKACLYAGINISGINGE--VMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E--~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
.|+..+.+.|.+.|++|+.+... .+.++|.+.+.-..+ +..+.-.+|..+..+|.+.|+
T Consensus 19 GIVa~VT~~La~~~vNI~dls~~~~~~~~~F~m~~~~~~p--~~~~~~~L~~~L~~l~~~l~l 79 (286)
T PRK13011 19 GIVAAVTGFLAEHGCYITELHSFDDRLSGRFFMRVEFHSE--EGLDEDALRAGFAPIAARFGM 79 (286)
T ss_pred CHHHHHHHHHHhCCCCEEEeeeeecCCCCeEEEEEEEecC--CCCCHHHHHHHHHHHHHHhCc
Confidence 45566666688999999999985 678899886654322 223466889999999999999
No 46
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=30.54 E-value=1.2e+02 Score=20.63 Aligned_cols=36 Identities=17% Similarity=0.301 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCC
Q 026354 169 RDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGP 204 (240)
Q Consensus 169 ~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~ 204 (240)
.++++.+...|...||.-.-...+...+.|++.+.-
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 455566666688999998666556678889999854
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=30.33 E-value=1.4e+02 Score=19.00 Aligned_cols=35 Identities=20% Similarity=0.076 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHcCCeEeeeecCcC--CCeeeeecCCCh
Q 026354 168 GRDIVDSHYKACLYAGINISGINGEVM--PGQWEFQVGPAV 206 (240)
Q Consensus 168 ~~~i~~~l~~~l~~~GI~ve~~h~E~g--pGQ~Ei~l~~~~ 206 (240)
+.++++. +.+.|++|..+++... .|.-.+.+.-.+
T Consensus 13 L~~i~~~----l~~~~~nI~~i~~~~~~~~~~~~v~~~ve~ 49 (65)
T cd04882 13 LHEILQI----LSEEGINIEYMYAFVEKKGGKALLIFRTED 49 (65)
T ss_pred HHHHHHH----HHHCCCChhheEEEccCCCCeEEEEEEeCC
Confidence 5566666 7789999977664322 355555555444
No 48
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=30.29 E-value=4.2e+02 Score=26.45 Aligned_cols=77 Identities=17% Similarity=0.222 Sum_probs=44.8
Q ss_pred CChHHHHHHHHHHHhhcCCeeEEeeeeeEEEEecCCCCCCCCCCCCCCCCCCCCcccCCc--chHHHHHHHHHHHHHHHH
Q 026354 104 TNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLGWPIGGYPGPQGPYYCGVGA--DKAWGRDIVDSHYKACLY 181 (240)
Q Consensus 104 ~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~~~l~~~l~~ 181 (240)
..-+....+.+.+++++|++. +|+.=+.+-.. ..+| |+ +...+|..++. ..+=++.++++ |.+
T Consensus 161 ~~~~e~a~~llpYl~elG~T~-----IELMPv~e~p~-~~sW---GY--q~~g~yAp~sryGtPedfk~fVD~----aH~ 225 (628)
T COG0296 161 LGYFELAIELLPYLKELGITH-----IELMPVAEHPG-DRSW---GY--QGTGYYAPTSRYGTPEDFKALVDA----AHQ 225 (628)
T ss_pred cCHHHHHHHHhHHHHHhCCCE-----EEEcccccCCC-CCCC---CC--CcceeccccccCCCHHHHHHHHHH----HHH
Confidence 567889999999999999986 45544432110 0011 11 22344444441 11226777777 889
Q ss_pred cCCeE--eeeecCcCC
Q 026354 182 AGINI--SGINGEVMP 195 (240)
Q Consensus 182 ~GI~v--e~~h~E~gp 195 (240)
+||.| +-+..-.+|
T Consensus 226 ~GIgViLD~V~~HF~~ 241 (628)
T COG0296 226 AGIGVILDWVPNHFPP 241 (628)
T ss_pred cCCEEEEEecCCcCCC
Confidence 99875 455555544
No 49
>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=29.95 E-value=43 Score=22.02 Aligned_cols=26 Identities=23% Similarity=0.494 Sum_probs=20.5
Q ss_pred HHHHHc--CCeEeeeecCcCCCeeeeec
Q 026354 177 KACLYA--GINISGINGEVMPGQWEFQV 202 (240)
Q Consensus 177 ~~l~~~--GI~ve~~h~E~gpGQ~Ei~l 202 (240)
+.|++. |++|+++..---||-||+.+
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 345666 99999999999999999998
No 50
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=29.08 E-value=63 Score=23.02 Aligned_cols=21 Identities=14% Similarity=-0.070 Sum_probs=19.4
Q ss_pred CChHHHHHHHHHHHhhcCCee
Q 026354 104 TNKRHAAAKIFSHSDVVAEEP 124 (240)
Q Consensus 104 ~~PR~~L~r~l~~l~~~Gl~~ 124 (240)
.+.|....+.+++|++.|+++
T Consensus 30 giSRtaVwK~Iq~Lr~~G~~I 50 (79)
T COG1654 30 GISRTAVWKHIQQLREEGVDI 50 (79)
T ss_pred CccHHHHHHHHHHHHHhCCce
Confidence 489999999999999999985
No 51
>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=27.31 E-value=2e+02 Score=19.79 Aligned_cols=34 Identities=6% Similarity=-0.052 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCCh
Q 026354 167 WGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAV 206 (240)
Q Consensus 167 ~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~ 206 (240)
+...+++. |.+.||+++.+.. +..++-+++..++
T Consensus 17 ~~~~IF~~----La~~~I~VDmI~~--s~~~iSftv~~~d 50 (75)
T cd04932 17 FLAKVFGI----LAKHNISVDLITT--SEISVALTLDNTG 50 (75)
T ss_pred HHHHHHHH----HHHcCCcEEEEee--cCCEEEEEEeccc
Confidence 46677777 8899999999975 3377777777765
No 52
>KOG3243 consensus 6,7-dimethyl-8-ribityllumazine synthase [Coenzyme transport and metabolism]
Probab=26.98 E-value=71 Score=25.21 Aligned_cols=38 Identities=21% Similarity=0.264 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecC
Q 026354 166 AWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVG 203 (240)
Q Consensus 166 ~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~ 203 (240)
.....++.-..+++.+.++.-+.+.-|.-||.||+-..
T Consensus 30 vvi~~LvkGAiEtm~~~~V~eenI~ie~VPGS~Elp~g 67 (158)
T KOG3243|consen 30 VVIKLLVKGAIETMKKYSVREENIEIEWVPGSFELPVG 67 (158)
T ss_pred HHHHHHHHHHHHHHHHhCcchhceeEEEcCCceeccHH
Confidence 44566666666778899999999999999999999654
No 53
>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=25.56 E-value=5.4e+02 Score=23.77 Aligned_cols=129 Identities=19% Similarity=0.225 Sum_probs=61.7
Q ss_pred eEEEEEEEECCCCCCCCCChHHHHHH--HHHHHhhcCCeeEEeeeeeEEEEecCCCCCCC-CCCCCCCCC-CCCC----c
Q 026354 87 NILVMCDAYTPAGEPIPTNKRHAAAK--IFSHSDVVAEEPWYGIEQEYTLLQKDVKWPLG-WPIGGYPGP-QGPY----Y 158 (240)
Q Consensus 87 ~a~vl~d~~~~~G~p~~~~PR~~L~r--~l~~l~~~Gl~~~~g~E~EF~L~~~~~~~~~~-~~~~~~~~~-~~~~----~ 158 (240)
.-.|+..=+.+.|.|+-.+-|.++.- |.+.|+++|.. .+|..+-.+-+ +.. .|. ..|.. -..| +
T Consensus 23 ~~~v~~sG~sPSG~~HIGn~rEv~~~~~V~~al~~~g~~------~r~i~~~DD~D-~lRKvP~-~~p~~~~~~ylg~Pl 94 (360)
T PF01921_consen 23 EPYVFASGISPSGLPHIGNFREVLRADMVARALRDRGKD------VRLIYFSDDMD-PLRKVPP-NVPNPELEKYLGKPL 94 (360)
T ss_dssp SEEEEEEEE--SS---HHHHHHHHHHHHHHHHHHTTT-E------EEEEEEE-TTS-B-----T-TS-CC-CCCCTTSBT
T ss_pred ccEEEecCCCCCCCcccccccchhhHHHHHHHHHHcCCC------EEEEEEeecCC-cccCCCC-CCChHHHHHhcCCcc
Confidence 46677777889999999999999876 44556778877 57777654432 110 010 01111 1111 1
Q ss_pred ccCC----cchHHHHHHHHHHHHHHHHcCCeEeeee--cCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHc
Q 026354 159 CGVG----ADKAWGRDIVDSHYKACLYAGINISGIN--GEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCW 228 (240)
Q Consensus 159 ~~~~----~~~~~~~~i~~~l~~~l~~~GI~ve~~h--~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~ 228 (240)
+..+ ....|...+...+.+.|+..||+++-+. .-+..|.|.=.+ ..|-.+.-..+.++.++-.+.
T Consensus 95 t~VPdP~G~~~SyaeH~~~~~~~~L~~~gie~e~~s~te~Y~sG~y~~~i-----~~aL~~~~~I~~Il~~~~~~~ 165 (360)
T PF01921_consen 95 TRVPDPFGCHESYAEHFNAPFEEFLDEFGIEYEFISQTEMYRSGRYDEQI-----RTALENRDEIREILNEYRGRE 165 (360)
T ss_dssp TTSB-TTSSSSCHHHHHHHHHHHHHHTTT---EEEECCCCCCTTTTHHHH-----CHHHHTHHHHHHHHHHHHHHT
T ss_pred ccCCCCCCCCccHHHHHHHHHHHHHHHcCCceEEEeHHHhhhCCchHHHH-----HHHHHhHHHHHHHHHHhcCcC
Confidence 1111 1123445555555556999999887664 334455433221 334445555566666664444
No 54
>cd02641 R3H_Smubp-2_like R3H domain of Smubp-2_like proteins. Smubp-2_like proteins also contain a helicase_like and an AN1-like Zinc finger domain and have been shown to bind single-stranded DNA. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA.
Probab=24.40 E-value=71 Score=21.32 Aligned_cols=28 Identities=18% Similarity=0.325 Sum_probs=19.1
Q ss_pred eeeecCCChhhHHHHHHHHHHHHHHHHHHHcCCce
Q 026354 198 WEFQVGPAVGISAGDQLWVARYILEDYRDCWSCAF 232 (240)
Q Consensus 198 ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~GlaT 232 (240)
.++.|.| -|.+.+ |.+|+++|+++||.+
T Consensus 18 ~~l~F~p--~ls~~e-----R~~vH~lA~~~gL~s 45 (60)
T cd02641 18 TELEFPP--TLSSHD-----RLLVHELAEELGLRH 45 (60)
T ss_pred CcEECCC--CCCHHH-----HHHHHHHHHHcCCce
Confidence 4566654 144444 568999999999943
No 55
>TIGR00114 lumazine-synth 6,7-dimethyl-8-ribityllumazine synthase. Archaeal members of this family are considered putative, although included in the seed and scoring above the trusted cutoff.
Probab=23.94 E-value=49 Score=26.13 Aligned_cols=39 Identities=15% Similarity=0.273 Sum_probs=31.4
Q ss_pred hHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecC
Q 026354 165 KAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVG 203 (240)
Q Consensus 165 ~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~ 203 (240)
+.+...+++...+.|.+.|+..+.+..-.-||-|||.+.
T Consensus 12 ~~i~~~L~~ga~~~l~~~g~~~~~i~v~~VPGa~EiP~a 50 (138)
T TIGR00114 12 RDITDMLLKGAIDALKRLGAEVDNIDVIWVPGAFELPLA 50 (138)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccceEEEECCcHHHHHHH
Confidence 345666777777789999999888777788999999874
No 56
>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=23.80 E-value=1.8e+02 Score=19.16 Aligned_cols=31 Identities=13% Similarity=0.144 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHcCCeEeeeecCcCC-Ceeeeec
Q 026354 168 GRDIVDSHYKACLYAGINISGINGEVMP-GQWEFQV 202 (240)
Q Consensus 168 ~~~i~~~l~~~l~~~GI~ve~~h~E~gp-GQ~Ei~l 202 (240)
+.+++.. +.+.|+++..+++-..+ |...+.+
T Consensus 14 l~~I~~~----la~~~inI~~i~~~~~~~~~~~i~~ 45 (76)
T cd04888 14 LSKVLNT----IAQVRGNVLTINQNIPIHGRANVTI 45 (76)
T ss_pred HHHHHHH----HHHcCCCEEEEEeCCCCCCeEEEEE
Confidence 5566666 78999999999875543 5544443
No 57
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=23.71 E-value=2.3e+02 Score=19.23 Aligned_cols=41 Identities=10% Similarity=-0.095 Sum_probs=31.3
Q ss_pred EECCCCCCCCCChHHHHHHHHHHHhhcCCeeEEeeeeeEEE
Q 026354 94 AYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTL 134 (240)
Q Consensus 94 ~~~~~G~p~~~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L 134 (240)
+......+.+.-++.+.+.+.+++++.|.++..+...+=..
T Consensus 27 li~~~~~~~~~~~~~~~~~~~~~l~~~gV~v~~~~~v~~i~ 67 (80)
T PF00070_consen 27 LIERSDRLLPGFDPDAAKILEEYLRKRGVEVHTNTKVKEIE 67 (80)
T ss_dssp EEESSSSSSTTSSHHHHHHHHHHHHHTTEEEEESEEEEEEE
T ss_pred EEeccchhhhhcCHHHHHHHHHHHHHCCCEEEeCCEEEEEE
Confidence 33445677777888899999999999999988877665443
No 58
>PLN02404 6,7-dimethyl-8-ribityllumazine synthase
Probab=23.64 E-value=51 Score=26.21 Aligned_cols=39 Identities=13% Similarity=0.249 Sum_probs=31.5
Q ss_pred hHHHHHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecC
Q 026354 165 KAWGRDIVDSHYKACLYAGINISGINGEVMPGQWEFQVG 203 (240)
Q Consensus 165 ~~~~~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~ 203 (240)
..+...+++...+.|...|++.+.+..-.-||-||+-+.
T Consensus 19 ~~I~~~Ll~ga~~~l~~~gv~~~~i~v~~VPGa~EiP~a 57 (141)
T PLN02404 19 EIITKNLLEGALETFKRYSVKEENIDVVWVPGSFEIPVV 57 (141)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccceEEEEcCcHHHHHHH
Confidence 455667777777789999999888888888999999863
No 59
>PRK02877 hypothetical protein; Provisional
Probab=23.39 E-value=1.3e+02 Score=22.61 Aligned_cols=32 Identities=13% Similarity=0.270 Sum_probs=27.2
Q ss_pred CChHHHHHHHHHHHhhcCCeeEEeeeeeEEEE
Q 026354 104 TNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLL 135 (240)
Q Consensus 104 ~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~ 135 (240)
..-+..++|..++++++|-...+|+.+++-.+
T Consensus 56 ~aR~~A~~rm~~~A~~lGAnAVIgvr~d~~~i 87 (106)
T PRK02877 56 KAREIAFEELGEQARALGADAVVGIDIDYETV 87 (106)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEEEEEehhc
Confidence 35677889999999999999999999887655
No 60
>PF07004 SHIPPO-rpt: Sperm-tail PG-rich repeat; InterPro: IPR010736 This represents a short conserved region (approximately 30 residues long) that is repeated in several eukaryotic proteins of unknown function. One member of this family is annotated as possibly being related to alpha collagen.
Probab=23.31 E-value=33 Score=19.21 Aligned_cols=11 Identities=18% Similarity=0.356 Sum_probs=8.1
Q ss_pred CCCeeeeecCC
Q 026354 194 MPGQWEFQVGP 204 (240)
Q Consensus 194 gpGQ~Ei~l~~ 204 (240)
|||+|++.-..
T Consensus 3 GPG~Y~~~~~~ 13 (37)
T PF07004_consen 3 GPGSYNPPSSS 13 (37)
T ss_pred CCCcccccccc
Confidence 79999876643
No 61
>PLN02284 glutamine synthetase
Probab=22.82 E-value=91 Score=28.53 Aligned_cols=41 Identities=12% Similarity=-0.041 Sum_probs=32.4
Q ss_pred hhhHHHhcCCCCCCCCeEEE--EEEEEcCCCCceeeeeeeCCCC
Q 026354 2 SLLSDLLNLNLSESTDKIIA--EYIWIGGSGMDMRSKARTLPGP 43 (240)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~v--~~~~~D~~G~~~R~K~~~~~~~ 43 (240)
+.+++|+.+......-+.+| ++.++|+.| ..|...++.+.+
T Consensus 5 ~~~~~~~~~~~~~~~~~~y~wi~~~~~dl~g-~~~~~~~~~~~~ 47 (354)
T PLN02284 5 SDLINLNLSDSTDKIIAEYIWIGGSGMDLRS-KARTLPGPVTDP 47 (354)
T ss_pred hhhHhhcccCcCCeEEEEEEEEEEEecCCCC-ceEEeccccccc
Confidence 34667777777777777766 889999999 999999987654
No 62
>PF08532 Glyco_hydro_42M: Beta-galactosidase trimerisation domain; InterPro: IPR013738 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is non catalytic domain B of beta-galactosidase enzymes belong to the glycosyl hydrolase 42 family. This domain is related to glutamine amidotransferase enzymes, but the catalytic residues are replaced by non functional amino acids. This domain is involved in trimerisation. ; GO: 0004565 beta-galactosidase activity, 0005975 carbohydrate metabolic process; PDB: 1KWK_A 1KWG_A.
Probab=22.42 E-value=1.4e+02 Score=24.83 Aligned_cols=41 Identities=24% Similarity=0.285 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhH
Q 026354 169 RDIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGIS 209 (240)
Q Consensus 169 ~~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~ 209 (240)
.+.+..++++|.+.||+++-+|.+.-=..|.+-+-|..-+-
T Consensus 29 ~~~~~~~y~al~~~gi~vDvv~~~~dL~~Ykllv~P~~~~l 69 (207)
T PF08532_consen 29 RDQVRGWYRALRELGIPVDVVSPDDDLSGYKLLVLPSLYIL 69 (207)
T ss_dssp HHHHHHHHHHHHTTT--EEEE-TTS--TT-SEEEES--SC-
T ss_pred HHHHHHHHHHHHHcCCceEEecCcCCcccCcEEEEeeEEEE
Confidence 34456667789999999999999987677888887765433
No 63
>cd03143 A4_beta-galactosidase_middle_domain A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain. A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain. This group includes proteins similar to beta-galactosidase from Thermus thermophilus. Beta-Galactosidase hydrolyzes the beta-1,4-D-galactosidic linkage of lactose, as well as those of related chromogens, o-nitrophenyl-beta-D-galactopyranoside (ONP-Gal) and 5-bromo-4-chloro-3-indolyl-beta-D-galactoside (X-gal). This A4 beta-galactosidase middle domain lacks the catalytic triad of typical GATase1 domains. The reactive Cys residue found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow in typical GATase1 domains is not conserved in this group.
Probab=22.42 E-value=2.2e+02 Score=21.99 Aligned_cols=57 Identities=16% Similarity=0.184 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
+.+..+++.|.+.||+++-++.+..=.+|.+-+-|.-.+-.. -....+++.+++=|.
T Consensus 26 ~~~~~~~~~l~~~gi~~d~v~~~~~l~~y~~vi~P~~~~~~~----~~~~~l~~~v~~GG~ 82 (154)
T cd03143 26 DLALALYRALRELGIPVDVVPPDADLSGYKLVVLPDLYLLSD----ATAAALRAYVENGGT 82 (154)
T ss_pred HHHHHHHHHHHHCCCCEEEECCCCCcccCCEEEECchhcCCH----HHHHHHHHHHHCCCE
Confidence 445666777999999999999877767788888776543322 334556666665554
No 64
>PRK01060 endonuclease IV; Provisional
Probab=22.38 E-value=4.9e+02 Score=22.15 Aligned_cols=55 Identities=13% Similarity=0.050 Sum_probs=29.8
Q ss_pred HHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 172 VDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 172 ~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
++.+.+.+++.|+.+-++.. .+.|-+++...+.-.....+-.+|+.++. |++.|.
T Consensus 49 ~~~lk~~~~~~gl~~~~~~~---h~~~~~nl~~~d~~~r~~s~~~~~~~i~~-A~~lga 103 (281)
T PRK01060 49 IEAFKAACEKYGISPEDILV---HAPYLINLGNPNKEILEKSRDFLIQEIER-CAALGA 103 (281)
T ss_pred HHHHHHHHHHcCCCCCceEE---ecceEecCCCCCHHHHHHHHHHHHHHHHH-HHHcCC
Confidence 44455557788887532221 12455777766553333334455555543 666776
No 65
>cd02640 R3H_NRF R3H domain of the NF-kappaB-repression factor (NRF). NRF is a nuclear inhibitor of NF-kappaB proteins that can silence the IFNbeta promoter via binding to a negative regulatory element (NRE). Beside R3H NRF also contains a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=22.33 E-value=82 Score=21.12 Aligned_cols=28 Identities=7% Similarity=0.077 Sum_probs=21.2
Q ss_pred eeeeecCC-ChhhHHHHHHHHHHHHHHHHHHHcCCce
Q 026354 197 QWEFQVGP-AVGISAGDQLWVARYILEDYRDCWSCAF 232 (240)
Q Consensus 197 Q~Ei~l~~-~~~l~aAD~~~~~r~~ik~vA~~~GlaT 232 (240)
+.|+.|.| -+.. -|.+|+++|++.||.+
T Consensus 17 ~~~l~f~p~lt~~--------eR~~vH~~a~~~gL~s 45 (60)
T cd02640 17 IRDMVFSPEFSKE--------ERALIHQIAQKYGLKS 45 (60)
T ss_pred cceEEcCCCCCHH--------HHHHHHHHHHHcCCce
Confidence 57888877 3442 3779999999999943
No 66
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=22.32 E-value=3.2e+02 Score=21.19 Aligned_cols=52 Identities=17% Similarity=0.038 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHcCCeEeeeecCcCCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 170 DIVDSHYKACLYAGINISGINGEVMPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E~gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
.....+++.|++.||.++++..|.+ +..|.|.. -|+-..+|.++++.-.. ++
T Consensus 50 ~~~~~v~~~L~~~gI~~ksi~~~~~--~~~irf~~------~~~Ql~Ak~vL~~~L~~-~y 101 (127)
T PRK10629 50 PDGFYVYQHLDANGIHIKSITPEND--SLLIRFDS------PEQSAAAKEVLDRTLPH-GY 101 (127)
T ss_pred chHHHHHHHHHHCCCCcceEEeeCC--EEEEEECC------HHHHHHHHHHHHHHcCC-CC
Confidence 3455666779999999999998854 77776644 45566788888776643 44
No 67
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=22.09 E-value=2.1e+02 Score=25.30 Aligned_cols=62 Identities=16% Similarity=-0.017 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHcCCeEeeeecCc--CCCeeeeecCCChhhHHHHHHHHHHHHHHHHHHHcCC-ce
Q 026354 170 DIVDSHYKACLYAGINISGINGEV--MPGQWEFQVGPAVGISAGDQLWVARYILEDYRDCWSC-AF 232 (240)
Q Consensus 170 ~i~~~l~~~l~~~GI~ve~~h~E~--gpGQ~Ei~l~~~~~l~aAD~~~~~r~~ik~vA~~~Gl-aT 232 (240)
.|+..+.+.|.+.|++|+.++.-. ..|+|.+.+.-.-- ...++.-.++..+.+++.+.|+ ++
T Consensus 18 GIVa~Vt~~La~~g~NI~d~s~~~~~~~g~F~m~i~v~~~-~~~~~~~~L~~~L~~l~~~l~l~i~ 82 (286)
T PRK06027 18 GIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEFEGD-GLIFNLETLRADFAALAEEFEMDWR 82 (286)
T ss_pred cHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEEEeC-CCCCCHHHHHHHHHHHHHHhCCEEE
Confidence 455666666889999999998887 67788776554320 1112266789999999999999 43
No 68
>PRK12856 hypothetical protein; Provisional
Probab=21.74 E-value=1.3e+02 Score=22.60 Aligned_cols=32 Identities=9% Similarity=0.231 Sum_probs=26.9
Q ss_pred CChHHHHHHHHHHHhhcCCeeEEeeeeeEEEE
Q 026354 104 TNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLL 135 (240)
Q Consensus 104 ~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~ 135 (240)
..-+..++|..++++++|-...+|+-+|.--+
T Consensus 56 ~aR~~A~~rm~~~A~~lGAnAVvgvr~d~~~~ 87 (103)
T PRK12856 56 EARDIAMDEMKELAKQKGANAIVGVDVDYEVV 87 (103)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEEEEEhhHh
Confidence 34677889999999999999999998887654
No 69
>cd06007 R3H_DEXH_helicase R3H domain of a group of proteins which also contain a DEXH-box helicase domain, and may function as ATP-dependent DNA or RNA helicases. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=21.01 E-value=82 Score=21.07 Aligned_cols=28 Identities=7% Similarity=0.043 Sum_probs=20.9
Q ss_pred eeeeecCCC-hhhHHHHHHHHHHHHHHHHHHHcCCce
Q 026354 197 QWEFQVGPA-VGISAGDQLWVARYILEDYRDCWSCAF 232 (240)
Q Consensus 197 Q~Ei~l~~~-~~l~aAD~~~~~r~~ik~vA~~~GlaT 232 (240)
+.++.|.|. +..+ |.+|+++|++.||.+
T Consensus 16 ~~~l~Fpp~ls~~e--------R~~vH~~a~~~gL~s 44 (59)
T cd06007 16 NEEYEFPSSLTNHE--------RAVIHRLCRKLGLKS 44 (59)
T ss_pred ccEEEcCCCCCHHH--------HHHHHHHHHHcCCCc
Confidence 577777763 4433 789999999999943
No 70
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=20.97 E-value=1.2e+02 Score=17.70 Aligned_cols=19 Identities=11% Similarity=0.127 Sum_probs=15.9
Q ss_pred CChHHHHHHHHHHHhhcCC
Q 026354 104 TNKRHAAAKIFSHSDVVAE 122 (240)
Q Consensus 104 ~~PR~~L~r~l~~l~~~Gl 122 (240)
.+.|...-|++.++++.|+
T Consensus 13 G~t~ETVSR~l~~l~~~gl 31 (32)
T PF00325_consen 13 GLTRETVSRILKKLERQGL 31 (32)
T ss_dssp TS-HHHHHHHHHHHHHTTS
T ss_pred CCcHHHHHHHHHHHHHcCC
Confidence 4789999999999999886
No 71
>PF12116 SpoIIID: Stage III sporulation protein D; InterPro: IPR014208 Members of this entry represent the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if, and only if, the species is capable of endospore formation. In Bacillus subtilis SpoIIID is a DNA binding protein that is involved in gene repression as well as activation [].; PDB: 2L0K_A.
Probab=20.75 E-value=1.2e+02 Score=21.76 Aligned_cols=25 Identities=4% Similarity=0.049 Sum_probs=19.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHcCC
Q 026354 206 VGISAGDQLWVARYILEDYRDCWSC 230 (240)
Q Consensus 206 ~~l~aAD~~~~~r~~ik~vA~~~Gl 230 (240)
-++..|..++--+.+||+.|..+|+
T Consensus 7 R~i~i~~yIi~~~aTVR~~Ak~FGv 31 (82)
T PF12116_consen 7 RVIEIANYIIETKATVRQAAKVFGV 31 (82)
T ss_dssp HHHHHHHHHHHH---HHHHHHHHTS
T ss_pred HHHHHHHHHHHcccHHHHHHHHHCC
Confidence 4678899999999999999999998
No 72
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=20.68 E-value=2.3e+02 Score=17.66 Aligned_cols=39 Identities=18% Similarity=-0.017 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHcCCeEeeeecCcCC-CeeeeecCCChhhHH
Q 026354 168 GRDIVDSHYKACLYAGINISGINGEVMP-GQWEFQVGPAVGISA 210 (240)
Q Consensus 168 ~~~i~~~l~~~l~~~GI~ve~~h~E~gp-GQ~Ei~l~~~~~l~a 210 (240)
+.++... +.+.|++++++...... ++-.+.+.-.+.-+|
T Consensus 12 l~~i~~~----l~~~~inI~~~~~~~~~~~~~~~~~~v~~~~~a 51 (56)
T cd04889 12 LAEVTEI----LAEAGINIKAISIAETRGEFGILRLIFSDPERA 51 (56)
T ss_pred HHHHHHH----HHHcCCCEeeEEEEEccCCcEEEEEEECCHHHH
Confidence 4556555 77999999998866544 455555555553333
No 73
>KOG0257 consensus Kynurenine aminotransferase, glutamine transaminase K [Amino acid transport and metabolism]
Probab=20.44 E-value=72 Score=29.92 Aligned_cols=50 Identities=10% Similarity=0.123 Sum_probs=42.0
Q ss_pred CeEEEEEEEECCCCCCCCCChHHHHHHHHHHHhhcCCeeEEeeeeeEEEEecC
Q 026354 86 NNILVMCDAYTPAGEPIPTNKRHAAAKIFSHSDVVAEEPWYGIEQEYTLLQKD 138 (240)
Q Consensus 86 ~~a~vl~d~~~~~G~p~~~~PR~~L~r~l~~l~~~Gl~~~~g~E~EF~L~~~~ 138 (240)
.-+.++|...++.|+-+ +|.-|+++.+-.++.|+-+..=-=.|+++++..
T Consensus 173 Tk~Ii~ntPhNPtGkvf---sReeLe~ia~l~~k~~~lvisDevYe~~v~d~~ 222 (420)
T KOG0257|consen 173 TKAIILNTPHNPTGKVF---SREELERIAELCKKHGLLVISDEVYEWLVYDGN 222 (420)
T ss_pred ccEEEEeCCCCCcCccc---CHHHHHHHHHHHHHCCEEEEEhhHhHHHhhCCC
Confidence 36899999999999865 899999999988999976666666788888775
No 74
>PRK05473 hypothetical protein; Provisional
Probab=20.15 E-value=92 Score=22.61 Aligned_cols=21 Identities=10% Similarity=0.249 Sum_probs=19.2
Q ss_pred CChHHHHHHHHHHHhhcCCee
Q 026354 104 TNKRHAAAKIFSHSDVVAEEP 124 (240)
Q Consensus 104 ~~PR~~L~r~l~~l~~~Gl~~ 124 (240)
.+.|.+|+.|-+.|+++||.|
T Consensus 18 ~~v~eiL~~Vy~AL~EKGYNP 38 (86)
T PRK05473 18 KDVREILTTVYDALEEKGYNP 38 (86)
T ss_pred HHHHHHHHHHHHHHHHcCCCh
Confidence 378999999999999999987
Done!