Query 038389
Match_columns 353
No_of_seqs 248 out of 1239
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 10:29:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038389.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038389hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00083 HLH Helix-loop-helix d 99.3 2.1E-12 4.6E-17 95.6 4.2 53 182-234 4-59 (60)
2 smart00353 HLH helix loop heli 99.3 7.1E-12 1.5E-16 91.0 5.3 49 187-235 1-52 (53)
3 PF00010 HLH: Helix-loop-helix 99.3 3.2E-12 6.9E-17 94.1 3.3 49 183-231 2-55 (55)
4 KOG1318 Helix loop helix trans 98.8 3.5E-09 7.6E-14 106.5 5.1 58 181-238 232-293 (411)
5 cd04897 ACT_ACR_3 ACT domain-c 98.7 1.4E-07 3.1E-12 74.5 9.0 69 279-347 2-73 (75)
6 cd04895 ACT_ACR_1 ACT domain-c 98.5 9.4E-07 2E-11 69.3 8.7 63 279-342 2-68 (72)
7 cd04896 ACT_ACR-like_3 ACT dom 98.4 1.4E-06 3.1E-11 68.8 8.8 67 280-347 2-73 (75)
8 KOG1319 bHLHZip transcription 98.4 1.9E-07 4.2E-12 84.8 4.0 59 183-241 63-128 (229)
9 cd04927 ACT_ACR-like_2 Second 98.4 1.9E-06 4.2E-11 67.6 8.1 69 279-348 1-73 (76)
10 KOG4304 Transcriptional repres 98.3 3.7E-07 8E-12 87.2 2.1 58 179-236 29-94 (250)
11 cd04900 ACT_UUR-like_1 ACT dom 98.2 1.3E-05 2.8E-10 61.9 9.1 66 279-345 2-72 (73)
12 cd04925 ACT_ACR_2 ACT domain-c 98.0 6.2E-05 1.4E-09 58.5 9.3 68 280-347 2-73 (74)
13 KOG3561 Aryl-hydrocarbon recep 98.0 6.7E-06 1.5E-10 89.1 4.6 51 183-233 21-75 (803)
14 KOG3960 Myogenic helix-loop-he 97.9 8.5E-05 1.8E-09 70.6 10.3 62 181-242 117-180 (284)
15 cd04928 ACT_TyrKc Uncharacteri 97.8 0.00019 4E-09 55.8 8.8 64 280-346 3-67 (68)
16 KOG2483 Upstream transcription 97.8 5.9E-05 1.3E-09 71.4 7.1 63 178-240 55-120 (232)
17 KOG2588 Predicted DNA-binding 97.8 0.00014 3.1E-09 79.5 10.5 61 181-241 275-336 (953)
18 cd04899 ACT_ACR-UUR-like_2 C-t 97.7 0.00028 6E-09 53.1 8.8 65 280-345 2-69 (70)
19 cd04926 ACT_ACR_4 C-terminal 97.7 0.00028 6E-09 54.5 8.7 71 279-353 2-72 (72)
20 KOG0561 bHLH transcription fac 97.6 3.5E-05 7.7E-10 74.8 2.2 55 183-237 61-117 (373)
21 PRK05007 PII uridylyl-transfer 97.3 0.00055 1.2E-08 76.0 8.4 70 277-347 807-879 (884)
22 PLN03217 transcription factor 97.3 0.00052 1.1E-08 55.3 5.2 51 195-245 20-76 (93)
23 PF01842 ACT: ACT domain; Int 97.1 0.0024 5.3E-08 46.8 7.4 63 280-347 2-66 (66)
24 cd04873 ACT_UUR-ACR-like ACT d 97.1 0.0057 1.2E-07 45.3 8.9 64 280-344 2-68 (70)
25 PRK01759 glnD PII uridylyl-tra 97.1 0.0015 3.2E-08 72.4 8.1 69 277-346 782-853 (854)
26 PRK00275 glnD PII uridylyl-tra 97.0 0.0024 5.1E-08 71.2 9.5 71 277-347 813-886 (895)
27 KOG4029 Transcription factor H 96.9 0.00087 1.9E-08 63.0 3.9 59 181-239 108-170 (228)
28 PRK04374 PII uridylyl-transfer 96.8 0.0042 9E-08 69.1 9.3 69 277-346 795-866 (869)
29 PRK05092 PII uridylyl-transfer 96.8 0.0062 1.3E-07 68.1 10.1 71 277-347 842-915 (931)
30 PRK03059 PII uridylyl-transfer 96.8 0.0039 8.5E-08 69.1 8.4 68 277-347 785-855 (856)
31 cd04893 ACT_GcvR_1 ACT domains 96.6 0.014 3.1E-07 45.5 8.2 70 279-352 2-72 (77)
32 PRK03381 PII uridylyl-transfer 96.5 0.01 2.2E-07 65.2 9.2 64 278-342 707-772 (774)
33 PRK03381 PII uridylyl-transfer 96.4 0.013 2.9E-07 64.3 9.3 70 277-347 598-667 (774)
34 COG2844 GlnD UTP:GlnB (protein 96.3 0.0093 2E-07 65.2 7.2 67 277-345 790-856 (867)
35 PRK05007 PII uridylyl-transfer 96.3 0.018 3.8E-07 64.3 9.6 79 268-347 689-773 (884)
36 TIGR01693 UTase_glnD [Protein- 96.3 0.018 4E-07 63.7 9.6 71 277-347 667-741 (850)
37 TIGR01693 UTase_glnD [Protein- 96.3 0.014 3.1E-07 64.6 8.6 69 277-346 778-849 (850)
38 PF13740 ACT_6: ACT domain; PD 96.2 0.022 4.8E-07 44.3 7.3 66 278-347 2-67 (76)
39 PRK01759 glnD PII uridylyl-tra 96.2 0.02 4.4E-07 63.6 9.5 70 277-347 676-749 (854)
40 PRK00194 hypothetical protein; 95.9 0.03 6.5E-07 44.5 6.9 68 278-347 3-70 (90)
41 cd04869 ACT_GcvR_2 ACT domains 95.7 0.09 1.9E-06 40.5 8.5 68 281-351 2-76 (81)
42 cd04875 ACT_F4HF-DF N-terminal 95.7 0.07 1.5E-06 40.9 7.7 65 281-347 2-68 (74)
43 cd04872 ACT_1ZPV ACT domain pr 95.5 0.053 1.1E-06 43.1 6.8 67 279-347 2-68 (88)
44 PRK00275 glnD PII uridylyl-tra 95.5 0.052 1.1E-06 60.7 9.2 71 277-347 703-778 (895)
45 PRK05092 PII uridylyl-transfer 95.4 0.07 1.5E-06 59.9 9.5 70 277-346 731-804 (931)
46 PRK03059 PII uridylyl-transfer 95.1 0.078 1.7E-06 59.1 8.9 70 277-347 677-750 (856)
47 PRK04374 PII uridylyl-transfer 94.9 0.091 2E-06 58.7 8.7 71 277-347 689-760 (869)
48 cd04894 ACT_ACR-like_1 ACT dom 94.8 0.13 2.9E-06 39.6 6.6 66 280-345 2-67 (69)
49 cd04870 ACT_PSP_1 CT domains f 94.4 0.29 6.3E-06 37.7 8.0 63 281-347 2-65 (75)
50 KOG4447 Transcription factor T 94.2 0.035 7.5E-07 49.6 2.6 52 182-233 78-131 (173)
51 PF13291 ACT_4: ACT domain; PD 93.9 0.63 1.4E-05 35.9 9.0 37 278-314 6-42 (80)
52 cd04887 ACT_MalLac-Enz ACT_Mal 92.5 0.79 1.7E-05 34.5 7.5 35 281-315 2-36 (74)
53 cd04886 ACT_ThrD-II-like C-ter 92.4 0.64 1.4E-05 33.9 6.7 34 281-314 1-34 (73)
54 KOG3910 Helix loop helix trans 92.0 0.08 1.7E-06 55.0 1.7 58 181-238 525-586 (632)
55 PRK13010 purU formyltetrahydro 91.7 0.73 1.6E-05 45.2 8.0 68 278-347 9-79 (289)
56 KOG3560 Aryl-hydrocarbon recep 91.1 0.18 3.9E-06 53.1 3.3 44 185-228 28-75 (712)
57 cd02116 ACT ACT domains are co 90.9 0.97 2.1E-05 29.8 5.9 34 281-314 1-34 (60)
58 cd04888 ACT_PheB-BS C-terminal 90.7 0.95 2.1E-05 34.1 6.2 65 279-346 1-67 (76)
59 TIGR00655 PurU formyltetrahydr 90.1 1.2 2.6E-05 43.4 7.9 62 280-344 2-66 (280)
60 cd04883 ACT_AcuB C-terminal AC 89.4 2.2 4.9E-05 31.7 7.3 61 279-345 2-64 (72)
61 cd04876 ACT_RelA-SpoT ACT dom 89.3 1.5 3.2E-05 30.6 6.0 35 281-315 1-35 (71)
62 cd04881 ACT_HSDH-Hom ACT_HSDH_ 89.2 3.6 7.9E-05 30.3 8.3 35 280-314 2-36 (79)
63 PRK04435 hypothetical protein; 88.6 1.5 3.3E-05 38.6 6.7 72 274-347 65-137 (147)
64 cd04874 ACT_Af1403 N-terminal 88.6 3 6.4E-05 30.3 7.3 35 280-314 2-36 (72)
65 cd04877 ACT_TyrR N-terminal AC 87.6 3.7 7.9E-05 31.3 7.6 35 280-314 2-36 (74)
66 PRK06027 purU formyltetrahydro 87.3 3.3 7.2E-05 40.4 8.8 67 278-347 6-75 (286)
67 cd04879 ACT_3PGDH-like ACT_3PG 87.2 3.8 8.3E-05 29.4 7.2 61 281-347 2-64 (71)
68 KOG3559 Transcriptional regula 86.8 0.65 1.4E-05 47.6 3.6 44 187-230 6-53 (598)
69 cd04882 ACT_Bt0572_2 C-termina 86.1 3.9 8.5E-05 29.5 6.7 34 281-314 2-35 (65)
70 cd04909 ACT_PDH-BS C-terminal 85.8 5 0.00011 29.7 7.3 35 280-314 3-37 (69)
71 KOG3558 Hypoxia-inducible fact 85.6 0.48 1E-05 51.3 2.1 47 183-229 47-97 (768)
72 PRK13011 formyltetrahydrofolat 85.4 3.8 8.3E-05 40.1 8.2 66 278-347 7-75 (286)
73 COG2844 GlnD UTP:GlnB (protein 85.3 2.9 6.3E-05 46.4 7.9 72 275-347 681-756 (867)
74 cd04903 ACT_LSD C-terminal ACT 84.9 5.3 0.00011 28.8 7.0 60 281-346 2-63 (71)
75 PRK08577 hypothetical protein; 84.2 6.8 0.00015 33.7 8.3 66 278-345 56-123 (136)
76 cd04884 ACT_CBS C-terminal ACT 84.1 4.3 9.3E-05 30.6 6.3 34 281-314 2-35 (72)
77 cd04880 ACT_AAAH-PDT-like ACT 83.2 6.3 0.00014 29.9 7.0 35 282-316 3-37 (75)
78 cd04905 ACT_CM-PDT C-terminal 82.3 9.4 0.0002 29.4 7.7 35 281-315 4-38 (80)
79 cd04889 ACT_PDH-BS-like C-term 82.3 5.1 0.00011 28.6 5.8 35 281-315 1-35 (56)
80 cd04908 ACT_Bt0572_1 N-termina 82.1 4.1 8.9E-05 30.3 5.4 37 280-316 3-39 (66)
81 KOG3898 Transcription factor N 82.1 0.8 1.7E-05 44.1 1.9 53 181-233 71-126 (254)
82 cd04878 ACT_AHAS N-terminal AC 79.4 11 0.00024 27.0 6.9 35 280-314 2-36 (72)
83 PRK11589 gcvR glycine cleavage 78.9 5.6 0.00012 36.7 6.2 65 277-346 7-72 (190)
84 PRK07334 threonine dehydratase 78.3 12 0.00026 38.0 9.0 37 278-314 326-362 (403)
85 PRK00227 glnD PII uridylyl-tra 77.3 9.3 0.0002 42.0 8.3 70 276-347 544-614 (693)
86 cd04901 ACT_3PGDH C-terminal A 76.1 3.1 6.7E-05 30.6 3.1 61 281-347 2-62 (69)
87 COG0788 PurU Formyltetrahydrof 74.4 16 0.00034 35.9 8.1 68 277-347 6-76 (287)
88 cd04902 ACT_3PGDH-xct C-termin 73.1 12 0.00027 27.5 5.7 61 281-347 2-64 (73)
89 cd04885 ACT_ThrD-I Tandem C-te 72.5 14 0.0003 27.7 5.9 61 282-348 2-64 (68)
90 cd04904 ACT_AAAH ACT domain of 71.4 16 0.00035 28.0 6.2 35 282-316 4-38 (74)
91 KOG4395 Transcription factor A 71.2 6.2 0.00013 38.2 4.5 52 183-234 175-229 (285)
92 TIGR00119 acolac_sm acetolacta 68.6 16 0.00035 32.8 6.4 63 280-346 3-67 (157)
93 PF05088 Bac_GDH: Bacterial NA 68.5 23 0.0005 42.4 9.2 70 277-347 488-562 (1528)
94 cd04931 ACT_PAH ACT domain of 68.0 25 0.00053 28.6 6.8 37 279-315 15-51 (90)
95 COG3830 ACT domain-containing 65.5 13 0.00027 30.7 4.6 64 279-345 4-68 (90)
96 PRK11895 ilvH acetolactate syn 64.3 22 0.00047 32.1 6.4 36 280-315 4-39 (161)
97 PF13710 ACT_5: ACT domain; PD 60.2 19 0.0004 27.1 4.4 57 287-347 1-59 (63)
98 CHL00100 ilvH acetohydroxyacid 59.9 25 0.00055 32.1 6.1 64 280-347 4-69 (174)
99 COG4492 PheB ACT domain-contai 59.3 38 0.00082 30.0 6.7 68 276-345 70-138 (150)
100 cd04929 ACT_TPH ACT domain of 58.7 72 0.0016 24.8 7.7 33 283-315 5-37 (74)
101 PRK06737 acetolactate synthase 55.3 35 0.00077 27.0 5.4 37 280-316 4-40 (76)
102 KOG4447 Transcription factor T 53.1 14 0.0003 33.3 3.1 42 189-230 29-72 (173)
103 PRK00227 glnD PII uridylyl-tra 52.7 18 0.0004 39.8 4.6 60 278-346 631-690 (693)
104 PRK10872 relA (p)ppGpp synthet 52.6 41 0.00089 37.4 7.2 36 279-314 667-702 (743)
105 cd04922 ACT_AKi-HSDH-ThrA_2 AC 52.5 76 0.0016 22.7 6.6 32 280-311 3-37 (66)
106 KOG3582 Mlx interactors and re 51.6 5.1 0.00011 43.7 0.1 61 181-241 650-715 (856)
107 PRK13562 acetolactate synthase 51.4 36 0.00077 27.7 4.9 64 280-346 4-69 (84)
108 COG4747 ACT domain-containing 51.0 34 0.00073 29.9 5.0 40 280-319 5-44 (142)
109 PRK11152 ilvM acetolactate syn 50.5 66 0.0014 25.4 6.3 62 280-346 5-68 (76)
110 PRK11589 gcvR glycine cleavage 49.5 81 0.0018 29.1 7.7 64 279-346 96-166 (190)
111 PLN02705 beta-amylase 47.6 66 0.0014 35.1 7.5 31 176-206 78-108 (681)
112 TIGR00691 spoT_relA (p)ppGpp s 46.9 54 0.0012 36.1 7.0 38 278-315 610-647 (683)
113 PRK11092 bifunctional (p)ppGpp 45.9 89 0.0019 34.6 8.5 39 278-316 626-664 (702)
114 PRK06382 threonine dehydratase 43.9 77 0.0017 32.2 7.3 37 276-312 328-364 (406)
115 cd04930 ACT_TH ACT domain of t 43.9 1.3E+02 0.0029 25.4 7.5 36 279-314 42-77 (115)
116 cd04906 ACT_ThrD-I_1 First of 42.4 1.2E+02 0.0025 23.8 6.6 32 279-312 2-33 (85)
117 TIGR01127 ilvA_1Cterm threonin 40.3 80 0.0017 31.6 6.7 37 276-312 303-339 (380)
118 PF02344 Myc-LZ: Myc leucine z 39.0 31 0.00067 23.1 2.2 16 191-206 14-29 (32)
119 PF13840 ACT_7: ACT domain ; P 34.7 58 0.0012 24.4 3.6 32 279-310 7-42 (65)
120 cd04933 ACT_AK1-AT_1 ACT domai 34.5 2.3E+02 0.0049 22.3 7.8 31 280-310 3-36 (78)
121 cd04919 ACT_AK-Hom3_2 ACT doma 32.3 1.9E+02 0.0041 20.7 6.7 26 286-311 12-37 (66)
122 PRK10222 PTS system L-ascorbat 32.2 96 0.0021 24.7 4.7 55 293-347 5-77 (85)
123 PRK08198 threonine dehydratase 31.5 1.8E+02 0.004 29.3 7.7 38 276-313 325-362 (404)
124 PRK08178 acetolactate synthase 31.4 1.5E+02 0.0032 24.7 5.7 63 279-346 9-73 (96)
125 PF02120 Flg_hook: Flagellar h 31.3 1.4E+02 0.0031 22.8 5.5 44 270-313 29-78 (85)
126 COG4747 ACT domain-containing 30.9 1.1E+02 0.0024 26.7 5.0 36 281-326 72-107 (142)
127 cd04890 ACT_AK-like_1 ACT doma 30.4 1.7E+02 0.0037 20.8 5.5 24 287-310 12-35 (62)
128 PF05687 DUF822: Plant protein 30.0 44 0.00095 29.9 2.5 29 179-207 8-36 (150)
129 PRK11899 prephenate dehydratas 28.5 2.6E+02 0.0056 27.3 7.8 65 279-346 195-260 (279)
130 cd04892 ACT_AK-like_2 ACT doma 28.0 2E+02 0.0044 19.6 8.1 33 280-312 2-37 (65)
131 cd04912 ACT_AKiii-LysC-EC-like 27.8 1.6E+02 0.0034 22.4 5.0 31 280-310 3-36 (75)
132 cd04937 ACT_AKi-DapG-BS_2 ACT 27.8 1.5E+02 0.0033 21.6 4.8 27 281-307 4-33 (64)
133 COG0013 AlaS Alanyl-tRNA synth 27.7 9.8E+02 0.021 27.5 14.1 58 287-347 785-844 (879)
134 PF06005 DUF904: Protein of un 26.4 1.1E+02 0.0025 23.9 4.0 23 220-242 13-35 (72)
135 KOG3582 Mlx interactors and re 26.3 24 0.00052 38.8 0.2 56 182-240 787-847 (856)
136 PRK08526 threonine dehydratase 25.6 2.5E+02 0.0055 28.7 7.5 39 276-314 324-362 (403)
137 cd04868 ACT_AK-like ACT domain 24.8 2E+02 0.0044 19.1 4.8 24 287-310 12-35 (60)
138 cd04932 ACT_AKiii-LysC-EC_1 AC 24.0 2.5E+02 0.0053 21.7 5.6 31 280-310 3-36 (75)
139 COG3074 Uncharacterized protei 23.0 1.3E+02 0.0028 23.8 3.7 23 220-242 13-35 (79)
140 PF14689 SPOB_a: Sensor_kinase 22.9 2.4E+02 0.0052 21.0 5.1 41 191-238 17-57 (62)
141 PRK11020 hypothetical protein; 22.6 1.4E+02 0.0029 25.8 4.0 52 190-241 3-54 (118)
142 PF04420 CHD5: CHD5-like prote 22.2 2.5E+02 0.0055 25.0 6.0 48 186-244 38-85 (161)
143 cd04913 ACT_AKii-LysC-BS-like_ 21.6 1.6E+02 0.0034 21.1 3.9 24 286-309 10-33 (75)
144 KOG4571 Activating transcripti 20.2 8.7E+02 0.019 24.2 10.5 203 21-245 61-275 (294)
145 PRK13902 alaS alanyl-tRNA synt 20.2 1.3E+03 0.029 26.4 12.9 56 286-347 810-865 (900)
146 COG0077 PheA Prephenate dehydr 20.0 4.2E+02 0.009 26.2 7.4 67 278-347 194-261 (279)
No 1
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=99.30 E-value=2.1e-12 Score=95.64 Aligned_cols=53 Identities=38% Similarity=0.710 Sum_probs=49.7
Q ss_pred CCccchHHHHHHHHHHHHHHHhhhhcCCCC---CCCCccchhHHHHHHHHHHHHHH
Q 038389 182 QPSKNLMAERRRRKRLNDRLSMLRSIVPKI---SKMDRTSILGDTIDYLKELLERI 234 (353)
Q Consensus 182 ~~~~h~~~ER~RR~~in~~~~~LrslvP~~---~k~dKasIL~~ai~YIk~Lq~~v 234 (353)
.+..|++.||+||++||+.|..|+++||.. .|++|++||..||+||+.|+.++
T Consensus 4 ~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~ 59 (60)
T cd00083 4 RREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59 (60)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 456799999999999999999999999987 78999999999999999999876
No 2
>smart00353 HLH helix loop helix domain.
Probab=99.26 E-value=7.1e-12 Score=91.05 Aligned_cols=49 Identities=37% Similarity=0.663 Sum_probs=45.4
Q ss_pred hHHHHHHHHHHHHHHHhhhhcCCC---CCCCCccchhHHHHHHHHHHHHHHH
Q 038389 187 LMAERRRRKRLNDRLSMLRSIVPK---ISKMDRTSILGDTIDYLKELLERIN 235 (353)
Q Consensus 187 ~~~ER~RR~~in~~~~~LrslvP~---~~k~dKasIL~~ai~YIk~Lq~~v~ 235 (353)
+..||+||++||+.|..|+++||. ..|.+|++||..||+||++|+.+++
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 368999999999999999999994 6789999999999999999999876
No 3
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=99.26 E-value=3.2e-12 Score=94.11 Aligned_cols=49 Identities=43% Similarity=0.693 Sum_probs=45.9
Q ss_pred CccchHHHHHHHHHHHHHHHhhhhcCCCC-----CCCCccchhHHHHHHHHHHH
Q 038389 183 PSKNLMAERRRRKRLNDRLSMLRSIVPKI-----SKMDRTSILGDTIDYLKELL 231 (353)
Q Consensus 183 ~~~h~~~ER~RR~~in~~~~~LrslvP~~-----~k~dKasIL~~ai~YIk~Lq 231 (353)
+..|+..||+||.+||+.|..|+.+||.. .|.+|++||..||+||++||
T Consensus 2 R~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 2 RQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 45799999999999999999999999986 68899999999999999997
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=98.82 E-value=3.5e-09 Score=106.55 Aligned_cols=58 Identities=31% Similarity=0.584 Sum_probs=51.9
Q ss_pred CCCccchHHHHHHHHHHHHHHHhhhhcCCCC----CCCCccchhHHHHHHHHHHHHHHHHHH
Q 038389 181 GQPSKNLMAERRRRKRLNDRLSMLRSIVPKI----SKMDRTSILGDTIDYLKELLERINKLQ 238 (353)
Q Consensus 181 ~~~~~h~~~ER~RR~~in~~~~~LrslvP~~----~k~dKasIL~~ai~YIk~Lq~~v~~L~ 238 (353)
.+|..|+++|||||++||+++..|..|||.+ .|..|.+||..+++||++||+..++..
T Consensus 232 ~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~ 293 (411)
T KOG1318|consen 232 RKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRAR 293 (411)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999999999999999986 377899999999999999999876443
No 5
>cd04897 ACT_ACR_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.67 E-value=1.4e-07 Score=74.47 Aligned_cols=69 Identities=20% Similarity=0.277 Sum_probs=58.8
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCH---HHHHHHHHHhhc
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSS---EEIKQALFSNAG 347 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~---e~IkQAL~kaag 347 (353)
..|+|.|.+|||||.+|..+|-.+||+|.+|.|+|.++++.+++.+....+....+. +.|+++|..+++
T Consensus 2 TvveV~~~DRpGLL~~i~~~l~~~~l~I~~A~I~T~gera~D~FyV~d~~g~kl~~~~~~~~l~~~L~~al~ 73 (75)
T cd04897 2 SVVTVQCRDRPKLLFDVVCTLTDMDYVVFHATIDTDGDDAHQEYYIRHKDGRTLSTEGERQRVIKCLEAAIE 73 (75)
T ss_pred EEEEEEeCCcCcHHHHHHHHHHhCCeEEEEEEEeecCceEEEEEEEEcCCCCccCCHHHHHHHHHHHHHHHh
Confidence 368999999999999999999999999999999999999999999877645544443 577788877764
No 6
>cd04895 ACT_ACR_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.47 E-value=9.4e-07 Score=69.29 Aligned_cols=63 Identities=25% Similarity=0.317 Sum_probs=52.4
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCH----HHHHHHH
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSS----EEIKQAL 342 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~----e~IkQAL 342 (353)
..|+|.+.+|||||.+|.++|.++||+|..|.|+|.++++.++|.+....+. .++. +.|+++|
T Consensus 2 Tviev~a~DRpGLL~~i~~~l~~~gl~I~~AkIsT~Gerv~DvFyV~d~~g~-kl~d~~~~~~l~~~L 68 (72)
T cd04895 2 TLVKVDSARKPGILLEAVQVLTDLDLCITKAYISSDGGWFMDVFHVTDQLGN-KLTDDSLIAYIEKSL 68 (72)
T ss_pred EEEEEEECCcCCHHHHHHHHHHHCCcEEEEEEEeecCCeEEEEEEEECCCCC-CCCCHHHHHHHHHHh
Confidence 4689999999999999999999999999999999999999999988765334 4443 3445444
No 7
>cd04896 ACT_ACR-like_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.43 E-value=1.4e-06 Score=68.81 Aligned_cols=67 Identities=13% Similarity=0.163 Sum_probs=56.9
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEe--eeCCeEEEEeehhhhccccccC---HHHHHHHHHHhhc
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVIS--CFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNAG 347 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS--~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaag 347 (353)
.|+|.|.+|||||.+|.++|..+||+|..|.|+ +.+++++++|.+ ...+....+ .+.|+++|.+++.
T Consensus 2 vlev~a~DRpGLL~~i~~~l~~~~l~i~~AkI~~~T~Gerv~D~Fyv-~~~g~kl~d~~~~~~L~~~L~~~l~ 73 (75)
T cd04896 2 LLQIRCVDQKGLLYDILRTSKDCNIQISYGRFSSKVKGYREVDLFIV-QSDGKKIMDPKKQAALCARLREEMV 73 (75)
T ss_pred EEEEEeCCcccHHHHHHHHHHHCCeEEEEEEEecCcccCEEEEEEEE-eCCCCccCCHHHHHHHHHHHHHHhc
Confidence 589999999999999999999999999999999 999999999999 443444234 3678888887764
No 8
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.42 E-value=1.9e-07 Score=84.84 Aligned_cols=59 Identities=31% Similarity=0.468 Sum_probs=52.7
Q ss_pred CccchHHHHHHHHHHHHHHHhhhhcCCCC-------CCCCccchhHHHHHHHHHHHHHHHHHHHHH
Q 038389 183 PSKNLMAERRRRKRLNDRLSMLRSIVPKI-------SKMDRTSILGDTIDYLKELLERINKLQEEE 241 (353)
Q Consensus 183 ~~~h~~~ER~RR~~in~~~~~LrslvP~~-------~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~ 241 (353)
+..|.-+||+||+.||..+..|+.|||.+ .|..||-||..+|+||.+|++++.+.+.+.
T Consensus 63 r~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~ 128 (229)
T KOG1319|consen 63 RRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEV 128 (229)
T ss_pred HHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56799999999999999999999999964 377899999999999999999987777654
No 9
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.37 E-value=1.9e-06 Score=67.57 Aligned_cols=69 Identities=26% Similarity=0.269 Sum_probs=56.6
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEee-eCCeEEEEeehhhhccccccC---HHHHHHHHHHhhcc
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISC-FNDFSLQASCSEAAERRTLLS---SEEIKQALFSNAGY 348 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~-~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaag~ 348 (353)
+.++|.|.+|+|+|.+|..+|..+||+|+.|.|++ .++.+++++.+... ++...+ .+.|+++|.+++|.
T Consensus 1 ~~~ei~~~Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V~d~-~~~~~~~~~~~~l~~~L~~~L~~ 73 (76)
T cd04927 1 FLLKLFCSDRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFITDA-RELLHTKKRREETYDYLRAVLGD 73 (76)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEEeCC-CCCCCCHHHHHHHHHHHHHHHch
Confidence 46899999999999999999999999999999996 78999999988643 222222 35688888888873
No 10
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.26 E-value=3.7e-07 Score=87.21 Aligned_cols=58 Identities=26% Similarity=0.461 Sum_probs=50.2
Q ss_pred CCCCCccchHHHHHHHHHHHHHHHhhhhcCCC--------CCCCCccchhHHHHHHHHHHHHHHHH
Q 038389 179 LEGQPSKNLMAERRRRKRLNDRLSMLRSIVPK--------ISKMDRTSILGDTIDYLKELLERINK 236 (353)
Q Consensus 179 ~~~~~~~h~~~ER~RR~~in~~~~~LrslvP~--------~~k~dKasIL~~ai~YIk~Lq~~v~~ 236 (353)
...++..|-+.||+||.|||+.|..|+.|||. .+|++||.||+-|++|+++|+.....
T Consensus 29 ~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~ 94 (250)
T KOG4304|consen 29 RQYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQA 94 (250)
T ss_pred HHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence 34456678899999999999999999999994 37889999999999999999986443
No 11
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD is the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted tyrosine kinase. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.19 E-value=1.3e-05 Score=61.95 Aligned_cols=66 Identities=23% Similarity=0.340 Sum_probs=51.3
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee-CCeEEEEeehhhhccccccCH----HHHHHHHHHh
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF-NDFSLQASCSEAAERRTLLSS----EEIKQALFSN 345 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~-~d~~l~a~~~e~~~~~~~is~----e~IkQAL~ka 345 (353)
..|.|.|.+++|+|.+|..+|..+||+|+.|.|.+. ++++++++.+... .+..+.. +.|+++|.++
T Consensus 2 ~~i~v~~~Dr~gLl~~i~~~l~~~~l~I~~A~i~T~~~~~v~D~F~v~~~-~~~~~~~~~~~~~l~~~L~~~ 72 (73)
T cd04900 2 TEVFIYTPDRPGLFARIAGALDQLGLNILDARIFTTRDGYALDTFVVLDP-DGEPIGERERLARIREALEDA 72 (73)
T ss_pred EEEEEEecCCCCHHHHHHHHHHHCCCCeEEeEEEEeCCCeEEEEEEEECC-CCCCCChHHHHHHHHHHHHhh
Confidence 468899999999999999999999999999999888 6899999887643 2333433 3455555443
No 12
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.99 E-value=6.2e-05 Score=58.52 Aligned_cols=68 Identities=16% Similarity=0.134 Sum_probs=54.9
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhcccccc-C---HHHHHHHHHHhhc
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLL-S---SEEIKQALFSNAG 347 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~i-s---~e~IkQAL~kaag 347 (353)
.|+|.+.+++|+|.+|..+|..+|+.|+.|.+++.++.++.++.+....++..+ + .+.|+++|.+++.
T Consensus 2 ~~~v~~~Dr~gLl~~i~~~l~~~~lnI~~A~i~t~~~~~~d~f~V~d~~~~~~~~~~~~~~~i~~~L~~~l~ 73 (74)
T cd04925 2 AIELTGTDRPGLLSEVFAVLADLHCNVVEARAWTHNGRLACVIYVRDEETGAPIDDPIRLASIEDRLDNVLR 73 (74)
T ss_pred EEEEEECCCCCHHHHHHHHHHHCCCcEEEEEEEEECCEEEEEEEEEcCcCCCCCCCHHHHHHHHHHHHHHhc
Confidence 588999999999999999999999999999999999999999887643212222 3 3677888877653
No 13
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=97.96 E-value=6.7e-06 Score=89.13 Aligned_cols=51 Identities=27% Similarity=0.434 Sum_probs=47.8
Q ss_pred CccchHHHHHHHHHHHHHHHhhhhcCCCC----CCCCccchhHHHHHHHHHHHHH
Q 038389 183 PSKNLMAERRRRKRLNDRLSMLRSIVPKI----SKMDRTSILGDTIDYLKELLER 233 (353)
Q Consensus 183 ~~~h~~~ER~RR~~in~~~~~LrslvP~~----~k~dKasIL~~ai~YIk~Lq~~ 233 (353)
+..|..+|||||++||..+.+|.+|||.. -|+||.+||..||.+||.+++.
T Consensus 21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence 77899999999999999999999999985 4999999999999999999884
No 14
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.90 E-value=8.5e-05 Score=70.57 Aligned_cols=62 Identities=23% Similarity=0.411 Sum_probs=50.8
Q ss_pred CCCccchHHHHHHHHHHHHHHHhhhhc-CCC-CCCCCccchhHHHHHHHHHHHHHHHHHHHHHH
Q 038389 181 GQPSKNLMAERRRRKRLNDRLSMLRSI-VPK-ISKMDRTSILGDTIDYLKELLERINKLQEEET 242 (353)
Q Consensus 181 ~~~~~h~~~ER~RR~~in~~~~~Lrsl-vP~-~~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~~ 242 (353)
.++..-.|.||||=+|+|+-|.+|+.- +++ ..+.-|..||..||+||..||.-++++.+..+
T Consensus 117 DRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~ 180 (284)
T KOG3960|consen 117 DRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK 180 (284)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence 344556899999999999999999443 333 46789999999999999999999988877543
No 15
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. This CD includes a novel, yet uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.79 E-value=0.00019 Score=55.79 Aligned_cols=64 Identities=20% Similarity=0.206 Sum_probs=54.5
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee-CCeEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF-NDFSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~-~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
.|-|.|++++|+|.+|..+|..+||+|+.|.|.+. +++++.++.+... ..-...++.++|++++
T Consensus 3 eI~V~~~Dr~gLFa~iag~L~~~~LnI~~A~i~tt~dG~~LDtF~V~d~---~~~~~~~~~~~~~~~~ 67 (68)
T cd04928 3 EITFAAGDKPKLLSQLSSLLGDLGLNIAEAHAFSTDDGLALDIFVVTGW---KRGETAALGHALQKEI 67 (68)
T ss_pred EEEEEECCCcchHHHHHHHHHHCCCceEEEEEEEcCCCeEEEEEEEecC---CccchHHHHHHHHHhh
Confidence 57888999999999999999999999999999866 6788998877743 3446789999999875
No 16
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.78 E-value=5.9e-05 Score=71.43 Aligned_cols=63 Identities=22% Similarity=0.357 Sum_probs=52.3
Q ss_pred cCCCCCccchHHHHHHHHHHHHHHHhhhhcCCCCC--CC-CccchhHHHHHHHHHHHHHHHHHHHH
Q 038389 178 KLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKIS--KM-DRTSILGDTIDYLKELLERINKLQEE 240 (353)
Q Consensus 178 ~~~~~~~~h~~~ER~RR~~in~~~~~LrslvP~~~--k~-dKasIL~~ai~YIk~Lq~~v~~L~~~ 240 (353)
...+.+..|+.-||+||..|++.|..|+.+||... +. ..++||..|..||+.|+.+..+....
T Consensus 55 ~~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~ 120 (232)
T KOG2483|consen 55 SAASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQD 120 (232)
T ss_pred CCCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHH
Confidence 34567889999999999999999999999999742 22 36899999999999999876655543
No 17
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=97.76 E-value=0.00014 Score=79.50 Aligned_cols=61 Identities=28% Similarity=0.547 Sum_probs=54.9
Q ss_pred CCCccchHHHHHHHHHHHHHHHhhhhcCCCC-CCCCccchhHHHHHHHHHHHHHHHHHHHHH
Q 038389 181 GQPSKNLMAERRRRKRLNDRLSMLRSIVPKI-SKMDRTSILGDTIDYLKELLERINKLQEEE 241 (353)
Q Consensus 181 ~~~~~h~~~ER~RR~~in~~~~~LrslvP~~-~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~ 241 (353)
.+|..|+++|||-|..||+++..|+.+||+. .|..|..+|..||+||++|+...+.++.+.
T Consensus 275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~ 336 (953)
T KOG2588|consen 275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLEN 336 (953)
T ss_pred cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhh
Confidence 5789999999999999999999999999974 689999999999999999998877766543
No 18
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_ACR-UUR-like_2, includes the second of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the second and fourth ACT domains of a novel protein composed almost entirely of ACT domain repeats, the ACR protein. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.72 E-value=0.00028 Score=53.07 Aligned_cols=65 Identities=23% Similarity=0.374 Sum_probs=50.8
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCH---HHHHHHHHHh
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSS---EEIKQALFSN 345 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~---e~IkQAL~ka 345 (353)
+|.|.+.+++|+|.+|+.+|.++++.|+++.+.+.++..+..+......+.. .+. +.|+++|.++
T Consensus 2 ~l~v~~~d~~gll~~i~~~l~~~~~~I~~~~~~~~~~~~~~~f~i~~~~~~~-~~~~~~~~i~~~l~~~ 69 (70)
T cd04899 2 VLELTALDRPGLLADVTRVLAELGLNIHSAKIATLGERAEDVFYVTDADGQP-LDPERQEALRAALGEA 69 (70)
T ss_pred EEEEEEcCCccHHHHHHHHHHHCCCeEEEEEEEecCCEEEEEEEEECCCCCc-CCHHHHHHHHHHHHhh
Confidence 5889999999999999999999999999999999888888877665443333 443 3455555543
No 19
>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.70 E-value=0.00028 Score=54.53 Aligned_cols=71 Identities=20% Similarity=0.327 Sum_probs=55.4
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhhccCCCCC
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAGYGGKCL 353 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag~gg~c~ 353 (353)
++|.|.+++++|+|.+|..+|.++|+.|++|.+.+.++..+.++.+... +...++. +..++|++.+| --||
T Consensus 2 tri~V~~~D~~Gll~~i~~~l~~~~lnI~sa~i~t~~~~~~d~f~v~~~-~~~~~~~-~~~~~l~~~l~--~~~~ 72 (72)
T cd04926 2 VRLELRTEDRVGLLSDVTRVFRENGLTVTRAEISTQGDMAVNVFYVTDA-NGNPVDP-KTIEAVRQEIG--PACL 72 (72)
T ss_pred eEEEEEECCccCHHHHHHHHHHHCCcEEEEEEEecCCCeEEEEEEEECC-CCCcCCH-HHHHHHHHHhc--cccC
Confidence 4688899999999999999999999999999999988877777766543 2223444 56667888877 4454
No 20
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.56 E-value=3.5e-05 Score=74.79 Aligned_cols=55 Identities=29% Similarity=0.478 Sum_probs=47.5
Q ss_pred CccchHHHHHHHHHHHHHHHhhhhcCCC--CCCCCccchhHHHHHHHHHHHHHHHHH
Q 038389 183 PSKNLMAERRRRKRLNDRLSMLRSIVPK--ISKMDRTSILGDTIDYLKELLERINKL 237 (353)
Q Consensus 183 ~~~h~~~ER~RR~~in~~~~~LrslvP~--~~k~dKasIL~~ai~YIk~Lq~~v~~L 237 (353)
+..-+.-||||=.-||..|..||+|+|. .-|..||.||+.+.+||.+|+.+.-+|
T Consensus 61 ReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~l 117 (373)
T KOG0561|consen 61 REIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTEL 117 (373)
T ss_pred HHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhccccc
Confidence 3445678999999999999999999997 568999999999999999998865443
No 21
>PRK05007 PII uridylyl-transferase; Provisional
Probab=97.34 E-value=0.00055 Score=76.01 Aligned_cols=70 Identities=19% Similarity=0.273 Sum_probs=59.5
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccC---HHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaag 347 (353)
....|+|.|.+|||||.+|.++|.++||+|+.|.|+|.++++.++|.+... .+..++ .+.|+++|..++.
T Consensus 807 ~~TvlEV~a~DRpGLL~~I~~~l~~~~l~I~~AkI~T~gera~DvFyV~~~-~g~~l~~~~~~~l~~~L~~~l~ 879 (884)
T PRK05007 807 RRSYMELIALDQPGLLARVGKIFADLGISLHGARITTIGERVEDLFILATA-DRRALNEELQQELRQRLTEALN 879 (884)
T ss_pred CeEEEEEEeCCchHHHHHHHHHHHHCCcEEEEEEEeccCceEEEEEEEEcC-CCCcCCHHHHHHHHHHHHHHHh
Confidence 456899999999999999999999999999999999999999999988754 334555 3677788877664
No 22
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.27 E-value=0.00052 Score=55.32 Aligned_cols=51 Identities=27% Similarity=0.560 Sum_probs=42.3
Q ss_pred HHHHHHHHhhhhcCCCC------CCCCccchhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 038389 195 KRLNDRLSMLRSIVPKI------SKMDRTSILGDTIDYLKELLERINKLQEEETELG 245 (353)
Q Consensus 195 ~~in~~~~~LrslvP~~------~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~~e~~ 245 (353)
+.|++.+..|+.|+|.. .|..-+-+|.||.+||+.|+.+|..|.++..++-
T Consensus 20 dqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL 76 (93)
T PLN03217 20 DQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELL 76 (93)
T ss_pred HHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999973 2333445899999999999999999999766553
No 23
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=97.13 E-value=0.0024 Score=46.80 Aligned_cols=63 Identities=19% Similarity=0.200 Sum_probs=47.6
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC--eEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND--FSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d--~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
.|.|.|+++||+|.+|..+|.++|+.|.++.+.+..+ ..+..+ .. ......+.+.++|+++.|
T Consensus 2 ~v~v~~~drpG~l~~v~~~la~~~inI~~~~~~~~~~~~~~~~~~-~~----~~~~~~~~~~~~l~~~~~ 66 (66)
T PF01842_consen 2 RVRVIVPDRPGILADVTEILADHGINIDSISQSSDKDGVGIVFIV-IV----VDEEDLEKLLEELEALPG 66 (66)
T ss_dssp EEEEEEETSTTHHHHHHHHHHHTTEEEEEEEEEEESSTTEEEEEE-EE----EEGHGHHHHHHHHHHHTT
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCHHHeEEEecCCCceEEEEE-EE----CCCCCHHHHHHHHHcccC
Confidence 5788999999999999999999999999999999887 222111 11 123456778888877653
No 24
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=97.06 E-value=0.0057 Score=45.33 Aligned_cols=64 Identities=25% Similarity=0.403 Sum_probs=47.7
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccC---HHHHHHHHHH
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS---SEEIKQALFS 344 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~k 344 (353)
.|.|.|.+++|+|.+|+.+|.++|+.|.++.+.+.++.....+.....++.. .+ .+.|+++|..
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~~~v~~~~~~~-~~~~~~~~l~~~l~~ 68 (70)
T cd04873 2 VVEVYAPDRPGLLADITRVLADLGLNIHDARISTTGERALDVFYVTDSDGRP-LDPERIARLEEALED 68 (70)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEECCCCCc-CCHHHHHHHHHHHHh
Confidence 5788999999999999999999999999999998877666666555432232 33 2345555543
No 25
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=97.06 E-value=0.0015 Score=72.38 Aligned_cols=69 Identities=17% Similarity=0.250 Sum_probs=58.4
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccC---HHHHHHHHHHhh
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNA 346 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaa 346 (353)
....|+|.+.+|||||.+|.++|.++|++|+.|.|+|.++++.++|.+.... +..++ .+.|+++|..++
T Consensus 782 ~~T~iev~a~DrpGLL~~I~~~l~~~~l~i~~AkI~T~gerv~D~Fyv~~~~-g~~l~~~~~~~l~~~L~~~l 853 (854)
T PRK01759 782 EQTEMELFALDRAGLLAQVSQVFSELNLNLLNAKITTIGEKAEDFFILTNQQ-GQALDEEERKALKSRLLSNL 853 (854)
T ss_pred CeEEEEEEeCCchHHHHHHHHHHHHCCCEEEEEEEcccCceEEEEEEEECCC-CCcCChHHHHHHHHHHHHHh
Confidence 4578999999999999999999999999999999999999999999887543 33444 367888887765
No 26
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=97.05 E-value=0.0024 Score=71.19 Aligned_cols=71 Identities=17% Similarity=0.237 Sum_probs=59.2
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccC---HHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaag 347 (353)
....|.|.+.++||||.+|..+|..+||+|+.|.|+|.++++++++.+....+....+ .+.|+++|.+++.
T Consensus 813 ~~T~i~V~a~DrpGLLa~I~~~L~~~~l~I~~AkI~T~g~~v~D~F~V~d~~g~~l~~~~~~~~l~~~L~~~L~ 886 (895)
T PRK00275 813 PVTVLEIIAPDRPGLLARIGRIFLEFDLSLQNAKIATLGERVEDVFFITDADNQPLSDPQLCSRLQDAICEQLD 886 (895)
T ss_pred CeEEEEEEECCCCCHHHHHHHHHHHCCCEEEEeEEEecCCEEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHh
Confidence 4568999999999999999999999999999999999999999999887553333223 2568888887763
No 27
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=96.91 E-value=0.00087 Score=63.02 Aligned_cols=59 Identities=20% Similarity=0.353 Sum_probs=50.3
Q ss_pred CCCccchHHHHHHHHHHHHHHHhhhhcCCC----CCCCCccchhHHHHHHHHHHHHHHHHHHH
Q 038389 181 GQPSKNLMAERRRRKRLNDRLSMLRSIVPK----ISKMDRTSILGDTIDYLKELLERINKLQE 239 (353)
Q Consensus 181 ~~~~~h~~~ER~RR~~in~~~~~LrslvP~----~~k~dKasIL~~ai~YIk~Lq~~v~~L~~ 239 (353)
..+..++..||+|=+.+|..|..||.+||. .+|..|..+|.-||.||+.|++-++.-+.
T Consensus 108 ~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~ 170 (228)
T KOG4029|consen 108 AQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEA 170 (228)
T ss_pred hhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhccccc
Confidence 345566777999999999999999999995 45789999999999999999987665554
No 28
>PRK04374 PII uridylyl-transferase; Provisional
Probab=96.85 E-value=0.0042 Score=69.06 Aligned_cols=69 Identities=23% Similarity=0.355 Sum_probs=58.4
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccC---HHHHHHHHHHhh
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNA 346 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaa 346 (353)
.-..|+|.+.++||||.+|..+|..+||+|+.|.|+|.++++++++.+....+. .++ .++|+++|..++
T Consensus 795 ~~t~leI~a~DrpGLLa~Ia~~l~~~~l~I~~AkI~T~g~~a~D~F~V~d~~g~-~~~~~~~~~l~~~L~~~l 866 (869)
T PRK04374 795 RRTRISLVAPDRPGLLADVAHVLRMQHLRVHDARIATFGERAEDQFQITDEHDR-PLSESARQALRDALCACL 866 (869)
T ss_pred CeEEEEEEeCCcCcHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEECCCCC-cCChHHHHHHHHHHHHHh
Confidence 457899999999999999999999999999999999999999999988654333 233 368888888776
No 29
>PRK05092 PII uridylyl-transferase; Provisional
Probab=96.79 E-value=0.0062 Score=68.14 Aligned_cols=71 Identities=20% Similarity=0.273 Sum_probs=59.4
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccC---HHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaag 347 (353)
....|.|.|.++||+|.+|..+|..+|++|..|.|+|.++.+++++.+....+....+ .+.|+++|.+++.
T Consensus 842 ~~t~i~I~~~DrpGLl~~I~~~l~~~gl~I~~A~I~T~~~~~~D~F~v~d~~g~~i~~~~~~~~l~~~L~~~L~ 915 (931)
T PRK05092 842 RFTVIEVNGRDRPGLLYDLTRALSDLNLNIASAHIATYGERAVDVFYVTDLFGLKITNEARQAAIRRALLAALA 915 (931)
T ss_pred CeEEEEEEECCcCcHHHHHHHHHHHCCceEEEEEEEEcCCEEEEEEEEeCCCCCcCCCHHHHHHHHHHHHHHhc
Confidence 3568999999999999999999999999999999999999999999886543333333 3678899888874
No 30
>PRK03059 PII uridylyl-transferase; Provisional
Probab=96.77 E-value=0.0039 Score=69.14 Aligned_cols=68 Identities=12% Similarity=0.206 Sum_probs=56.7
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccC---HHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaag 347 (353)
....|.|.|.++||||.+|..+|..+||+|+.|.|+|.++.+++++.+... ...+ .+.|+++|.+++.
T Consensus 785 ~~T~i~V~a~DrpGLLa~Ia~~L~~~~l~I~~AkI~T~~~~v~DvF~V~~~---~~~~~~~~~~l~~~L~~~L~ 855 (856)
T PRK03059 785 QYYILSVSANDRPGLLYAIARVLAEHRVSVHTAKINTLGERVEDTFLIDGS---GLSDNRLQIQLETELLDALA 855 (856)
T ss_pred CEEEEEEEeCCcchHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEcCC---CCCCHHHHHHHHHHHHHHhc
Confidence 456899999999999999999999999999999999999999999988422 1123 3678888877653
No 31
>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=96.60 E-value=0.014 Score=45.52 Aligned_cols=70 Identities=14% Similarity=0.085 Sum_probs=54.9
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhhc-cCCCC
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG-YGGKC 352 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag-~gg~c 352 (353)
+.|.+.|++++|+..+|-+.|.+.|..|+.++....++..+.....+.. ..+.++|+++|...+. +|-.|
T Consensus 2 ~iltv~g~Dr~GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~~~~----~~~~~~l~~~l~~~~~~~~l~i 72 (77)
T cd04893 2 LVISALGTDRPGILNELTRAVSESGCNILDSRMAILGTEFALTMLVEGS----WDAIAKLEAALPGLARRLDLTL 72 (77)
T ss_pred EEEEEEeCCCChHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEEEec----cccHHHHHHHHHHHHHHcCCEE
Confidence 5689999999999999999999999999999999988754444433332 2478899999988763 55443
No 32
>PRK03381 PII uridylyl-transferase; Provisional
Probab=96.50 E-value=0.01 Score=65.21 Aligned_cols=64 Identities=19% Similarity=0.317 Sum_probs=52.7
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccC--HHHHHHHH
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS--SEEIKQAL 342 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is--~e~IkQAL 342 (353)
...|+|.|.++||+|.+|..+|..+|++|+.|.|+|.++.+++++.+... ++..++ .+.|+++|
T Consensus 707 ~t~i~V~a~DrpGLla~Ia~~L~~~~lnI~~AkI~T~g~~a~D~F~V~d~-~g~~~~~~~~~l~~~L 772 (774)
T PRK03381 707 ATVLEVRAADRPGLLARLARALERAGVDVRWARVATLGADVVDVFYVTGA-AGGPLADARAAVEQAV 772 (774)
T ss_pred eEEEEEEeCCchhHHHHHHHHHHHCCCeEEEEEEeecCCeEEEEEEEECC-CCCcCchHHHHHHHHh
Confidence 47899999999999999999999999999999999999999999988754 333443 34444444
No 33
>PRK03381 PII uridylyl-transferase; Provisional
Probab=96.39 E-value=0.013 Score=64.31 Aligned_cols=70 Identities=10% Similarity=0.151 Sum_probs=59.0
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
+.+.|.|.|.++||++.+|..+|..+|++|+.|.|.+.++.++.++.+... .+.....+.|+++|.+++.
T Consensus 598 ~~~~V~V~~~DrpGLfa~i~~vL~~~glnI~dA~i~t~dg~~ld~F~V~~~-~~~~~~~~~l~~~L~~~L~ 667 (774)
T PRK03381 598 HMVEVTVVAPDRRGLLSKAAGVLALHRLRVRSASVRSHDGVAVLEFVVSPR-FGSPPDAALLRQDLRRALD 667 (774)
T ss_pred CeEEEEEEecCCccHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEECC-CCCcchHHHHHHHHHHHHc
Confidence 567899999999999999999999999999999999988898888877654 2233446889999888765
No 34
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=96.29 E-value=0.0093 Score=65.16 Aligned_cols=67 Identities=22% Similarity=0.357 Sum_probs=54.6
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHh
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSN 345 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~ka 345 (353)
....+++.+.+|||||..|-.+|..++|+|++|.|+|+|.++.+++++... .+..+ ..+++|.|.+.
T Consensus 790 ~~t~lEv~alDRpGLLa~v~~v~~dl~l~i~~AkItT~GErveD~F~vt~~-~~~~l-~~~~~q~l~~~ 856 (867)
T COG2844 790 DKTVLEVRALDRPGLLAALAGVFADLGLSLHSAKITTFGERVEDVFIVTDA-DGQAL-NAELRQSLLQR 856 (867)
T ss_pred CceEEEEEeCCcccHHHHHHHHHHhcccceeeeeeccccccceeEEEEecc-ccccC-CHHHHHHHHHH
Confidence 456899999999999999999999999999999999999999999988876 33344 34445554443
No 35
>PRK05007 PII uridylyl-transferase; Provisional
Probab=96.29 E-value=0.018 Score=64.27 Aligned_cols=79 Identities=19% Similarity=0.211 Sum_probs=60.6
Q ss_pred CCcceEEe--cceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC-eEEEEeehhhhccccccCH---HHHHHH
Q 038389 268 PKFDVERR--EIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND-FSLQASCSEAAERRTLLSS---EEIKQA 341 (353)
Q Consensus 268 p~VeVe~~--~~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d-~~l~a~~~e~~~~~~~is~---e~IkQA 341 (353)
|.|.++.. .+.+.|.|+|.+++|+|.+|..+|..+||+|+.|.|.+.++ .+++++.+....+. .++. +.|+++
T Consensus 689 p~V~i~~~~~~~~t~V~V~a~DrpGLfa~Ia~~La~~~L~I~~A~I~T~~dg~alD~F~V~d~~g~-~~~~~~~~~I~~~ 767 (884)
T PRK05007 689 PLVLLSKQATRGGTEIFIWSPDRPYLFAAVCAELDRRNLSVHDAQIFTSRDGMAMDTFIVLEPDGS-PLSQDRHQVIRKA 767 (884)
T ss_pred CeEEEEecCCCCeEEEEEEecCCcCHHHHHHHHHHHCCCEEEEEEEEEcCCCeEEEEEEEECCCCC-CCCHHHHHHHHHH
Confidence 44444432 34678999999999999999999999999999999987765 89999887765333 3443 457888
Q ss_pred HHHhhc
Q 038389 342 LFSNAG 347 (353)
Q Consensus 342 L~kaag 347 (353)
|.+++.
T Consensus 768 L~~aL~ 773 (884)
T PRK05007 768 LEQALT 773 (884)
T ss_pred HHHHHc
Confidence 887764
No 36
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=96.28 E-value=0.018 Score=63.74 Aligned_cols=71 Identities=17% Similarity=0.229 Sum_probs=57.8
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEe-eeCCeEEEEeehhhhccccccC---HHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVIS-CFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS-~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaag 347 (353)
..+.|.|.+.+++|+|.+|..+|..+||+|+.|.|+ +.++.+++++.+....+....+ .+.|+++|.+++.
T Consensus 667 ~~t~i~V~~~DrpgLla~i~~~L~~~~l~I~~A~I~tt~~g~~lD~F~V~~~~g~~~~~~~~~~~i~~~L~~~L~ 741 (850)
T TIGR01693 667 GGTEVFIYAPDQPGLFAKVAGALAMLSLSVHDAQVNTTKDGVALDTFVVQDLFGSPPAAERVFQELLQGLVDVLA 741 (850)
T ss_pred CeEEEEEEeCCCCcHHHHHHHHHHHCCCeEEEEEEEEecCCEEEEEEEEECCCCCCCCcHHHHHHHHHHHHHHHc
Confidence 456899999999999999999999999999999999 6688999999887653332222 3457888887775
No 37
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=96.25 E-value=0.014 Score=64.62 Aligned_cols=69 Identities=25% Similarity=0.305 Sum_probs=56.6
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccC---HHHHHHHHHHhh
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNA 346 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaa 346 (353)
....|+|.|.++||+|.+|.++|..+|++|.+|.|+|.++.+...+.+.... +..++ .+.|+++|..++
T Consensus 778 ~~t~~~v~~~DrpGll~~i~~~l~~~~~~i~~a~i~t~~~~~~d~F~v~~~~-g~~~~~~~~~~l~~~L~~~l 849 (850)
T TIGR01693 778 KATIMEVRALDRPGLLARVGRTLEELGLSIQSAKITTFGEKAEDVFYVTDLF-GLKLTDEEEQRLLEVLAASV 849 (850)
T ss_pred CeEEEEEEECCccHHHHHHHHHHHHCCCeEEEEEEEecCccceeEEEEECCC-CCCCCHHHHHHHHHHHHHHh
Confidence 3578999999999999999999999999999999999999888888776432 22333 467888877664
No 38
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=96.24 E-value=0.022 Score=44.30 Aligned_cols=66 Identities=17% Similarity=0.138 Sum_probs=50.1
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
.+.|.+.+++|||++..|..+|.+.|..|..++.+..++...-...++.. .-+.++|+.+|.+.+.
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~----~~~~~~l~~~L~~l~~ 67 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIP----EDSLERLESALEELAE 67 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEES----HHHHHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeC----cccHHHHHHHHHHHHH
Confidence 46799999999999999999999999999999999999954334433332 2266889999988754
No 39
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=96.21 E-value=0.02 Score=63.58 Aligned_cols=70 Identities=24% Similarity=0.317 Sum_probs=57.1
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEee-eCCeEEEEeehhhhccccccCH---HHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISC-FNDFSLQASCSEAAERRTLLSS---EEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~-~~d~~l~a~~~e~~~~~~~is~---e~IkQAL~kaag 347 (353)
+.+.|.|.|.+++|+|.+|..+|..+||+|+.|.|.+ .++.+++++.+...++. .++. +.|+++|.+++.
T Consensus 676 ~~t~V~V~~~DrpGLfa~Ia~~L~~~~L~I~~A~I~T~~~g~alD~F~V~d~~g~-~~~~~~~~~l~~~L~~aL~ 749 (854)
T PRK01759 676 GGTEIFIYCQDQANLFLKVVSTIGAKKLSIHDAQIITSQDGYVLDSFIVTELNGK-LLEFDRRRQLEQALTKALN 749 (854)
T ss_pred CeEEEEEEecCCccHHHHHHHHHHHCCCeEEEEEEEEccCCEEEEEEEEeCCCCC-CCCHHHHHHHHHHHHHHHc
Confidence 5578999999999999999999999999999999977 78899999988765333 3443 357777777664
No 40
>PRK00194 hypothetical protein; Validated
Probab=95.94 E-value=0.03 Score=44.52 Aligned_cols=68 Identities=13% Similarity=0.150 Sum_probs=50.5
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
...|.|.|+++||++.+|...|-+.|+.|+..+..+.++...-.+..+.. ....+.++|++.|.+...
T Consensus 3 ~~~ltv~g~DrpGiva~vt~~la~~g~nI~~~~~~~~~~~~~~~~~v~~~--~~~~~~~~l~~~l~~l~~ 70 (90)
T PRK00194 3 KAIITVIGKDKVGIIAGVSTVLAELNVNILDISQTIMDGYFTMIMLVDIS--ESKKDFAELKEELEELGK 70 (90)
T ss_pred eEEEEEEcCCCCCHHHHHHHHHHHcCCCEEehhhHhhCCeeEEEEEEEec--CCCCCHHHHHHHHHHHHH
Confidence 45789999999999999999999999999998887766633222222321 113567899988887654
No 41
>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=95.69 E-value=0.09 Score=40.53 Aligned_cols=68 Identities=7% Similarity=0.155 Sum_probs=50.1
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC------CeEEEEeehhhhccccccCHHHHHHHHHHhhc-cCCC
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN------DFSLQASCSEAAERRTLLSSEEIKQALFSNAG-YGGK 351 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~------d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag-~gg~ 351 (353)
|.|.|.+++|++.+|-+.|.+.|+.|...+..+.+ +...-.+.... ....+..+|+++|..... +|..
T Consensus 2 l~v~g~D~~Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~---p~~~~~~~l~~~l~~l~~~~~~~ 76 (81)
T cd04869 2 VEVVGNDRPGIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLAL---PAGTDLDALREELEELCDDLNVD 76 (81)
T ss_pred EEEEeCCCCCHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEec---CCCCCHHHHHHHHHHHHHHhcce
Confidence 68999999999999999999999999999988876 22111111222 124678999999988763 4433
No 42
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=95.67 E-value=0.07 Score=40.87 Aligned_cols=65 Identities=17% Similarity=0.184 Sum_probs=47.1
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee-CCeEEEEeehhhhcccc-ccCHHHHHHHHHHhhc
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF-NDFSLQASCSEAAERRT-LLSSEEIKQALFSNAG 347 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~-~d~~l~a~~~e~~~~~~-~is~e~IkQAL~kaag 347 (353)
|.|.|++++|++.+|.+.|-++|+.|+.....+. .+..+.+... .. ... ..+.++|+++|.....
T Consensus 2 i~v~g~D~~Giv~~it~~l~~~g~nI~~~~~~~~~~~~~f~~~~~-~~-~~~~~~~~~~l~~~l~~l~~ 68 (74)
T cd04875 2 LTLSCPDRPGIVAAVSGFLAEHGGNIVESDQFVDPDSGRFFMRVE-FE-LEGFDLSREALEAAFAPVAA 68 (74)
T ss_pred EEEEcCCCCCHHHHHHHHHHHcCCCEEeeeeeecCCCCeEEEEEE-EE-eCCCCCCHHHHHHHHHHHHH
Confidence 7899999999999999999999999999887753 2222333211 11 112 2678999999988763
No 43
>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=95.54 E-value=0.053 Score=43.10 Aligned_cols=67 Identities=12% Similarity=0.169 Sum_probs=50.7
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
..|.+.|+++||++..|.+.|-++|+.|.+.+..+.++..+-....... ....+.++|+++|.+...
T Consensus 2 ~vl~i~g~D~pGiva~vt~~la~~g~nI~~~~~~~~~~~f~~~~~v~~~--~~~~~~~~L~~~l~~l~~ 68 (88)
T cd04872 2 AVITVVGKDRVGIVAGVSTKLAELNVNILDISQTIMDGYFTMIMIVDIS--ESNLDFAELQEELEELGK 68 (88)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHcCCCEEechhHhhCCccEEEEEEEeC--CCCCCHHHHHHHHHHHHH
Confidence 4689999999999999999999999999999888876632222222221 114678899988888763
No 44
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=95.54 E-value=0.052 Score=60.69 Aligned_cols=71 Identities=20% Similarity=0.252 Sum_probs=55.7
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEe-eeCCeEEEEeehhhhccccccC----HHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVIS-CFNDFSLQASCSEAAERRTLLS----SEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS-~~~d~~l~a~~~e~~~~~~~is----~e~IkQAL~kaag 347 (353)
+.+.|.|.|.+++|+|++|..+|..+||+|+.|.|. +.+|++++++.+....+..... .+.|+++|.+++.
T Consensus 703 ~~t~V~V~~~DrpgLFa~i~g~L~~~~lnI~~A~I~Tt~dg~alD~F~V~d~~g~~~~~~~~r~~~i~~~L~~~L~ 778 (895)
T PRK00275 703 GGTQIFIYAPDQHDFFAATVAAMDQLNLNIHDARIITSSSQFTLDTYIVLDDDGEPIGDNPARIEQIREGLTEALR 778 (895)
T ss_pred CeEEEEEEeCCCCcHHHHHHHHHHHCCCeEEEEEEEEcCCCeEEEEEEEeCCCCCCccchHHHHHHHHHHHHHHHc
Confidence 467899999999999999999999999999999985 5567899998877653332122 2457777777653
No 45
>PRK05092 PII uridylyl-transferase; Provisional
Probab=95.36 E-value=0.07 Score=59.85 Aligned_cols=70 Identities=16% Similarity=0.121 Sum_probs=55.4
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEee-eCCeEEEEeehhhhccccccC---HHHHHHHHHHhh
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISC-FNDFSLQASCSEAAERRTLLS---SEEIKQALFSNA 346 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~-~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaa 346 (353)
+.+.|.|.|.+++|+|.+|..+|..+|++|+.|.|.+ .++++++++.+....+....+ .+.|+++|.+++
T Consensus 731 ~~t~v~I~~~Dr~GLfa~i~~~L~~~glnI~~A~I~t~~dg~alD~F~V~~~~g~~~~~~~~~~~l~~~L~~~l 804 (931)
T PRK05092 731 GVTEVTVLAADHPGLFSRIAGACAAAGANIVDARIFTTTDGRALDTFWIQDAFGRDEDEPRRLARLAKAIEDAL 804 (931)
T ss_pred CeEEEEEEeCCCCcHHHHHHHHHHHCCCcEEEEEEEEecCCeEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHH
Confidence 4678999999999999999999999999999999987 577888888765432322122 456777887766
No 46
>PRK03059 PII uridylyl-transferase; Provisional
Probab=95.14 E-value=0.078 Score=59.06 Aligned_cols=70 Identities=10% Similarity=0.158 Sum_probs=55.2
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEe-eeCCeEEEEeehhhhccccccC---HHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVIS-CFNDFSLQASCSEAAERRTLLS---SEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS-~~~d~~l~a~~~e~~~~~~~is---~e~IkQAL~kaag 347 (353)
+.+.|.|.|.+++|++++|..+|..+||+|+.|.|. +.+|++++++.+....+. ... .+.|+++|.+++.
T Consensus 677 ~~~~v~i~~~d~~gLFa~i~g~l~~~~l~I~~A~i~t~~~g~~ld~f~V~~~~~~-~~~~~~~~~i~~~l~~~l~ 750 (856)
T PRK03059 677 EGLQVMVYTPDQPDLFARICGYFDRAGFSILDARVHTTRHGYALDTFQVLDPEED-VHYRDIINLVEHELAERLA 750 (856)
T ss_pred CeEEEEEEecCCCcHHHHHHHHHHHCCCceeeeEEEEcCCCeEEEEEEEeCCCCC-CChHHHHHHHHHHHHHHHc
Confidence 567899999999999999999999999999999995 567899999987654222 112 3567777776653
No 47
>PRK04374 PII uridylyl-transferase; Provisional
Probab=94.95 E-value=0.091 Score=58.65 Aligned_cols=71 Identities=14% Similarity=0.088 Sum_probs=55.9
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEee-eCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISC-FNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~-~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
+.+.|.|.|.+++|++++|..+|..+||+|+.|.|.+ .+|.+++++.+....+...-....|+++|.+++.
T Consensus 689 ~~~~v~v~~~d~~gLFa~i~g~l~~~~lnI~~A~i~t~~~g~~ld~f~V~~~~~~~~~~~~~i~~~l~~~l~ 760 (869)
T PRK04374 689 DALEVFVYSPDRDGLFAAIVATLDRKGYGIHRARVLDAPHDAIFDVFEVLPQDTYADGDPQRLAAALRQVLA 760 (869)
T ss_pred CeEEEEEEeCCCccHHHHHHHHHHHCCCeEEEEEEEEcCCCEEEEEEEEeCCCCCChHHHHHHHHHHHHHHc
Confidence 5678999999999999999999999999999999997 4778999998765433211224557777776653
No 48
>cd04894 ACT_ACR-like_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.81 E-value=0.13 Score=39.59 Aligned_cols=66 Identities=20% Similarity=0.162 Sum_probs=51.0
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHh
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSN 345 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~ka 345 (353)
.|.|.|+++.||=.++...+-+.||.|+.+.+++.+..-+-++-+........+.=+-||+.|..+
T Consensus 2 vitvnCPDktGLgcdlcr~il~fGl~i~rgd~sTDGkWCyiv~wVv~~~~~~~~rW~lLK~RL~~~ 67 (69)
T cd04894 2 VITINCPDKTGLGCDLCRIILEFGLNITRGDDSTDGRWCYIVFWVVPRPPSIKVRWDLLKNRLMSA 67 (69)
T ss_pred EEEEeCCCccCcccHHHHHHHHhceEEEecccccCCcEEEEEEEEecCCCCCcccHHHHHHHHHhc
Confidence 589999999999999999999999999999999999855444433332122345567888888654
No 49
>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=94.39 E-value=0.29 Score=37.67 Aligned_cols=63 Identities=21% Similarity=0.266 Sum_probs=49.1
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC-eEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND-FSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d-~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
|.|.+.+|||++.+|.++|.++|++|...+.++..+ |++.. .+.. ....+.++|+++|.....
T Consensus 2 vtv~G~DrpGiv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~-~v~~---p~~~~~~~l~~~l~~l~~ 65 (75)
T cd04870 2 ITVTGPDRPGLTSALTEVLAAHGVRILDVGQAVIHGRLSLGI-LVQI---PDSADSEALLKDLLFKAH 65 (75)
T ss_pred EEEEcCCCCCHHHHHHHHHHHCCCCEEecccEEEcCeeEEEE-EEEc---CCCCCHHHHHHHHHHHHH
Confidence 688899999999999999999999999998888876 34433 2222 122578999999887763
No 50
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=94.19 E-value=0.035 Score=49.56 Aligned_cols=52 Identities=27% Similarity=0.416 Sum_probs=44.9
Q ss_pred CCccchHHHHHHHHHHHHHHHhhhhcCCC--CCCCCccchhHHHHHHHHHHHHH
Q 038389 182 QPSKNLMAERRRRKRLNDRLSMLRSIVPK--ISKMDRTSILGDTIDYLKELLER 233 (353)
Q Consensus 182 ~~~~h~~~ER~RR~~in~~~~~LrslvP~--~~k~dKasIL~~ai~YIk~Lq~~ 233 (353)
++.-|++.||+|-..||+-|.+||.++|. ..|..|.--|.-|..||-.|-+-
T Consensus 78 qrv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~v 131 (173)
T KOG4447|consen 78 QRVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQV 131 (173)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhc
Confidence 56678999999999999999999999996 46777777899999999988653
No 51
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=93.89 E-value=0.63 Score=35.92 Aligned_cols=37 Identities=22% Similarity=0.347 Sum_probs=31.8
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
.+.|+|.+.+++|+|.+|..++.+.|+.|.+.++...
T Consensus 6 ~~~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~ 42 (80)
T PF13291_consen 6 PVRLRIEAEDRPGLLADITSVISENGVNIRSINARTN 42 (80)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE-
T ss_pred EEEEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEe
Confidence 4678999999999999999999999999999999885
No 52
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=92.48 E-value=0.79 Score=34.46 Aligned_cols=35 Identities=14% Similarity=0.207 Sum_probs=31.5
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN 315 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~ 315 (353)
|+|.+.+++|+|.+|+.+|.+.|..|...++....
T Consensus 2 l~v~~~d~~g~L~~i~~~i~~~~~nI~~v~~~~~~ 36 (74)
T cd04887 2 LRLELPNRPGMLGRVTTAIGEAGGDIGAIDLVEQG 36 (74)
T ss_pred EEEEeCCCCchHHHHHHHHHHcCCcEEEEEEEEec
Confidence 67888999999999999999999999988877664
No 53
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=92.38 E-value=0.64 Score=33.89 Aligned_cols=34 Identities=15% Similarity=0.227 Sum_probs=29.1
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
+.|.++++||.|.+|+.+|.+.|++|.+......
T Consensus 1 ~~v~~~d~~G~L~~i~~~i~~~~~nI~~i~~~~~ 34 (73)
T cd04886 1 LRVELPDRPGQLAKLLAVIAEAGANIIEVSHDRA 34 (73)
T ss_pred CEEEeCCCCChHHHHHHHHHHcCCCEEEEEEEec
Confidence 3577899999999999999999999997766543
No 54
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=91.98 E-value=0.08 Score=55.04 Aligned_cols=58 Identities=17% Similarity=0.225 Sum_probs=45.9
Q ss_pred CCCccchHHHHHHHHHHHHHHHhhhhcCCCCCCC----CccchhHHHHHHHHHHHHHHHHHH
Q 038389 181 GQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKM----DRTSILGDTIDYLKELLERINKLQ 238 (353)
Q Consensus 181 ~~~~~h~~~ER~RR~~in~~~~~LrslvP~~~k~----dKasIL~~ai~YIk~Lq~~v~~L~ 238 (353)
.+++.+++.||-|=..||+-|++|-.+.----|. -|.-||..|+.-|-.|++||.+-.
T Consensus 525 ERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN 586 (632)
T KOG3910|consen 525 ERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN 586 (632)
T ss_pred HHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence 3567778888888899999999997765322233 477899999999999999997643
No 55
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=91.71 E-value=0.73 Score=45.17 Aligned_cols=68 Identities=18% Similarity=0.211 Sum_probs=49.8
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEe---eeCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVIS---CFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS---~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
.+.|.|.|++++|+...|-..|-+.|+.|++.+.. ..+.|.+..-.... ....++.++|+++|.....
T Consensus 9 ~~iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d~~~~~ffm~i~~~~~--~~~~~~~~~l~~~l~~l~~ 79 (289)
T PRK13010 9 SYVLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDDDESGRFFMRVSFHAQ--SAEAASVDTFRQEFQPVAE 79 (289)
T ss_pred CEEEEEECCCCCCcHHHHHHHHHHCCCCEEecccccccccCcEEEEEEEEcC--CCCCCCHHHHHHHHHHHHH
Confidence 45799999999999999999999999999998884 33344433222211 1224688999999887643
No 56
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=91.15 E-value=0.18 Score=53.11 Aligned_cols=44 Identities=39% Similarity=0.628 Sum_probs=38.7
Q ss_pred cchHHHHHHHHHHHHHHHhhhhcCCC----CCCCCccchhHHHHHHHH
Q 038389 185 KNLMAERRRRKRLNDRLSMLRSIVPK----ISKMDRTSILGDTIDYLK 228 (353)
Q Consensus 185 ~h~~~ER~RR~~in~~~~~LrslvP~----~~k~dKasIL~~ai~YIk 228 (353)
.+.---||-|+|||.-|..|.+|||- ++|.||.|||.=++.|++
T Consensus 28 tkSNPSKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 28 TKSNPSKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred ccCCcchhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHH
Confidence 44556678899999999999999996 589999999999999975
No 57
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. Members of this CD belong to the superfamily of ACT regulatory domains. Pairs of ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. The ACT domain has been detected in a number of diverse proteins; some of these proteins are involved in amino acid and purine biosynthesis, phenylalanine hydroxylation, regulation of bacterial metabolism and transcription, and many remain to be characterized. ACT domain-containing enzymes involved in amino acid and purine synthesis are in many cases allosteric enzymes with complex regulation enforced by the binding of ligands. The ACT domain is commonly involved in the binding of a small regulatory molecule, such as the amino acids L-Ser and L-Phe in the case of D-3-phosphoglycerate dehydrogenase and the bifunctional chorismate mutase-p
Probab=90.95 E-value=0.97 Score=29.77 Aligned_cols=34 Identities=21% Similarity=0.378 Sum_probs=29.9
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
|.|.|.+++|.+.+|+..|...++.|........
T Consensus 1 i~i~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~ 34 (60)
T cd02116 1 LTVSGPDRPGLLAKVLSVLAEAGINITSIEQRTS 34 (60)
T ss_pred CEEEecCCCchHHHHHHHHHHCCCcEEEEEeEEc
Confidence 4678889999999999999999999998877654
No 58
>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=90.68 E-value=0.95 Score=34.05 Aligned_cols=65 Identities=11% Similarity=0.096 Sum_probs=42.1
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC-C-eEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN-D-FSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~-d-~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
+.+.|.+.+++|+|.+|+.+|.+.+.+|...+.+... + ..+. +..+.. +.....+.|..+|++.-
T Consensus 1 ~~l~i~~~d~~g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~-~~v~v~--~~~~~l~~l~~~L~~i~ 67 (76)
T cd04888 1 VTLSLLLEHRPGVLSKVLNTIAQVRGNVLTINQNIPIHGRANVT-ISIDTS--TMNGDIDELLEELREID 67 (76)
T ss_pred CEEEEEecCCCchHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEE-EEEEcC--chHHHHHHHHHHHhcCC
Confidence 3578889999999999999999999999987665432 3 2232 222221 11124466666666543
No 59
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=90.13 E-value=1.2 Score=43.43 Aligned_cols=62 Identities=15% Similarity=0.114 Sum_probs=47.7
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC--C-eEEEEeehhhhccccccCHHHHHHHHHH
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN--D-FSLQASCSEAAERRTLLSSEEIKQALFS 344 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~--d-~~l~a~~~e~~~~~~~is~e~IkQAL~k 344 (353)
.|.+.|++++|+...|-..|-+.|..|+..+.+... + |++ ....+. ....++.++|+++|..
T Consensus 2 ~itv~g~D~~GIVA~Vt~~La~~g~NI~d~sq~~~~~~~~F~m-r~~v~~--~~~~~~~~~l~~~l~~ 66 (280)
T TIGR00655 2 ILLVSCPDQKGLVAAISTFIAKHGANIISNDQHTDPETGRFFM-RVEFQL--EGFRLEESSLLAAFKS 66 (280)
T ss_pred EEEEECCCCCChHHHHHHHHHHCCCCEEeeeEEEcCCCCeEEE-EEEEEe--CCCCCCHHHHHHHHHH
Confidence 478999999999999999999999999999888753 4 333 222222 1224788999999988
No 60
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=89.40 E-value=2.2 Score=31.69 Aligned_cols=61 Identities=15% Similarity=0.241 Sum_probs=41.0
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee--CCeEEEEeehhhhccccccCHHHHHHHHHHh
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF--NDFSLQASCSEAAERRTLLSSEEIKQALFSN 345 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~--~d~~l~a~~~e~~~~~~~is~e~IkQAL~ka 345 (353)
.+|.+..++++|.|.++++.|.+.|+.|.+...... .+...-.+..+. .+.++++++|.+.
T Consensus 2 ~~~~v~~~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~------~~~~~~~~~L~~~ 64 (72)
T cd04883 2 SQIEVRVPDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQT------MNPRPIIEDLRRA 64 (72)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEec------CCHHHHHHHHHHC
Confidence 467788899999999999999999999986644322 123222222221 3355888887654
No 61
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=89.34 E-value=1.5 Score=30.63 Aligned_cols=35 Identities=17% Similarity=0.236 Sum_probs=30.3
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN 315 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~ 315 (353)
|+|.|.+++|.+.+|+..|.+.++++....+...+
T Consensus 1 l~v~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~~ 35 (71)
T cd04876 1 IRVEAIDRPGLLADITTVIAEEKINILSVNTRTDD 35 (71)
T ss_pred CEEEEeccCcHHHHHHHHHHhCCCCEEEEEeEECC
Confidence 46778899999999999999999999988776554
No 62
>cd04881 ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains. The ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) encoded by the hom gene of Bacillus subtilis and other related sequences. HSDH reduces aspartate semi-aldehyde to the amino acid homoserine, one that is required for the biosynthesis of Met, Thr, and Ile from Asp. Neither the enzyme nor the aspartate pathway is found in the animal kingdom. This mostly bacterial HSDH group has a C-terminal ACT domain and is believed to be involved in enzyme regulation. A C-terminal deletion in the Corynebacterium glutamicum HSDH abolished allosteric inhibition by L-threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=89.20 E-value=3.6 Score=30.28 Aligned_cols=35 Identities=20% Similarity=0.350 Sum_probs=31.3
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
.|.|.+.+++|+|.+|+..|.+.+..+........
T Consensus 2 yl~i~~~d~~g~l~~i~~~l~~~~i~I~~~~~~~~ 36 (79)
T cd04881 2 YLRLTVKDKPGVLAKITGILAEHGISIESVIQKEA 36 (79)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHcCCCeEEEEEccc
Confidence 57888999999999999999999999998776654
No 63
>PRK04435 hypothetical protein; Provisional
Probab=88.59 E-value=1.5 Score=38.60 Aligned_cols=72 Identities=13% Similarity=0.043 Sum_probs=49.1
Q ss_pred EecceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee-CCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 274 RREIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF-NDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 274 ~~~~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~-~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
..+..+.|.+.+.+++|+|.+|+++|.+.|..|...+.+.. ++...-.+..+. .+.....++|.++|.+.-|
T Consensus 65 ~~~r~vtL~i~l~Dr~GlLs~Il~~IA~~~aNIltI~q~i~~~g~a~vs~tVev--s~~~~~L~~Li~~L~~i~g 137 (147)
T PRK04435 65 VKGKIITLSLLLEDRSGTLSKVLNVIAEAGGNILTINQSIPLQGRANVTISIDT--SSMEGDIDELLEKLRNLDG 137 (147)
T ss_pred CCCcEEEEEEEEecCCCHHHHHHHHHHHcCCCeEEEEEEcCCCCEEEEEEEEEe--CChHHHHHHHHHHHHcCCC
Confidence 35788999999999999999999999999999998776543 342211222222 1222356677777765533
No 64
>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, and related domains. This CD includes the N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, from Archaeoglobus fulgidus and other related archeal ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=88.56 E-value=3 Score=30.34 Aligned_cols=35 Identities=20% Similarity=0.193 Sum_probs=30.9
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
.|.|.+.+++|.|.+|+..|.+.+..|.+......
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~ 36 (72)
T cd04874 2 ALSIIAEDKPGVLRDLTGVIAEHGGNITYTQQFIE 36 (72)
T ss_pred eEEEEeCCCCChHHHHHHHHHhCCCCEEEEEEecc
Confidence 46788999999999999999999999998776655
No 65
>cd04877 ACT_TyrR N-terminal ACT domain of the TyrR protein. ACT_TyrR: N-terminal ACT domain of the TyrR protein. The TyrR protein of Escherichia coli controls the expression of a group of transcription units (TyrR regulon) whose gene products are involved in the biosynthesis or transport of the aromatic amino acids. Binding to specific DNA sequences known as TyrR boxes, the TyrR protein can either activate or repress transcription at different sigma70 promoters. Its regulatory activity occurs in response to intracellular levels of tyrosine, phenylalanine and tryptophan. The TyrR protein consists of an N-terminal region important for transcription activation with an ATP-independent aromatic amino acid binding site (contained within the ACT domain) and is involved in dimerization; a central region with an ATP binding site, an ATP-dependent aromatic amino acid binding site and is involved in hexamerization; and a helix turn helix DNA binding C-terminal region. In solution, in the absence
Probab=87.65 E-value=3.7 Score=31.33 Aligned_cols=35 Identities=17% Similarity=0.366 Sum_probs=31.9
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
.|+|.|.+++|+|.+|+.++.+.+..+...++.+.
T Consensus 2 ~l~I~~~dr~Gll~dI~~~i~~~~~nI~~~~~~~~ 36 (74)
T cd04877 2 RLEITCEDRLGITQEVLDLLVEHNIDLRGIEIDPK 36 (74)
T ss_pred EEEEEEEccchHHHHHHHHHHHCCCceEEEEEecC
Confidence 57899999999999999999999999998888664
No 66
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=87.28 E-value=3.3 Score=40.42 Aligned_cols=67 Identities=16% Similarity=0.253 Sum_probs=50.1
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEee--eCC-eEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISC--FND-FSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~--~~d-~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
.+.|.+.|.+|+|+...|-+.|.++|+.|...+.++ .++ |.+...+ .. .....+.++|+++|.....
T Consensus 6 ~~vitv~G~DrpGIVa~Vt~~La~~g~NI~d~s~~~~~~~g~F~m~i~v-~~--~~~~~~~~~L~~~L~~l~~ 75 (286)
T PRK06027 6 RYVLTLSCPDRPGIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEF-EG--DGLIFNLETLRADFAALAE 75 (286)
T ss_pred eEEEEEECCCCCcHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEE-Ee--CCCCCCHHHHHHHHHHHHH
Confidence 467899999999999999999999999999999988 666 3332221 11 1123457888888877643
No 67
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=87.21 E-value=3.8 Score=29.40 Aligned_cols=61 Identities=16% Similarity=0.174 Sum_probs=43.5
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC--CeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN--DFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~--d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
+.|...+++|.|.+|+..|.+.|+.|.+..+.... +...-.+..+ . ...++|.+.|++.-|
T Consensus 2 l~v~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v~----~--~~~~~l~~~l~~~~~ 64 (71)
T cd04879 2 LLIVHKDVPGVIGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDVD----S--PVPEEVLEELKALPG 64 (71)
T ss_pred EEEEecCCCCHHHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEcC----C--CCCHHHHHHHHcCCC
Confidence 56788999999999999999999999988877654 4433333222 1 135677777776543
No 68
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=86.75 E-value=0.65 Score=47.58 Aligned_cols=44 Identities=34% Similarity=0.434 Sum_probs=38.5
Q ss_pred hHHHHHHHHHHHHHHHhhhhcCCCC----CCCCccchhHHHHHHHHHH
Q 038389 187 LMAERRRRKRLNDRLSMLRSIVPKI----SKMDRTSILGDTIDYLKEL 230 (353)
Q Consensus 187 ~~~ER~RR~~in~~~~~LrslvP~~----~k~dKasIL~~ai~YIk~L 230 (353)
.-+-|.||++-|--|..|..+||-. +..||++|+.=|..|||.-
T Consensus 6 KnaA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 6 KNAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred hhHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence 3567999999999999999999963 5689999999999999853
No 69
>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=86.08 E-value=3.9 Score=29.48 Aligned_cols=34 Identities=21% Similarity=0.241 Sum_probs=27.8
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
|.|.-++++|.|.+++..|.+.|+.|.+......
T Consensus 2 i~v~~~d~pG~L~~i~~~l~~~~~nI~~i~~~~~ 35 (65)
T cd04882 2 LAVEVPDKPGGLHEILQILSEEGINIEYMYAFVE 35 (65)
T ss_pred EEEEeCCCCcHHHHHHHHHHHCCCChhheEEEcc
Confidence 4566689999999999999999999986655433
No 70
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). 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. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=85.81 E-value=5 Score=29.69 Aligned_cols=35 Identities=17% Similarity=0.301 Sum_probs=29.8
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
.+.+.+++++|.|.++++.|.+.|+.|....+...
T Consensus 3 ~~~v~~~d~~G~L~~l~~~l~~~~i~i~~~~~~~~ 37 (69)
T cd04909 3 DLYVDVPDEPGVIAEVTQILGDAGISIKNIEILEI 37 (69)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCceeeEeEEe
Confidence 36778899999999999999999999987665554
No 71
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=85.57 E-value=0.48 Score=51.26 Aligned_cols=47 Identities=34% Similarity=0.482 Sum_probs=40.5
Q ss_pred CccchHHHHHHHHHHHHHHHhhhhcCCC----CCCCCccchhHHHHHHHHH
Q 038389 183 PSKNLMAERRRRKRLNDRLSMLRSIVPK----ISKMDRTSILGDTIDYLKE 229 (353)
Q Consensus 183 ~~~h~~~ER~RR~~in~~~~~LrslvP~----~~k~dKasIL~~ai~YIk~ 229 (353)
+.+-.-+-|-||.|-|+-|..|..+||- .+..|||||+.=||.|++-
T Consensus 47 kEkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 47 KEKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 4445678899999999999999999995 3578999999999999874
No 72
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=85.40 E-value=3.8 Score=40.06 Aligned_cols=66 Identities=14% Similarity=0.169 Sum_probs=48.7
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee-CC--eEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF-ND--FSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~-~d--~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
.+.|.|.|.+++|+..+|-..|-++|++|...+..+. .+ |.+.+.+. . ....+.++|+++|...+.
T Consensus 7 ~~vitv~G~DrpGIVa~VT~~La~~~vNI~dls~~~~~~~~~F~m~~~~~-~---p~~~~~~~L~~~L~~l~~ 75 (286)
T PRK13011 7 TFVLTLSCPSAAGIVAAVTGFLAEHGCYITELHSFDDRLSGRFFMRVEFH-S---EEGLDEDALRAGFAPIAA 75 (286)
T ss_pred eEEEEEEeCCCCCHHHHHHHHHHhCCCCEEEeeeeecCCCCeEEEEEEEe-c---CCCCCHHHHHHHHHHHHH
Confidence 4678999999999999999999999999998887633 22 44433321 1 123678899988877643
No 73
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=85.34 E-value=2.9 Score=46.42 Aligned_cols=72 Identities=14% Similarity=0.159 Sum_probs=54.2
Q ss_pred ecceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee-CCeEEEEeehhhhccccccCH---HHHHHHHHHhhc
Q 038389 275 REIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF-NDFSLQASCSEAAERRTLLSS---EEIKQALFSNAG 347 (353)
Q Consensus 275 ~~~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~-~d~~l~a~~~e~~~~~~~is~---e~IkQAL~kaag 347 (353)
......|.|.|+++|.++..|..++...|++|+.|.|-+. +|+.++++.+... ++..+.. ..+.++|..++.
T Consensus 681 ~~~~teV~V~a~d~p~Lfa~v~~~~~~~g~~i~dAqi~tt~dG~alDtfiv~~~-~g~~~~~dr~~~~~~~l~~~l~ 756 (867)
T COG2844 681 HSGGTEVFVYAPDRPRLFAVVCAALSRRGLSIVDAQIFTTRDGYALDTFIVLEP-DGFPVEEDRRAALRGELIEALL 756 (867)
T ss_pred cCCceEEEEEcCCCccHHHHHHHHHccCCCceeeeEEEEccCCceeeeEEEecC-CCCccchhHHHHHHHHHHHHHh
Confidence 3467889999999999999999999999999999998866 5679999977754 2323332 234445555444
No 74
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=84.93 E-value=5.3 Score=28.81 Aligned_cols=60 Identities=17% Similarity=0.163 Sum_probs=40.4
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee--CCeEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF--NDFSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~--~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
+.+.+.+++|.|.+|+..|.+.+..|.+..+... ++...-.+..+ . . ...++.++|++.-
T Consensus 2 l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~i~i~v~----~-~-~~~~~i~~l~~~~ 63 (71)
T cd04903 2 LIVVHKDKPGAIAKVTSVLADHEINIAFMRVSRKEKGDQALMVIEVD----Q-P-IDEEVIEEIKKIP 63 (71)
T ss_pred EEEEeCCCCChHHHHHHHHHHcCcCeeeeEEEeccCCCeEEEEEEeC----C-C-CCHHHHHHHHcCC
Confidence 5678899999999999999999999987776652 23322112211 1 1 5556777776543
No 75
>PRK08577 hypothetical protein; Provisional
Probab=84.22 E-value=6.8 Score=33.73 Aligned_cols=66 Identities=15% Similarity=0.245 Sum_probs=44.9
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC--CeEEEEeehhhhccccccCHHHHHHHHHHh
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN--DFSLQASCSEAAERRTLLSSEEIKQALFSN 345 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~--d~~l~a~~~e~~~~~~~is~e~IkQAL~ka 345 (353)
.+.|.|.+.+++|+|.+|+..|.+.+.++.+.+..+.. +...-.+..+.. ....+.+++.+.|.+.
T Consensus 56 ~~~I~V~~~Dr~GvLa~I~~~l~~~~inI~~i~~~~~~~~~~~~i~l~vev~--~~~~~l~~l~~~L~~l 123 (136)
T PRK08577 56 LVEIELVVEDRPGVLAKITGLLAEHGVDILATECEELKRGELAECVIIVDLS--KSDIDLEELEEELKKL 123 (136)
T ss_pred EEEEEEEEcCCCCHHHHHHHHHHHCCCCEEEEEEEEecCCCEEEEEEEEEeC--CchhhHHHHHHHHHcC
Confidence 56799999999999999999999999999987766653 322111222321 1113456777777654
No 76
>cd04884 ACT_CBS C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This CD includes the C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This protein has two N-terminal tandem CBS domains and a single C-terminal ACT domain. The CBS domain is found in a wide range of proteins, often in tandem arrangements and together with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=84.09 E-value=4.3 Score=30.59 Aligned_cols=34 Identities=24% Similarity=0.287 Sum_probs=28.8
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
+.+.-+++||.|.++++.|.+.|..|++......
T Consensus 2 l~v~~~d~pG~L~~l~~~i~~~g~nI~~i~~~~~ 35 (72)
T cd04884 2 FTFLLEDKPGTLKPVVDTLREFNARIISILTAFE 35 (72)
T ss_pred EEEEecCCCccHHHHHHHHHHCCCeEEEEEeccc
Confidence 4566689999999999999999999997765554
No 77
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=83.25 E-value=6.3 Score=29.91 Aligned_cols=35 Identities=14% Similarity=0.215 Sum_probs=28.5
Q ss_pred EEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC
Q 038389 282 DICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND 316 (353)
Q Consensus 282 ~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d 316 (353)
.+...+++|.|.+|++.+.+.|+.+.+-......+
T Consensus 3 ~~~l~d~pG~L~~vL~~f~~~~vni~~I~Srp~~~ 37 (75)
T cd04880 3 VFSLKNKPGALAKALKVFAERGINLTKIESRPSRK 37 (75)
T ss_pred EEEeCCcCCHHHHHHHHHHHCCCCEEEEEeeecCC
Confidence 34457899999999999999999999876555543
No 78
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=82.32 E-value=9.4 Score=29.42 Aligned_cols=35 Identities=17% Similarity=0.256 Sum_probs=28.6
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN 315 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~ 315 (353)
+.+...+++|.|.+|++.|.+.|+.+++-......
T Consensus 4 l~~~~~d~~G~L~~il~~f~~~~ini~~i~s~p~~ 38 (80)
T cd04905 4 IVFTLPNKPGALYDVLGVFAERGINLTKIESRPSK 38 (80)
T ss_pred EEEEECCCCCHHHHHHHHHHHCCcCEEEEEEEEcC
Confidence 44555789999999999999999999987655543
No 79
>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=82.26 E-value=5.1 Score=28.56 Aligned_cols=35 Identities=23% Similarity=0.380 Sum_probs=29.2
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN 315 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~ 315 (353)
|.|...+++|.|.+++..|.+.|..|....+....
T Consensus 1 ~~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~ 35 (56)
T cd04889 1 LSVFVENKPGRLAEVTEILAEAGINIKAISIAETR 35 (56)
T ss_pred CEEEeCCCCChHHHHHHHHHHcCCCEeeEEEEEcc
Confidence 35677899999999999999999999876665544
No 80
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=82.15 E-value=4.1 Score=30.27 Aligned_cols=37 Identities=22% Similarity=0.394 Sum_probs=31.1
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND 316 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d 316 (353)
+|.|..+++||.|.+|++.|.+.|+.|.+..+...++
T Consensus 3 ri~v~v~d~pG~La~v~~~l~~~~inI~~i~~~~~~~ 39 (66)
T cd04908 3 QLSVFLENKPGRLAAVTEILSEAGINIRALSIADTSE 39 (66)
T ss_pred EEEEEEcCCCChHHHHHHHHHHCCCCEEEEEEEecCC
Confidence 5677889999999999999999999999776555444
No 81
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=82.10 E-value=0.8 Score=44.13 Aligned_cols=53 Identities=30% Similarity=0.402 Sum_probs=45.3
Q ss_pred CCCccchHHHHHHHHHHHHHHHhhhhcCCC---CCCCCccchhHHHHHHHHHHHHH
Q 038389 181 GQPSKNLMAERRRRKRLNDRLSMLRSIVPK---ISKMDRTSILGDTIDYLKELLER 233 (353)
Q Consensus 181 ~~~~~h~~~ER~RR~~in~~~~~LrslvP~---~~k~dKasIL~~ai~YIk~Lq~~ 233 (353)
.++.+-+..||+|=-.+|+-|..||.++|. ..|+.|.-.|.-|-+||..|++-
T Consensus 71 ~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~ 126 (254)
T KOG3898|consen 71 LRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEV 126 (254)
T ss_pred hhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhccc
Confidence 356667889999999999999999999995 46788888999999999988753
No 82
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=79.38 E-value=11 Score=27.01 Aligned_cols=35 Identities=14% Similarity=0.299 Sum_probs=30.1
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
.+.|.+.+++|+|.+|+..|.+.+..+........
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~ 36 (72)
T cd04878 2 TLSVLVENEPGVLNRISGLFARRGFNIESLTVGPT 36 (72)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCCEEEEEeeec
Confidence 35677889999999999999999999998776654
No 83
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=78.90 E-value=5.6 Score=36.74 Aligned_cols=65 Identities=12% Similarity=0.183 Sum_probs=50.1
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC-eEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND-FSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d-~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
..+.|.+.+.+|||+...|-++|.+.|..|..++.+..++ |++-..+ .. ...+...|+.+|....
T Consensus 7 ~~lviTviG~DrpGIVa~vs~~l~~~g~NI~ds~~t~lgg~Fa~i~lv-s~----~~~~~~~le~~L~~l~ 72 (190)
T PRK11589 7 HYLVITALGADRPGIVNTITRHVSSCGCNIEDSRLAMLGEEFTFIMLL-SG----SWNAITLIESTLPLKG 72 (190)
T ss_pred cEEEEEEEcCCCChHHHHHHHHHHHcCCCeeehhhHhhCCceEEEEEE-eC----ChhHHHHHHHHHHhhh
Confidence 4577999999999999999999999999999999999987 4443333 22 1236677777776554
No 84
>PRK07334 threonine dehydratase; Provisional
Probab=78.32 E-value=12 Score=38.02 Aligned_cols=37 Identities=16% Similarity=0.231 Sum_probs=33.6
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
.+.|.|.+.+|+|+|.+|+..|.+.+..|.+.++.+.
T Consensus 326 ~v~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~ 362 (403)
T PRK07334 326 LARLRVDIRDRPGALARVTALIGEAGANIIEVSHQRL 362 (403)
T ss_pred EEEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEec
Confidence 4889999999999999999999999999998887654
No 85
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=77.29 E-value=9.3 Score=41.98 Aligned_cols=70 Identities=17% Similarity=0.068 Sum_probs=53.4
Q ss_pred cceeEEEEE-cCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 276 EIDTRIDIC-CSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 276 ~~~v~I~I~-C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
..+..+.|. +++++|+|.++...|--+|+.|.+|++.+ ++..+..+.+... .+...++..+.|++.+.+.
T Consensus 544 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~a~~~~-~~~~~~~~~v~~~-~~~~~~~~~~~~~~~~~~~ 614 (693)
T PRK00227 544 EEDGFFTVIWHGDYPRELVRVLALIAAKGWNILSARMVA-NGPWSAEFDVRAN-GPQDFDPQEFLQAYKSGVY 614 (693)
T ss_pred ccCCeEEEEecCCcccHHHHHHHHHHhcCceeeEeEEec-CCceEEEEEEecC-CCCCCChHHHHHHHHHhhc
Confidence 333455555 49999999999999999999999999999 6654444444432 4566889999999987654
No 86
>cd04901 ACT_3PGDH C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. The C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In Escherichia coli, the SerA 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. In the homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active site is postulated to involve the tethering of the regulatory domains together to create a rigid quaternary structure with a solvent-
Probab=76.15 E-value=3.1 Score=30.59 Aligned_cols=61 Identities=20% Similarity=0.171 Sum_probs=39.4
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
|-+.+.+++|+|.+|+..|.+.|..+........++..+-.+..++ . ..+++.+.|++.-+
T Consensus 2 ~~~~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~a~~~~~~~~---~---~l~~li~~l~~~~~ 62 (69)
T cd04901 2 ILHIHKNVPGVLGQINTILAEHNINIAAQYLQTRGEIGYVVIDIDS---E---VSEELLEALRAIPG 62 (69)
T ss_pred EEEEecCCCcHHHHHHHHHHHcCCCHHHHhccCCCCEEEEEEEcCC---C---CCHHHHHHHHcCCC
Confidence 4557789999999999999999999876544433333322222222 1 55567677665433
No 87
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=74.43 E-value=16 Score=35.88 Aligned_cols=68 Identities=16% Similarity=0.189 Sum_probs=49.5
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC--C-eEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN--D-FSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~--d-~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
....+.++|++++|+...|-..|-+.|..|++++..... + |.+-+.... +....+.+.|.+++...+.
T Consensus 6 ~~~~LtvsCpd~~GiVaais~~l~~~g~NI~~~~qf~D~~~g~FFmR~~f~~---~~~~~~~~~l~~~f~~~a~ 76 (287)
T COG0788 6 DTFILTVSCPDQPGIVAAISGFLAEHGCNIVDSDQFDDPETGRFFMRVEFEG---EGGPLDREALRAAFAPLAE 76 (287)
T ss_pred cceEEEEecCCCCCcHHHHHHHHHHcCCceeecccccccccCeEEEEEEEec---CCCcccHHHHHHHHHHHHH
Confidence 346789999999999999999999999999998887432 1 222222111 2223788899998887654
No 88
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=73.07 E-value=12 Score=27.48 Aligned_cols=61 Identities=15% Similarity=0.196 Sum_probs=41.1
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEee--eCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISC--FNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~--~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
+.+...+++|.+.+|.+.|.+.|+.|.+..+.. .++...-.+..+. ..+.++.++|.+.=|
T Consensus 2 l~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~i~v~~------~~~~~~~~~l~~~~~ 64 (73)
T cd04902 2 LVVRNTDRPGVIGKVGTILGEAGINIAGMQVGRDEPGGEALMVLSVDE------PVPDEVLEELRALPG 64 (73)
T ss_pred EEEEeCCCCCHHHHHHHHHHHcCcChhheEeeccCCCCEEEEEEEeCC------CCCHHHHHHHHcCCC
Confidence 345778999999999999999999998765543 2344444443332 224577777766543
No 89
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=72.46 E-value=14 Score=27.72 Aligned_cols=61 Identities=16% Similarity=0.192 Sum_probs=38.0
Q ss_pred EEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC--CeEEEEeehhhhccccccCHHHHHHHHHHhhcc
Q 038389 282 DICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN--DFSLQASCSEAAERRTLLSSEEIKQALFSNAGY 348 (353)
Q Consensus 282 ~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~--d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag~ 348 (353)
.|.-+++||-|.++++.|.. |.+|+.-.....+ ...+...+ +. ...-..++|.++|.+ .||
T Consensus 2 ~v~ipdkPG~l~~~~~~i~~-~~nI~~~~~~~~~~~~~~v~v~i-e~---~~~~~~~~i~~~L~~-~G~ 64 (68)
T cd04885 2 AVTFPERPGALKKFLELLGP-PRNITEFHYRNQGGDEARVLVGI-QV---PDREDLAELKERLEA-LGY 64 (68)
T ss_pred EEECCCCCCHHHHHHHHhCC-CCcEEEEEEEcCCCCceEEEEEE-Ee---CCHHHHHHHHHHHHH-cCC
Confidence 45668999999999999999 9988876555432 11122111 11 122345677777765 444
No 90
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=71.37 E-value=16 Score=28.05 Aligned_cols=35 Identities=11% Similarity=0.131 Sum_probs=28.7
Q ss_pred EEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC
Q 038389 282 DICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND 316 (353)
Q Consensus 282 ~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d 316 (353)
-+...+++|.|.+||..+...|+.+.+-..-...+
T Consensus 4 ~f~l~~~pG~L~~vL~~f~~~~iNlt~IeSRP~~~ 38 (74)
T cd04904 4 IFSLKEEVGALARALKLFEEFGVNLTHIESRPSRR 38 (74)
T ss_pred EEEeCCCCcHHHHHHHHHHHCCCcEEEEECCCCCC
Confidence 34457899999999999999999999876665544
No 91
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=71.23 E-value=6.2 Score=38.22 Aligned_cols=52 Identities=27% Similarity=0.287 Sum_probs=43.3
Q ss_pred CccchHHHHHHHHHHHHHHHhhhhcCCCC---CCCCccchhHHHHHHHHHHHHHH
Q 038389 183 PSKNLMAERRRRKRLNDRLSMLRSIVPKI---SKMDRTSILGDTIDYLKELLERI 234 (353)
Q Consensus 183 ~~~h~~~ER~RR~~in~~~~~LrslvP~~---~k~dKasIL~~ai~YIk~Lq~~v 234 (353)
+..-+..||+|=..||.-|..||-+||.. .|..|-..|..|-.||--|-..+
T Consensus 175 r~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 175 RLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLL 229 (285)
T ss_pred hcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhh
Confidence 34457889999999999999999999974 46677778999999998887654
No 92
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=68.60 E-value=16 Score=32.78 Aligned_cols=63 Identities=16% Similarity=0.182 Sum_probs=43.4
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC--eEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND--FSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d--~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
.|.|.-++++|.|.+|...|...|+.|.+-.+...++ ...-++.+.. ..-..+.|...|.|.+
T Consensus 3 ~isI~ven~pGvL~rI~~lf~rrg~NI~Sl~v~~t~~~~~sriti~V~~----d~~~i~qi~kQl~Kli 67 (157)
T TIGR00119 3 ILSVLVENEPGVLSRVAGLFTRRGFNIESLTVGPTEDPDLSRMTIVVVG----DDKVLEQITKQLNKLV 67 (157)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCceEEEEEEeecCCCCEEEEEEEEEC----CHHHHHHHHHHHhcCc
Confidence 3667778999999999999999999999888887653 3222222221 1234566666666654
No 93
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase
Probab=68.46 E-value=23 Score=42.36 Aligned_cols=70 Identities=16% Similarity=0.109 Sum_probs=52.1
Q ss_pred ceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC---C--eEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 277 IDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN---D--FSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 277 ~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~---d--~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
..+.++|....++..|++||-.|+++||.|+...-..+. + .-+|.+..... ....++.+++++.|.+++.
T Consensus 488 ~~~~lkiy~~~~~~~Ls~vlPilenlGl~V~~e~~~~i~~~~~~~~~i~~F~l~~~-~~~~~~~~~~~~~~~~a~~ 562 (1528)
T PF05088_consen 488 GRLRLKIYHPGEPLPLSDVLPILENLGLRVIDERPYEIRRADGRRVWIHDFGLQYP-DGDALDLDDIRERFEEAFE 562 (1528)
T ss_pred CeEEEEEEcCCCCcCHHHHHHHHHhCCCEEEEEecceeecCCCceEEEEEEEEecC-CCccccHHHHHHHHHHHHH
Confidence 457899999999999999999999999999987544443 2 45677766654 3334677777777766644
No 94
>cd04931 ACT_PAH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe. In PAH, an autoregulatory sequence, N-terminal of the ACT domain, extends across the catalytic domain active site and regulates the enzyme by intrasteric regulation. It appears that the activation by L-Phe induces a conformational change that converts the enzyme to a high-affinity and high-activity state. Modulation of activity is achieved through inhibition by BH4 and activation by phosphorylation of serine residues of the autoregulatory region. The molecular basis for the cooperative activation process is not fully understood yet. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=68.00 E-value=25 Score=28.58 Aligned_cols=37 Identities=8% Similarity=0.051 Sum_probs=30.3
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN 315 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~ 315 (353)
+.|-+...+++|.|.++|..|...|+.+.+-..-...
T Consensus 15 tslif~l~~~pGsL~~vL~~Fa~~~INLt~IeSRP~~ 51 (90)
T cd04931 15 ISLIFSLKEEVGALAKVLRLFEEKDINLTHIESRPSR 51 (90)
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHCCCCEEEEEeccCC
Confidence 4455666889999999999999999999987666553
No 95
>COG3830 ACT domain-containing protein [Signal transduction mechanisms]
Probab=65.48 E-value=13 Score=30.67 Aligned_cols=64 Identities=11% Similarity=0.246 Sum_probs=45.4
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC-eEEEEeehhhhccccccCHHHHHHHHHHh
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND-FSLQASCSEAAERRTLLSSEEIKQALFSN 345 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d-~~l~a~~~e~~~~~~~is~e~IkQAL~ka 345 (353)
+.|.|.-.+|+|+...|-.+|-++|..|++-+.+-..+ |++-..+.- .....+...++..|...
T Consensus 4 avITV~GkDr~GIva~is~vLAe~~vNIldisQtvm~~~ftm~~lV~~---~~~~~d~~~lr~~l~~~ 68 (90)
T COG3830 4 AVITVIGKDRVGIVAAVSRVLAEHGVNILDISQTVMDGFFTMIMLVDI---SKEVVDFAALRDELAAE 68 (90)
T ss_pred EEEEEEcCCCCchhHHHHHHHHHcCCcEEEHHHHHHhhhceeeeEEcC---ChHhccHHHHHHHHHHH
Confidence 57889999999999999999999999999988888877 444333211 11234455555555443
No 96
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=64.29 E-value=22 Score=32.09 Aligned_cols=36 Identities=14% Similarity=0.306 Sum_probs=31.3
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN 315 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~ 315 (353)
.|.|.-++++|.|.+|...|...|+.|.+-.+....
T Consensus 4 ~IsV~veN~pGvL~rI~~lf~rrg~NI~Sl~v~~te 39 (161)
T PRK11895 4 TLSVLVENEPGVLSRVAGLFSRRGYNIESLTVGPTE 39 (161)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCcEEEEEeeecC
Confidence 466777899999999999999999999988777665
No 97
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=60.22 E-value=19 Score=27.13 Aligned_cols=57 Identities=16% Similarity=0.156 Sum_probs=37.4
Q ss_pred CCCChHHHHHHHHHhCCCeEEEEEEeeeCC--eEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 287 SKPGLLLSTVNTLEVLGLEIQQCVISCFND--FSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 287 ~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d--~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
+++|.|.+|+..+..-|+.|.+-+++..++ ..--++.+. +..-..+.|.+.|.|.+.
T Consensus 1 n~~GvL~Ri~~vf~rRg~nI~sl~v~~~~~~~~~riti~v~----~~~~~i~~l~~Ql~Klid 59 (63)
T PF13710_consen 1 NQPGVLNRITGVFRRRGFNIESLSVGPTEDPGISRITIVVS----GDDREIEQLVKQLEKLID 59 (63)
T ss_dssp SSTTHHHHHHHHHHTTT-EECEEEEEE-SSTTEEEEEEEEE----S-CCHHHHHHHHHHCSTT
T ss_pred CCcHHHHHHHHHHhcCCeEEeeEEeeecCCCCEEEEEEEEe----eCchhHHHHHHHHhccCC
Confidence 479999999999999999999988888443 322222222 223456677777777653
No 98
>CHL00100 ilvH acetohydroxyacid synthase small subunit
Probab=59.89 E-value=25 Score=32.07 Aligned_cols=64 Identities=11% Similarity=0.178 Sum_probs=43.4
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC--CeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN--DFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~--d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
.|.|.-.++||+|.+|...|...|+.|.+-++.... +..--++.+. ++... .+.|++.|.+.+.
T Consensus 4 ~isvlv~n~PGVL~RIt~lFsrRg~NIesLsv~~t~~~~~sr~TIvv~---~~~~~-ieqL~kQL~KLid 69 (174)
T CHL00100 4 TLSVLVEDESGVLTRIAGLFARRGFNIESLAVGPAEQKGISRITMVVP---GDDRT-IEQLTKQLYKLVN 69 (174)
T ss_pred EEEEEEeCcCCHHHHHHHHHHhCCCCeeEEEeeEcCCCCccEEEEEEE---CCHHH-HHHHHHHHHHHhH
Confidence 466777899999999999999999999988876633 3221111111 11112 6788888887653
No 99
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=59.30 E-value=38 Score=30.04 Aligned_cols=68 Identities=7% Similarity=0.052 Sum_probs=45.5
Q ss_pred cceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEe-eeCCeEEEEeehhhhccccccCHHHHHHHHHHh
Q 038389 276 EIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVIS-CFNDFSLQASCSEAAERRTLLSSEEIKQALFSN 345 (353)
Q Consensus 276 ~~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS-~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~ka 345 (353)
+..+.+.+.-++|-|.|+++|.++-..++.|+.-+.+ ..+++.=-++...- ..-..++++|..+|.+.
T Consensus 70 ~ri~TL~l~ledr~G~LS~vLd~iA~~~~nvLTI~Q~ipl~g~Anvtlsi~~--ssm~~~V~~ii~kl~k~ 138 (150)
T COG4492 70 ERIITLSLSLEDRVGILSDVLDVIAREEINVLTIHQTIPLQGRANVTLSIDT--SSMEKDVDKIIEKLRKV 138 (150)
T ss_pred ceEEEEEEEEhhhhhhHHHHHHHHHHhCCcEEEEecccccCceeeEEEEEEc--hhhhhhHHHHHHHHhcc
Confidence 3456788888999999999999999999999876555 33442111111111 12235678888888765
No 100
>cd04929 ACT_TPH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxytryptamine (serotonin) and the first reaction in the synthesis of melatonin. Very little is known about the role of the ACT domain in TPH, which appears to be regulated by phosphorylation but not by its substrate or cofactor. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=58.70 E-value=72 Score=24.77 Aligned_cols=33 Identities=12% Similarity=0.165 Sum_probs=27.1
Q ss_pred EEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC
Q 038389 283 ICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN 315 (353)
Q Consensus 283 I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~ 315 (353)
+...+++|.|.++|..++..|+.+.+-..-...
T Consensus 5 ~~l~~~~g~L~~iL~~f~~~~inl~~IeSRP~~ 37 (74)
T cd04929 5 FSLKNEVGGLAKALKLFQELGINVVHIESRKSK 37 (74)
T ss_pred EEcCCCCcHHHHHHHHHHHCCCCEEEEEeccCC
Confidence 344788999999999999999999986665543
No 101
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=55.26 E-value=35 Score=27.00 Aligned_cols=37 Identities=14% Similarity=0.201 Sum_probs=31.2
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND 316 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d 316 (353)
.|.+.-.++||+|.+|...+...|..|.+-++...++
T Consensus 4 tisi~v~n~pGVL~Ri~~lf~rRgfNI~Sl~vg~te~ 40 (76)
T PRK06737 4 TFSLVIHNDPSVLLRISGIFARRGYYISSLNLNERDT 40 (76)
T ss_pred EEEEEEecCCCHHHHHHHHHhccCcceEEEEecccCC
Confidence 3666778999999999999999999999877776553
No 102
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=53.14 E-value=14 Score=33.34 Aligned_cols=42 Identities=26% Similarity=0.371 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCC--CCCccchhHHHHHHHHHH
Q 038389 189 AERRRRKRLNDRLSMLRSIVPKIS--KMDRTSILGDTIDYLKEL 230 (353)
Q Consensus 189 ~ER~RR~~in~~~~~LrslvP~~~--k~dKasIL~~ai~YIk~L 230 (353)
.||.|..++++.+.-|++|+|+.. ++.+.--|.-+-+||..|
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~ 72 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSL 72 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhH
Confidence 689999999999999999999742 222222244444444444
No 103
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=52.68 E-value=18 Score=39.77 Aligned_cols=60 Identities=7% Similarity=0.070 Sum_probs=49.3
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
+..++|...+|+|+|..|+.+|. ||..|.|++.+..++..++... ..+-..+.+++.+++
T Consensus 631 ~~~~e~r~~dr~g~l~~~~~~l~----~~~~~~~~~~g~~~~~~~~~~~-----~~~r~~~~~~~~~~~ 690 (693)
T PRK00227 631 GNILEVRTEDRRGALGALLGVLP----DLLWITASTPGATMIVQAALKP-----GFDRATVERDVTRVL 690 (693)
T ss_pred CcEEEEEeCccccHHHHHHHHhh----hhhhHhhcCCCcceEEEEEecC-----cccHHHHHHHHHHHH
Confidence 46789999999999999999999 9999999999999888887762 234556666666664
No 104
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=52.64 E-value=41 Score=37.43 Aligned_cols=36 Identities=11% Similarity=0.133 Sum_probs=32.9
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
+.|.|.+.+++|+|.+|..+|.+.++.|.+.++.+.
T Consensus 667 v~I~I~~~Dr~GlL~dIt~~is~~~~nI~~v~~~~~ 702 (743)
T PRK10872 667 LVVRVTANDRSGLLRDITTILANEKVNVLGVASRSD 702 (743)
T ss_pred EEEEEEEcCCCCHHHHHHHHHHHCCCCeEEEEeEEc
Confidence 578899999999999999999999999999888765
No 105
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=52.47 E-value=76 Score=22.65 Aligned_cols=32 Identities=13% Similarity=0.248 Sum_probs=24.9
Q ss_pred EEEEEc---CCCCChHHHHHHHHHhCCCeEEEEEE
Q 038389 280 RIDICC---SSKPGLLLSTVNTLEVLGLEIQQCVI 311 (353)
Q Consensus 280 ~I~I~C---~~r~GlL~~Il~aLe~LgLdVv~A~I 311 (353)
.|.|.+ .+.++++.+|+++|.+.|+.|.--+.
T Consensus 3 ~isvvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~~ 37 (66)
T cd04922 3 ILALVGDGMAGTPGVAATFFSALAKANVNIRAIAQ 37 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEe
Confidence 355555 35789999999999999999974443
No 106
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=51.56 E-value=5.1 Score=43.71 Aligned_cols=61 Identities=23% Similarity=0.364 Sum_probs=51.6
Q ss_pred CCCccchHHHHHHHHHHHHHHHhhhhcCCCC-----CCCCccchhHHHHHHHHHHHHHHHHHHHHH
Q 038389 181 GQPSKNLMAERRRRKRLNDRLSMLRSIVPKI-----SKMDRTSILGDTIDYLKELLERINKLQEEE 241 (353)
Q Consensus 181 ~~~~~h~~~ER~RR~~in~~~~~LrslvP~~-----~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~ 241 (353)
.++..|+-+|.+||.+++-.|..|.++.-+. .|+.++.-+..++.||..+++....++++.
T Consensus 650 ~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~ 715 (856)
T KOG3582|consen 650 NRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEA 715 (856)
T ss_pred CCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhh
Confidence 5789999999999999999999999988653 466677779999999999998887777653
No 107
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=51.41 E-value=36 Score=27.67 Aligned_cols=64 Identities=9% Similarity=0.011 Sum_probs=43.0
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC--eEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND--FSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d--~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
.|.+.-++++|+|.+|...|...|..|.+-+++...+ ..--++.+.. +..-..+.|.+.|.|.+
T Consensus 4 ~isvlVeN~~GVL~Rit~lFsRRg~NI~SLtvg~Te~~~iSRmtivv~~---~d~~~ieqI~kQL~Kli 69 (84)
T PRK13562 4 ILKLQVADQVSTLNRITSAFVRLQYNIDTLHVTHSEQPGISNMEIQVDI---QDDTSLHILIKKLKQQI 69 (84)
T ss_pred EEEEEEECCCCHHHHHHHHHhccCcCeeeEEecccCCCCceEEEEEEeC---CCHHHHHHHHHHHhCCc
Confidence 3666678999999999999999999999887776655 3323333321 12233466666666554
No 108
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=51.05 E-value=34 Score=29.87 Aligned_cols=40 Identities=33% Similarity=0.534 Sum_probs=35.3
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEE
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSL 319 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l 319 (353)
.|.|..+++||.|..++++|.+.|+.+..-+|.-.++|-+
T Consensus 5 QISvFlENk~GRL~~~~~~L~eagINiRA~tiAdt~dFGI 44 (142)
T COG4747 5 QISVFLENKPGRLASVANKLKEAGINIRAFTIADTGDFGI 44 (142)
T ss_pred EEEEEecCCcchHHHHHHHHHHcCCceEEEEeccccCcce
Confidence 4777889999999999999999999999888888887644
No 109
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=50.46 E-value=66 Score=25.41 Aligned_cols=62 Identities=10% Similarity=0.055 Sum_probs=42.9
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC--eEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 280 RIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND--FSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 280 ~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d--~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
.|.|.-.++||.|.+|+..+..-|+.|.+-++....+ ..--++.+. ..-..+.|...|.|.+
T Consensus 5 ~lsi~v~n~pGVL~Ri~~lf~rRGfnI~sl~v~~t~~~~~sriti~v~-----~~~~i~ql~kQL~KL~ 68 (76)
T PRK11152 5 QLTIKARFRPEVLERVLRVVRHRGFQVCSMNMTQNTDAQNINIELTVA-----SERPIDLLSSQLNKLV 68 (76)
T ss_pred EEEEEEECCccHHHHHHHHHhcCCeeeeeEEeeecCCCCEEEEEEEEC-----CCchHHHHHHHHhcCc
Confidence 3556667999999999999999999999888887543 322222222 1344567777776654
No 110
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=49.49 E-value=81 Score=29.08 Aligned_cols=64 Identities=13% Similarity=0.164 Sum_probs=45.4
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC-------eEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND-------FSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d-------~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
..|.|.-.++||++.+|-+.|-+.|+.|.+-+.-+.+. |.+++... . -...+.++|+.+|.+.+
T Consensus 96 ~~v~v~G~DrPGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v~-l---P~~~~~~~L~~~l~~l~ 166 (190)
T PRK11589 96 VWVQVEVADSPHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITAH-S---PASQDAANIEQAFKALC 166 (190)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEEE-c---CCCCCHHHHHHHHHHHH
Confidence 57888889999999999999999999998766665542 33332211 1 12345788888887654
No 111
>PLN02705 beta-amylase
Probab=47.56 E-value=66 Score=35.13 Aligned_cols=31 Identities=26% Similarity=0.358 Sum_probs=20.0
Q ss_pred CccCCCCCccchHHHHHHHHHHHHHHHhhhh
Q 038389 176 NKKLEGQPSKNLMAERRRRKRLNDRLSMLRS 206 (353)
Q Consensus 176 ~~~~~~~~~~h~~~ER~RR~~in~~~~~Lrs 206 (353)
++.+...+.++...||+||.--..-|.-||.
T Consensus 78 ~~~~~~e~e~~~~rer~rrai~~ki~aglr~ 108 (681)
T PLN02705 78 KREREKEKERTKLRERHRRAITSRMLAGLRQ 108 (681)
T ss_pred CCcchhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence 3335557888999999999544444444443
No 112
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=46.86 E-value=54 Score=36.06 Aligned_cols=38 Identities=13% Similarity=0.159 Sum_probs=34.0
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeC
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFN 315 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~ 315 (353)
.+.|.|.+.+++|+|.+|+.+|.+.+..|.+.++....
T Consensus 610 ~v~I~I~~~dr~GlLadI~~~ia~~~~nI~~v~~~~~~ 647 (683)
T TIGR00691 610 IVDINIEAVDRKGVLSDLTTAISENDSNIVSISTKTYG 647 (683)
T ss_pred EEEEEEEEecCCCHHHHHHHHHHHCCCCeEEEEeEEcC
Confidence 35788999999999999999999999999998887664
No 113
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=45.94 E-value=89 Score=34.59 Aligned_cols=39 Identities=15% Similarity=0.123 Sum_probs=34.4
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND 316 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d 316 (353)
.+.|.|.+.+++|+|.+|..+|.+.++.|.+.++.+..+
T Consensus 626 ~v~i~I~~~dr~GlL~dI~~~i~~~~~nI~~v~~~~~~~ 664 (702)
T PRK11092 626 IAEIKVEMFNHQGALANLTAAINTTGSNIQSLNTEEKDG 664 (702)
T ss_pred EEEEEEEEeCCCCHHHHHHHHHHHCCCCeEEEEEEEcCC
Confidence 357889999999999999999999999999999776654
No 114
>PRK06382 threonine dehydratase; Provisional
Probab=43.94 E-value=77 Score=32.25 Aligned_cols=37 Identities=22% Similarity=0.279 Sum_probs=32.1
Q ss_pred cceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEe
Q 038389 276 EIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVIS 312 (353)
Q Consensus 276 ~~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS 312 (353)
+..+++.|.-+++||.|.+|++.|.+.|.+|++....
T Consensus 328 ~~~~rl~v~v~D~pG~L~~l~~ii~~~~~nI~~v~~~ 364 (406)
T PRK06382 328 GQLVRIECNIPDRPGNLYRIANAIASNGGNIYHAEVD 364 (406)
T ss_pred CCEEEEEEEcCCCCCHHHHHHHHHhcCCCcEEEEEEe
Confidence 4567888888999999999999999999999876543
No 115
>cd04930 ACT_TH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines (dopamine, noradrenaline and adrenaline), functioning as hormones and neurotransmitters. The enzyme is not regulated by its amino acid substrate, but instead by phosphorylation at several serine residues located N-terminal of the ACT domain, and by feedback inhibition by catecholamines at the active site. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=43.88 E-value=1.3e+02 Score=25.43 Aligned_cols=36 Identities=8% Similarity=-0.015 Sum_probs=29.1
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
+-|-+...+++|.|.+||..+...|+.+.+-..-+.
T Consensus 42 tSlifsl~~~pGsL~~iL~~Fa~~gINLt~IESRP~ 77 (115)
T cd04930 42 ATLLFSLKEGFSSLSRILKVFETFEAKIHHLESRPS 77 (115)
T ss_pred EEEEEEeCCCCcHHHHHHHHHHHCCCCEEEEECCcC
Confidence 344455578999999999999999999998766655
No 116
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=42.45 E-value=1.2e+02 Score=23.80 Aligned_cols=32 Identities=9% Similarity=0.170 Sum_probs=24.1
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEe
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVIS 312 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS 312 (353)
..+.|.-+++||-|.++++.|- +..|......
T Consensus 2 ~vl~v~ipD~PG~L~~ll~~l~--~anI~~~~y~ 33 (85)
T cd04906 2 ALLAVTIPERPGSFKKFCELIG--PRNITEFNYR 33 (85)
T ss_pred eEEEEecCCCCcHHHHHHHHhC--CCceeEEEEE
Confidence 3567778999999999999998 5566544433
No 117
>TIGR01127 ilvA_1Cterm threonine dehydratase, medium form. A form of threonine dehydratase with two copies of the C-terminal domain Pfam:PF00585 is described by TIGR01124. This model describes a phylogenetically distinct form with a single copy of pfam00585. This form branches with the catabolic threonine dehydratase of E. coli; many members are designated as catabolic for this reason. However, the catabolic form lacks any pfam00585 domain. Many members of this model are found in species with other Ile biosynthetic enzymes.
Probab=40.31 E-value=80 Score=31.57 Aligned_cols=37 Identities=16% Similarity=0.241 Sum_probs=31.7
Q ss_pred cceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEe
Q 038389 276 EIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVIS 312 (353)
Q Consensus 276 ~~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS 312 (353)
+..+++.|.-+++||.|.++++.+.+.|..|++-...
T Consensus 303 gr~~~l~v~l~D~pG~L~~v~~~i~~~~~NI~~i~~~ 339 (380)
T TIGR01127 303 GRKVRIETVLPDRPGALYHLLESIAEARANIVKIDHD 339 (380)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhcCCCcEEEEEee
Confidence 4556888888999999999999999999999876544
No 118
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=38.95 E-value=31 Score=23.08 Aligned_cols=16 Identities=50% Similarity=0.879 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHhhhh
Q 038389 191 RRRRKRLNDRLSMLRS 206 (353)
Q Consensus 191 R~RR~~in~~~~~Lrs 206 (353)
|+||+.++.++..||.
T Consensus 14 rrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 14 RRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHhc
Confidence 6888999999999885
No 119
>PF13840 ACT_7: ACT domain ; PDB: 3S1T_A 1ZHV_A 3AB4_K 3AB2_O 2DTJ_A 3AAW_A 2RE1_B 3MAH_A 1ZVP_D.
Probab=34.74 E-value=58 Score=24.37 Aligned_cols=32 Identities=19% Similarity=0.338 Sum_probs=25.0
Q ss_pred eEEEEEcC----CCCChHHHHHHHHHhCCCeEEEEE
Q 038389 279 TRIDICCS----SKPGLLLSTVNTLEVLGLEIQQCV 310 (353)
Q Consensus 279 v~I~I~C~----~r~GlL~~Il~aLe~LgLdVv~A~ 310 (353)
..|.|.++ +.+|++.+++.+|.+.|+.|...+
T Consensus 7 ~~i~v~g~g~~~~~~Gv~a~i~~~La~~~I~i~~is 42 (65)
T PF13840_consen 7 AKISVVGPGLRFDVPGVAAKIFSALAEAGINIFMIS 42 (65)
T ss_dssp EEEEEEEECGTTTSHHHHHHHHHHHHHTTS-ECEEE
T ss_pred EEEEEEccccCCCcccHHHHHHHHHHHCCCCEEEEE
Confidence 45666664 489999999999999999998544
No 120
>cd04933 ACT_AK1-AT_1 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the first of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine. This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. Like the Escherichia coli AKIII (LysC), Arabidopsis AK1 binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. A loop in common is involved in the binding of both Lys and S-adenosylmethionine providing an explanation for the synergistic inhibition by these effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=34.49 E-value=2.3e+02 Score=22.28 Aligned_cols=31 Identities=23% Similarity=0.429 Sum_probs=25.1
Q ss_pred EEEEEc---CCCCChHHHHHHHHHhCCCeEEEEE
Q 038389 280 RIDICC---SSKPGLLLSTVNTLEVLGLEIQQCV 310 (353)
Q Consensus 280 ~I~I~C---~~r~GlL~~Il~aLe~LgLdVv~A~ 310 (353)
.|.|.. ...+|.+.+|+++|.+.|+.|-.-.
T Consensus 3 ~i~i~~~~~~~~~g~~a~IF~~La~~~InVDmI~ 36 (78)
T cd04933 3 MLDITSTRMLGQYGFLAKVFSIFETLGISVDVVA 36 (78)
T ss_pred EEEEEcCCCCCccCHHHHHHHHHHHcCCcEEEEE
Confidence 455555 4679999999999999999998654
No 121
>cd04919 ACT_AK-Hom3_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydrodynamic size. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=32.32 E-value=1.9e+02 Score=20.67 Aligned_cols=26 Identities=15% Similarity=0.075 Sum_probs=21.6
Q ss_pred CCCCChHHHHHHHHHhCCCeEEEEEE
Q 038389 286 SSKPGLLLSTVNTLEVLGLEIQQCVI 311 (353)
Q Consensus 286 ~~r~GlL~~Il~aLe~LgLdVv~A~I 311 (353)
..++|.+.+++++|.+.|++|.--+.
T Consensus 12 ~~~~~~~~~if~~L~~~~I~v~~i~q 37 (66)
T cd04919 12 KNMIGIAGRMFTTLADHRINIEMISQ 37 (66)
T ss_pred CCCcCHHHHHHHHHHHCCCCEEEEEe
Confidence 35789999999999999999964443
No 122
>PRK10222 PTS system L-ascorbate-specific transporter subunit IIB; Provisional
Probab=32.23 E-value=96 Score=24.73 Aligned_cols=55 Identities=11% Similarity=0.204 Sum_probs=35.4
Q ss_pred HHHHHHHHhCCC--eEEEEEEeeeCCe--EEEEeehh-----hh---------ccccccCHHHHHHHHHHhhc
Q 038389 293 LSTVNTLEVLGL--EIQQCVISCFNDF--SLQASCSE-----AA---------ERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 293 ~~Il~aLe~LgL--dVv~A~IS~~~d~--~l~a~~~e-----~~---------~~~~~is~e~IkQAL~kaag 347 (353)
.+|=+.|+++|+ +|.||.++...+. ..+.+++- .. .-+..++.++|++.|..++.
T Consensus 5 mkIk~~L~e~Gi~~~ve~~diss~~~~~~~aDiiVtt~~l~~~~~~~g~~~l~gI~N~~d~~ei~~~~~~~~~ 77 (85)
T PRK10222 5 MKVDQFLTQSNIDHTVNSCAVGEYKSELSGADIIIASTHIAGEITVTGNKYVVGVRNMLSPADFGPKLLEVIK 77 (85)
T ss_pred HHHHHHHHHcCCCeEEEEeehhhcccCCCCCCEEEECccchhhhccCCCceEEEEecccCHHHHHHHHHHHHH
Confidence 456678999999 8899999877654 22222111 11 11234678999998887654
No 123
>PRK08198 threonine dehydratase; Provisional
Probab=31.46 E-value=1.8e+02 Score=29.32 Aligned_cols=38 Identities=13% Similarity=0.210 Sum_probs=32.3
Q ss_pred cceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEee
Q 038389 276 EIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISC 313 (353)
Q Consensus 276 ~~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~ 313 (353)
+..+.+.|.-+++||.|.++++.|.+.|..|+.-+...
T Consensus 325 gr~~~l~v~l~D~PG~L~~ll~~i~~~g~NI~~i~~~~ 362 (404)
T PRK08198 325 GRYLKLRVRLPDRPGQLAKLLSIIAELGANVIDVDHDR 362 (404)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEE
Confidence 45678888889999999999999999999888665543
No 124
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=31.39 E-value=1.5e+02 Score=24.69 Aligned_cols=63 Identities=8% Similarity=0.070 Sum_probs=42.3
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC--eEEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND--FSLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d--~~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
..|.+.-.++||+|.+|...+..-|..|.+-++....+ ..--++.+. +. -..+.|.+.|.|.+
T Consensus 9 ~tisvlv~N~pGVL~RIaglFsRRgyNIeSLtvg~te~~~iSRmtivv~---~~--~~i~Qi~kQL~KLi 73 (96)
T PRK08178 9 VILELTVRNHPGVMSHVCGLFARRAFNVEGILCLPIQDGDKSRIWLLVN---DD--QRLEQMISQIEKLE 73 (96)
T ss_pred EEEEEEEECCcCHHHHHHHHHhcCCcCeeeEEEeecCCCCceEEEEEEc---Cc--hHHHHHHHHHhCCc
Confidence 45677778999999999999999999998777776654 222233222 11 24566666666554
No 125
>PF02120 Flg_hook: Flagellar hook-length control protein FliK; InterPro: IPR021136 This entry represents the C-terminal domain of the flagellar hook-length control protein FliK. This entry also includes YscP of the Yersinia type III secretion system, and equivalent proteins in other pathogenic bacterial type III secretion systems. During flagellar morphogenesis in Salmonella typhimurium and Escherichia coli, flagellar hook-length control protein (FliK) controls the length of the hook by directly measuring the hook length [, ]. It is considered unlikely that FliK functions as a molecular ruler for determining hook length, but that it is more likely to be employing a novel mechanism. The deduced amino acid sequences of FliK proteins from S. typhimurium and E. coli have molecular masses of 41,748 and 39,246 Da, respectively, and are fairly hydrophilic []. Sequence comparison reveals around 50% identity, with greatest conservation in the C-terminal region, with 71% identity in the last 154 amino acids - mutagenesis of this conserved region completely abolishes motility. The central and C-terminal regions are rich in proline and glutamine respectively; it is thought that they may constitute distinct domains [].; PDB: 2RRL_A.
Probab=31.26 E-value=1.4e+02 Score=22.81 Aligned_cols=44 Identities=14% Similarity=0.148 Sum_probs=29.4
Q ss_pred cceEEecceeEEEEEcCCCC------ChHHHHHHHHHhCCCeEEEEEEee
Q 038389 270 FDVERREIDTRIDICCSSKP------GLLLSTVNTLEVLGLEIQQCVISC 313 (353)
Q Consensus 270 VeVe~~~~~v~I~I~C~~r~------GlL~~Il~aLe~LgLdVv~A~IS~ 313 (353)
|.|...++.+.|.|.+.... .-+..+.++|...|+.|.+.+|+.
T Consensus 29 v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~~~~~~v~~ 78 (85)
T PF02120_consen 29 VKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGLEVVNLSVSQ 78 (85)
T ss_dssp EEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-EEEEEEEES
T ss_pred EEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEEEE
Confidence 44455677888999886532 245678889999999999766653
No 126
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=30.85 E-value=1.1e+02 Score=26.72 Aligned_cols=36 Identities=17% Similarity=0.212 Sum_probs=27.5
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhh
Q 038389 281 IDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEA 326 (353)
Q Consensus 281 I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~ 326 (353)
+-|.-+++||-|++|+++|-..++.+- -++++..+.
T Consensus 72 laVEmeD~PG~l~~I~~vl~d~diNld----------YiYAFv~ek 107 (142)
T COG4747 72 LAVEMEDVPGGLSRIAEVLGDADINLD----------YIYAFVTEK 107 (142)
T ss_pred EEEEecCCCCcHHHHHHHHhhcCcCce----------eeeeeeecC
Confidence 445568999999999999998887665 356665554
No 127
>cd04890 ACT_AK-like_1 ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the first of two ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids, lysine, threonine, methionine, and isoleucine. This CD, includes the first ACT domain of the Escherichia coli (EC) isoenzyme, AKIII (LysC) and the Arabidopsis isoenzyme, asparate kinase 1, both enzymes monofunctional and involved in lysine synthesis, as well as the the first ACT domain of Bacillus subtilis (BS) isoenzyme, AKIII (YclM), and of the Saccharomyces cerevisiae AK (Hom3). Also included are the first ACT domains of the Methylomicrobium alcaliphilum AK, the first enzyme of the ectoine biosynthetic pathway. Members of this CD bel
Probab=30.44 E-value=1.7e+02 Score=20.84 Aligned_cols=24 Identities=21% Similarity=0.324 Sum_probs=21.2
Q ss_pred CCCChHHHHHHHHHhCCCeEEEEE
Q 038389 287 SKPGLLLSTVNTLEVLGLEIQQCV 310 (353)
Q Consensus 287 ~r~GlL~~Il~aLe~LgLdVv~A~ 310 (353)
..+|.+.+|+++|++.|+.|..-.
T Consensus 12 ~~~~~~~~if~~l~~~~i~v~~i~ 35 (62)
T cd04890 12 GEVGFLRKIFEILEKHGISVDLIP 35 (62)
T ss_pred cccCHHHHHHHHHHHcCCeEEEEe
Confidence 578999999999999999998653
No 128
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=30.01 E-value=44 Score=29.90 Aligned_cols=29 Identities=28% Similarity=0.208 Sum_probs=21.2
Q ss_pred CCCCCccchHHHHHHHHHHHHHHHhhhhc
Q 038389 179 LEGQPSKNLMAERRRRKRLNDRLSMLRSI 207 (353)
Q Consensus 179 ~~~~~~~h~~~ER~RR~~in~~~~~Lrsl 207 (353)
....+.+....||+||.=-..-|.-||..
T Consensus 8 t~kErEnnk~RERrRRAIaakIfaGLR~~ 36 (150)
T PF05687_consen 8 TWKERENNKRRERRRRAIAAKIFAGLRAH 36 (150)
T ss_pred cHhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33456777889999996666667777774
No 129
>PRK11899 prephenate dehydratase; Provisional
Probab=28.47 E-value=2.6e+02 Score=27.34 Aligned_cols=65 Identities=9% Similarity=0.051 Sum_probs=41.9
Q ss_pred eEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCCe-EEEEeehhhhccccccCHHHHHHHHHHhh
Q 038389 279 TRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFNDF-SLQASCSEAAERRTLLSSEEIKQALFSNA 346 (353)
Q Consensus 279 v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~-~l~a~~~e~~~~~~~is~e~IkQAL~kaa 346 (353)
..|-+..+++||.|.++|..+...|+.++.-..=...+. --+.|..+.. + ......+++||..+-
T Consensus 195 tsl~~~~~~~pGaL~~vL~~Fa~~gINLtkIeSRP~~~~~~~Y~F~id~e-g--~~~d~~v~~aL~~l~ 260 (279)
T PRK11899 195 TTFVFRVRNIPAALYKALGGFATNGVNMTKLESYMVGGSFTATQFYADIE-G--HPEDRNVALALEELR 260 (279)
T ss_pred EEEEEEeCCCCChHHHHHHHHHHcCCCeeeEEeeecCCCCceEEEEEEEE-C--CCCCHHHHHHHHHHH
Confidence 445555579999999999999999999987666555432 2234444442 1 234445666665543
No 130
>cd04892 ACT_AK-like_2 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the second of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). The exception in this group, is the inclusion of the first ACT domain of the bifunctional aspartokinase - homoserine dehydrogenase-like enzyme group (ACT_AKi-HSDH-ThrA-like_1) which includes the monofunctional, threonine-sensitive, aspartokinase found in Methanococcus jannaschii and other related archaeal species. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. AK is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of AK with different repressors an
Probab=27.97 E-value=2e+02 Score=19.63 Aligned_cols=33 Identities=15% Similarity=0.276 Sum_probs=25.8
Q ss_pred EEEEEcC---CCCChHHHHHHHHHhCCCeEEEEEEe
Q 038389 280 RIDICCS---SKPGLLLSTVNTLEVLGLEIQQCVIS 312 (353)
Q Consensus 280 ~I~I~C~---~r~GlL~~Il~aLe~LgLdVv~A~IS 312 (353)
.|+|.+. ..++.+.+++++|.+.++.|.....+
T Consensus 2 ~i~i~g~~~~~~~~~~~~i~~~l~~~~i~v~~i~~~ 37 (65)
T cd04892 2 LVSVVGAGMRGTPGVAARIFSALAEAGINIIMISQG 37 (65)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCcEEEEEcC
Confidence 4566543 57899999999999999999865543
No 131
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=27.80 E-value=1.6e+02 Score=22.38 Aligned_cols=31 Identities=16% Similarity=0.242 Sum_probs=24.7
Q ss_pred EEEEEc---CCCCChHHHHHHHHHhCCCeEEEEE
Q 038389 280 RIDICC---SSKPGLLLSTVNTLEVLGLEIQQCV 310 (353)
Q Consensus 280 ~I~I~C---~~r~GlL~~Il~aLe~LgLdVv~A~ 310 (353)
.|.|.+ ...+|.+.+|+++|.+.|+.|..-.
T Consensus 3 ~Vsi~g~~l~~~~g~~~~if~~L~~~~I~v~~i~ 36 (75)
T cd04912 3 LLNIKSNRMLGAHGFLAKVFEIFAKHGLSVDLIS 36 (75)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHcCCeEEEEE
Confidence 455543 4579999999999999999997543
No 132
>cd04937 ACT_AKi-DapG-BS_2 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI. This CD includes the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) strain 168), Clostridia, and Actinobacteria bacterial species. In B. subtilis, the regulation of the diaminopimelate-lysine biosynthetic pathway involves dual control by diaminopimelate and lysine, effected through separate diaminopimelate- and lysine-sensitive AK isoenzymes. AKI activity is invariant during the exponential and stationary phases of growth and is not altered by addition of amino acids to the growth medium. The role of this isoenzyme is most likely to provide a constant level of aspartyl-beta-phosphate for the biosynthesis of diaminopimelate for peptidoglycan synthesis and dipicolinate during sporulation. The BS AKI is tetrameric consisting of two alpha and two beta subunits; th
Probab=27.77 E-value=1.5e+02 Score=21.59 Aligned_cols=27 Identities=33% Similarity=0.513 Sum_probs=22.6
Q ss_pred EEEEcC---CCCChHHHHHHHHHhCCCeEE
Q 038389 281 IDICCS---SKPGLLLSTVNTLEVLGLEIQ 307 (353)
Q Consensus 281 I~I~C~---~r~GlL~~Il~aLe~LgLdVv 307 (353)
|.|.+. ..+|++.+++++|.+.|+.|.
T Consensus 4 isvvG~~~~~~~gi~~~if~aL~~~~I~v~ 33 (64)
T cd04937 4 VTIIGSRIRGVPGVMAKIVGALSKEGIEIL 33 (64)
T ss_pred EEEECCCccCCcCHHHHHHHHHHHCCCCEE
Confidence 445443 589999999999999999997
No 133
>COG0013 AlaS Alanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=27.69 E-value=9.8e+02 Score=27.50 Aligned_cols=58 Identities=14% Similarity=0.089 Sum_probs=33.2
Q ss_pred CCCChHHHHHHHHHhC-CCeEEEEEEeeeCCeEEEEe-ehhhhccccccCHHHHHHHHHHhhc
Q 038389 287 SKPGLLLSTVNTLEVL-GLEIQQCVISCFNDFSLQAS-CSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 287 ~r~GlL~~Il~aLe~L-gLdVv~A~IS~~~d~~l~a~-~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
..+.-|..++..|.+. +-.|+ ..++..++.+..+. ..+.. ...+++.+|.+.|...+|
T Consensus 785 ~d~~~Lr~~a~~lk~k~~~~vi-vl~~~~~~Kv~~~~~v~~~~--~~~~~a~~lvk~la~~~g 844 (879)
T COG0013 785 ADMKELREIADDLKKKLGSAVI-VLASVADGKVSLVVAVSKDL--TDKVKAGELVKELAAIVG 844 (879)
T ss_pred CCHHHHHHHHHHHHhhcCCcEE-EEEEecCCeEEEEEEechhh--hcccCHHHHHHHHHHhcC
Confidence 4456777888877663 33333 44454444332222 22221 223899999999988776
No 134
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=26.38 E-value=1.1e+02 Score=23.88 Aligned_cols=23 Identities=13% Similarity=0.271 Sum_probs=19.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 038389 220 LGDTIDYLKELLERINKLQEEET 242 (353)
Q Consensus 220 L~~ai~YIk~Lq~~v~~L~~~~~ 242 (353)
+..||+-|..||.++++|+.+..
T Consensus 13 i~~aveti~~Lq~e~eeLke~n~ 35 (72)
T PF06005_consen 13 IQQAVETIALLQMENEELKEKNN 35 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 67899999999999999998643
No 135
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=26.28 E-value=24 Score=38.82 Aligned_cols=56 Identities=25% Similarity=0.339 Sum_probs=47.1
Q ss_pred CCccchHHHHHHHHHHHHHHHhhhhcCCCC-----CCCCccchhHHHHHHHHHHHHHHHHHHHH
Q 038389 182 QPSKNLMAERRRRKRLNDRLSMLRSIVPKI-----SKMDRTSILGDTIDYLKELLERINKLQEE 240 (353)
Q Consensus 182 ~~~~h~~~ER~RR~~in~~~~~LrslvP~~-----~k~dKasIL~~ai~YIk~Lq~~v~~L~~~ 240 (353)
....|+-++||||-.+.++|..|..|.|.. .+..++|||. +.|+.+++.-+.+.+.
T Consensus 787 v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~ 847 (856)
T KOG3582|consen 787 VSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEK 847 (856)
T ss_pred eecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhh
Confidence 456789999999999999999999999863 4668899999 7888888887777764
No 136
>PRK08526 threonine dehydratase; Provisional
Probab=25.61 E-value=2.5e+02 Score=28.68 Aligned_cols=39 Identities=18% Similarity=0.273 Sum_probs=33.9
Q ss_pred cceeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeee
Q 038389 276 EIDTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCF 314 (353)
Q Consensus 276 ~~~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~ 314 (353)
+..+.+.+.-+++||-|.+++..+-+.+.+|+.-.....
T Consensus 324 ~r~~~~~~~~~d~pg~l~~~~~~~~~~~~~i~~~~~~r~ 362 (403)
T PRK08526 324 YRKMKLHVTLVDKPGALMGLTDILKEANANIVKIDYDRF 362 (403)
T ss_pred CCEEEEEEEcCCCCCHHHHHHHHHccCCCcEEEEEEEec
Confidence 566788999999999999999999999999998776543
No 137
>cd04868 ACT_AK-like ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes each of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). Typically, AK consists of two ACT domains in a tandem repeat, but the second ACT domain is inserted within the first, resulting in, what is normally the terminal beta strand of ACT2, formed from a region N-terminal of ACT1. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Aspartokinase is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of aspartokinase with different repressors and allosteric inhibitors. Pairs of ACT domains are proposed to specifically bind am
Probab=24.81 E-value=2e+02 Score=19.12 Aligned_cols=24 Identities=17% Similarity=0.380 Sum_probs=20.4
Q ss_pred CCCChHHHHHHHHHhCCCeEEEEE
Q 038389 287 SKPGLLLSTVNTLEVLGLEIQQCV 310 (353)
Q Consensus 287 ~r~GlL~~Il~aLe~LgLdVv~A~ 310 (353)
+.+|.+.+++++|.+.++.|..-.
T Consensus 12 ~~~~~~~~i~~~l~~~~i~i~~i~ 35 (60)
T cd04868 12 GTPGVAAKIFSALAEAGINVDMIS 35 (60)
T ss_pred CCCCHHHHHHHHHHHCCCcEEEEE
Confidence 468999999999999999997443
No 138
>cd04932 ACT_AKiii-LysC-EC_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The E. coli AKIII (LysC) binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.00 E-value=2.5e+02 Score=21.65 Aligned_cols=31 Identities=10% Similarity=0.148 Sum_probs=24.8
Q ss_pred EEEEE---cCCCCChHHHHHHHHHhCCCeEEEEE
Q 038389 280 RIDIC---CSSKPGLLLSTVNTLEVLGLEIQQCV 310 (353)
Q Consensus 280 ~I~I~---C~~r~GlL~~Il~aLe~LgLdVv~A~ 310 (353)
+|+|. ....+|.+.+|+.+|.+.|+.|-.-.
T Consensus 3 ~ItI~~~~~~~~~g~~~~IF~~La~~~I~VDmI~ 36 (75)
T cd04932 3 LVTLKSPNMLHAQGFLAKVFGILAKHNISVDLIT 36 (75)
T ss_pred EEEEecCCCCCCcCHHHHHHHHHHHcCCcEEEEe
Confidence 45553 25679999999999999999998654
No 139
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.99 E-value=1.3e+02 Score=23.81 Aligned_cols=23 Identities=26% Similarity=0.404 Sum_probs=19.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 038389 220 LGDTIDYLKELLERINKLQEEET 242 (353)
Q Consensus 220 L~~ai~YIk~Lq~~v~~L~~~~~ 242 (353)
+..||+-|.-||-.|++|+++..
T Consensus 13 iqqAvdTI~LLQmEieELKEknn 35 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNN 35 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 67899999999999999998653
No 140
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=22.86 E-value=2.4e+02 Score=21.02 Aligned_cols=41 Identities=17% Similarity=0.414 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhhhhcCCCCCCCCccchhHHHHHHHHHHHHHHHHHH
Q 038389 191 RRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTIDYLKELLERINKLQ 238 (353)
Q Consensus 191 R~RR~~in~~~~~LrslvP~~~k~dKasIL~~ai~YIk~Lq~~v~~L~ 238 (353)
|.-|=.....+..+..++- .. =.++|.+||+++-+.++.+.
T Consensus 17 R~~RHD~~NhLqvI~gllq-lg------~~~~a~eYi~~~~~~~~~~s 57 (62)
T PF14689_consen 17 RAQRHDFLNHLQVIYGLLQ-LG------KYEEAKEYIKELSKDLQQES 57 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHH-TT-------HHHHHHHHHHHHHHHHHHH
T ss_pred HHHhHHHHHHHHHHHHHHH-CC------CHHHHHHHHHHHHHHHHHHH
Confidence 5566667778888888873 12 25788999999999888774
No 141
>PRK11020 hypothetical protein; Provisional
Probab=22.63 E-value=1.4e+02 Score=25.81 Aligned_cols=52 Identities=25% Similarity=0.272 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCCCCCccchhHHHHHHHHHHHHHHHHHHHHH
Q 038389 190 ERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTIDYLKELLERINKLQEEE 241 (353)
Q Consensus 190 ER~RR~~in~~~~~LrslvP~~~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~ 241 (353)
+++-=++||+++..+|-=++.....+.+.++..--+-|..|..+|+.|+..+
T Consensus 3 ~K~Eiq~L~drLD~~~~Klaaa~~rgd~~~i~qf~~E~~~l~k~I~~lk~~~ 54 (118)
T PRK11020 3 EKNEIKRLSDRLDAIRHKLAAASLRGDAEKYAQFEKEKATLEAEIARLKEVQ 54 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444567899999998877776677778888888888888888888887654
No 142
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=22.21 E-value=2.5e+02 Score=24.99 Aligned_cols=48 Identities=27% Similarity=0.340 Sum_probs=33.4
Q ss_pred chHHHHHHHHHHHHHHHhhhhcCCCCCCCCccchhHHHHHHHHHHHHHHHHHHHHHHHh
Q 038389 186 NLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTIDYLKELLERINKLQEEETEL 244 (353)
Q Consensus 186 h~~~ER~RR~~in~~~~~LrslvP~~~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~~e~ 244 (353)
....+|+.|..+.+.-.+++++ |..++=.+|.| |++++.+|++|.++.
T Consensus 38 ~~~~~~~l~~Ei~~l~~E~~~i----------S~qDeFAkwaK-l~Rk~~kl~~el~~~ 85 (161)
T PF04420_consen 38 SSKEQRQLRKEILQLKRELNAI----------SAQDEFAKWAK-LNRKLDKLEEELEKL 85 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTS-----------TTTSHHHHHH-HHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHHHHcC----------CcHHHHHHHHH-HHHHHHHHHHHHHHH
Confidence 3556677777777777777665 55667778887 788888888775543
No 143
>cd04913 ACT_AKii-LysC-BS-like_1 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins. This CD includes the N-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, and related sequences. In B. subtilis 168, the regulation of the diaminopimelate (Dap)-lysine biosynthetic pathway involves dual control by Dap and lysine, effected through separate Dap- and lysine-sensitive aspartokinase isoenzymes. The B. subtilis 168 AKII is induced by methionine and repressed and inhibited by lysine. Although Corynebacterium glutamicum is known to contain a single aspartokinase, both the succinylase and dehydrogenase variant pathways of DAP-lysine synthesis operate simultaneously in this organism. In corynebacteria and other various Gram-positive bacteria, the DAP-lysine pathway is fee
Probab=21.61 E-value=1.6e+02 Score=21.08 Aligned_cols=24 Identities=17% Similarity=0.351 Sum_probs=21.2
Q ss_pred CCCCChHHHHHHHHHhCCCeEEEE
Q 038389 286 SSKPGLLLSTVNTLEVLGLEIQQC 309 (353)
Q Consensus 286 ~~r~GlL~~Il~aLe~LgLdVv~A 309 (353)
++.+|.+.+++.+|.+.|+.|.-.
T Consensus 10 ~~~~g~~~~i~~~L~~~~I~i~~i 33 (75)
T cd04913 10 PDKPGVAAKIFGALAEANINVDMI 33 (75)
T ss_pred CCCCcHHHHHHHHHHHcCCeEEEE
Confidence 678999999999999999999633
No 144
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=20.25 E-value=8.7e+02 Score=24.22 Aligned_cols=203 Identities=13% Similarity=0.146 Sum_probs=0.0
Q ss_pred cccccCCCCCCCcC--CCCccccccCcccccccccCCCCccccCCCCCCCCCCCCCCCCcccccCCCCCCCCCccccccC
Q 038389 21 DAWSSFSGGLNEYL--PSGWILDSLDESSTLAAAASNPSSFVGFSAAPSEASFECPPFTDHLHQGYHPFVDGFTVPEVDT 98 (353)
Q Consensus 21 ~~~~~~~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~p~~~~~~~~~~~~~~f~~~~~~~~~~~~~~p~~~~f~~~~~~~ 98 (353)
.+|-.++..|++++ .++...-.....++.+ -|.+...--++|++ +-+| |.. .-.-..|......+
T Consensus 61 ~~~~s~~dn~~e~~~~~e~~~l~~~~~~~~~~----~P~~s~~tl~~pqs--lf~P-~~q------q~e~q~~~~~~~~~ 127 (294)
T KOG4571|consen 61 EDAFSVPDNMTEKMDLKEFASLAPHGIPQLHT----MPDHSLQTLTDPQS--LFAP-LVQ------QTEKQPPDNSPLNP 127 (294)
T ss_pred ccccccccccchhhHHHhhcccccCCCcccCC----CCcccCCCCcchhh--hcCc-ccc------ccccCCCCCCCCcc
Q ss_pred CCCCCCCCCCCCCCCCCCCCCccccchhhhcccCCCccCCCCccccccCcch-------hh--hhhhcccCCCCCCCC-c
Q 038389 99 SSYTKNEIPSFPSAQEEYPPMVVEEDRDQLCLRSSDHLHQNHSFEETKSSCA-------EI--EQATSNITNQGFNMG-L 168 (353)
Q Consensus 99 ~~~~~~~~~~~~~~q~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~s~~-------~e--~~~~~~~~~~~~~~~-~ 168 (353)
..-..+..++-|+++..+-......+..+ -.+......++|++....|- .+ .....++..+..... .
T Consensus 128 q~~~~q~~~~~P~~p~~~~s~~~~~e~~~---~~~~~~~~s~~l~~i~~~C~~q~s~~d~~~~~~e~~~~~~~~~q~~~~ 204 (294)
T KOG4571|consen 128 QMVPPQAPPPSPGGPDPFCSLELVHERCS---MEPNQQEKSTILEEIVRECEHQDSPSDNERGQSEHSNSALASPQSNDL 204 (294)
T ss_pred ccCCCCCCCCCCCCCCcccccCCCccccc---cccccchhhHHHHHHHHHHHhccCcccchhhhhcccccccCCccccCC
Q ss_pred cccccccCccCCCCCccchHHHHHHHHHHHHHHHhhhhcCCCCCCCCccchhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 038389 169 CVDRKRKNKKLEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTIDYLKELLERINKLQEEETELG 245 (353)
Q Consensus 169 ~~~~k~~~~~~~~~~~~h~~~ER~RR~~in~~~~~LrslvP~~~k~dKasIL~~ai~YIk~Lq~~v~~L~~~~~e~~ 245 (353)
...--.-..-..+........++.||++.+.+..+.|= +-.|..=-.++..-++.|..+-++|+.+..++.
T Consensus 205 ~~s~p~ps~ie~s~~~~~~~~~~~~rkr~qnk~AAtRY------RqKkRae~E~l~ge~~~Le~rN~~LK~qa~~le 275 (294)
T KOG4571|consen 205 VSSDPQPSQIEKSAHPYKTPEKKLRRKRQQNKAAATRY------RQKKRAEKEALLGELEGLEKRNEELKDQASELE 275 (294)
T ss_pred CCCCCCcccccccCCCCCCchHHHHHHHHHhHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 145
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=20.25 E-value=1.3e+03 Score=26.40 Aligned_cols=56 Identities=18% Similarity=0.134 Sum_probs=30.5
Q ss_pred CCCCChHHHHHHHHHhCCCeEEEEEEeeeCCeEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 286 SSKPGLLLSTVNTLEVLGLEIQQCVISCFNDFSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 286 ~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
......|..++..|.+.. .+ +.+.+.++.. ..++... ....+++.+|.+.|.+.+|
T Consensus 810 ~~d~~~Lr~~a~~l~~~~-~~--vvl~~~~~k~-~~v~~~~--~~~~~~a~~lvk~l~~~~g 865 (900)
T PRK13902 810 DADEDELRKIANELAKEG-KV--ALVVLGNGGG-QIVVGVG--EDVGVNAGEIVRELAKVLG 865 (900)
T ss_pred CCCHHHHHHHHHHHHhcC-Ce--EEEEEcCCcE-EEEEEEC--hhhhhhHHHHHHHHHHhcC
Confidence 444567788888886554 33 2333333322 1111111 1112788889888888876
No 146
>COG0077 PheA Prephenate dehydratase [Amino acid transport and metabolism]
Probab=20.02 E-value=4.2e+02 Score=26.15 Aligned_cols=67 Identities=13% Similarity=0.163 Sum_probs=44.0
Q ss_pred eeEEEEEcCCCCChHHHHHHHHHhCCCeEEEEEEeeeCC-eEEEEeehhhhccccccCHHHHHHHHHHhhc
Q 038389 278 DTRIDICCSSKPGLLLSTVNTLEVLGLEIQQCVISCFND-FSLQASCSEAAERRTLLSSEEIKQALFSNAG 347 (353)
Q Consensus 278 ~v~I~I~C~~r~GlL~~Il~aLe~LgLdVv~A~IS~~~d-~~l~a~~~e~~~~~~~is~e~IkQAL~kaag 347 (353)
...|-+.-+++||.|.++|..|...|++...-..=.... .--+.|..+. ...++...+++||.+.-.
T Consensus 194 kTsl~f~~~n~PGaL~~~L~~Fa~~gINlTkIESRP~k~~~~~Y~F~iD~---eg~~~~~~v~~AL~el~~ 261 (279)
T COG0077 194 KTSLIFSVPNKPGALYKALGVFAKRGINLTKIESRPLKTGLGEYLFFIDI---EGHIDDPLVKEALEELKE 261 (279)
T ss_pred eEEEEEEcCCCCchHHHHHHHHHHcCcceeeEeecccCCCCeeEEEEEEE---ecCcCcHhHHHHHHHHHh
Confidence 344555556999999999999999999888665555543 2233444443 223444777777766543
Done!