Query 042904
Match_columns 320
No_of_seqs 271 out of 1185
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 10:48:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042904.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042904hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00010 HLH: Helix-loop-helix 99.4 1.4E-13 3E-18 99.8 5.4 51 103-153 2-55 (55)
2 cd00083 HLH Helix-loop-helix d 99.4 2.6E-13 5.6E-18 99.1 5.9 57 101-157 3-60 (60)
3 smart00353 HLH helix loop heli 99.4 1.1E-12 2.4E-17 93.8 6.3 51 107-157 1-52 (53)
4 KOG1318 Helix loop helix trans 99.2 3.4E-11 7.4E-16 119.0 7.8 61 99-159 230-292 (411)
5 KOG1319 bHLHZip transcription 98.6 4.3E-08 9.2E-13 87.6 5.7 65 102-166 62-131 (229)
6 KOG2483 Upstream transcription 98.4 1.5E-06 3.3E-11 80.7 9.2 65 101-165 58-123 (232)
7 KOG3561 Aryl-hydrocarbon recep 98.2 1.2E-06 2.5E-11 93.4 5.3 53 103-155 21-75 (803)
8 KOG4304 Transcriptional repres 98.2 6.5E-07 1.4E-11 84.2 2.8 58 101-158 31-94 (250)
9 cd04895 ACT_ACR_1 ACT domain-c 98.2 9.3E-06 2E-10 62.6 7.6 47 270-316 2-48 (72)
10 cd04897 ACT_ACR_3 ACT domain-c 98.1 9.6E-06 2.1E-10 63.0 7.5 46 271-316 3-48 (75)
11 KOG3960 Myogenic helix-loop-he 98.1 5.5E-06 1.2E-10 77.2 6.6 66 101-166 117-182 (284)
12 cd04927 ACT_ACR-like_2 Second 98.1 1.6E-05 3.5E-10 61.3 7.6 47 270-316 1-48 (76)
13 KOG4029 Transcription factor H 98.0 5.9E-06 1.3E-10 76.4 4.3 64 100-163 107-172 (228)
14 cd04900 ACT_UUR-like_1 ACT dom 98.0 3.9E-05 8.4E-10 58.3 7.9 47 270-316 2-49 (73)
15 cd04896 ACT_ACR-like_3 ACT dom 97.9 3.4E-05 7.3E-10 60.0 7.2 46 271-316 2-49 (75)
16 KOG2588 Predicted DNA-binding 97.9 5E-06 1.1E-10 89.1 2.7 66 100-166 274-339 (953)
17 KOG0561 bHLH transcription fac 97.9 9.9E-06 2.1E-10 77.3 3.4 57 103-159 61-117 (373)
18 cd04925 ACT_ACR_2 ACT domain-c 97.7 0.00021 4.6E-09 54.6 7.8 46 271-316 2-47 (74)
19 cd04928 ACT_TyrKc Uncharacteri 97.5 0.00059 1.3E-08 52.1 7.5 46 271-316 3-49 (68)
20 cd04899 ACT_ACR-UUR-like_2 C-t 97.3 0.0012 2.6E-08 48.8 7.7 47 271-317 2-48 (70)
21 KOG4447 Transcription factor T 97.3 0.00011 2.3E-09 64.1 2.0 64 93-156 69-132 (173)
22 PLN03217 transcription factor 97.3 0.00064 1.4E-08 53.8 6.0 54 114-167 19-76 (93)
23 cd04926 ACT_ACR_4 C-terminal 97.3 0.0017 3.6E-08 49.3 7.8 46 271-316 3-48 (72)
24 KOG3910 Helix loop helix trans 97.2 0.00042 9.2E-09 70.1 5.4 62 99-160 523-586 (632)
25 cd04873 ACT_UUR-ACR-like ACT d 96.6 0.013 2.8E-07 42.7 7.8 47 271-317 2-48 (70)
26 PRK05007 PII uridylyl-transfer 96.6 0.0062 1.3E-07 66.7 8.2 50 267-316 806-855 (884)
27 PF13740 ACT_6: ACT domain; PD 96.4 0.023 4.9E-07 43.5 8.3 49 269-317 2-50 (76)
28 PF01842 ACT: ACT domain; Int 96.4 0.022 4.8E-07 41.0 7.8 38 270-307 1-38 (66)
29 PF13291 ACT_4: ACT domain; PD 96.4 0.027 5.8E-07 43.0 8.5 51 269-319 6-58 (80)
30 PRK00275 glnD PII uridylyl-tra 96.4 0.016 3.4E-07 63.8 9.7 58 259-316 802-861 (895)
31 PRK04374 PII uridylyl-transfer 96.2 0.02 4.3E-07 62.7 9.6 58 259-316 784-843 (869)
32 PRK03059 PII uridylyl-transfer 96.1 0.023 5E-07 62.2 9.2 50 267-316 784-833 (856)
33 PRK03381 PII uridylyl-transfer 96.1 0.023 4.9E-07 61.5 9.0 49 268-316 706-754 (774)
34 PRK01759 glnD PII uridylyl-tra 96.0 0.019 4E-07 62.9 7.9 50 267-316 781-830 (854)
35 PRK05092 PII uridylyl-transfer 95.9 0.034 7.3E-07 61.4 9.5 59 259-317 831-891 (931)
36 cd04893 ACT_GcvR_1 ACT domains 95.9 0.046 1E-06 41.9 7.4 48 270-317 2-49 (77)
37 COG2844 GlnD UTP:GlnB (protein 95.6 0.026 5.6E-07 60.8 6.6 58 259-316 779-838 (867)
38 TIGR01693 UTase_glnD [Protein- 95.4 0.049 1.1E-06 59.4 8.4 51 267-317 666-717 (850)
39 cd04887 ACT_MalLac-Enz ACT_Mal 95.4 0.11 2.3E-06 38.6 7.8 47 272-318 2-49 (74)
40 KOG3898 Transcription factor N 95.4 0.017 3.7E-07 54.7 4.0 58 99-156 69-127 (254)
41 PRK01759 glnD PII uridylyl-tra 95.2 0.066 1.4E-06 58.6 8.5 58 259-316 665-725 (854)
42 TIGR01693 UTase_glnD [Protein- 95.1 0.066 1.4E-06 58.4 8.3 51 267-317 777-827 (850)
43 PRK03381 PII uridylyl-transfer 95.1 0.07 1.5E-06 57.9 8.2 58 259-316 588-646 (774)
44 PRK05007 PII uridylyl-transfer 95.1 0.085 1.8E-06 58.0 8.8 58 259-316 689-749 (884)
45 PRK00194 hypothetical protein; 95.0 0.073 1.6E-06 41.5 6.0 49 269-317 3-51 (90)
46 cd04869 ACT_GcvR_2 ACT domains 95.0 0.12 2.5E-06 39.2 6.9 47 271-317 1-53 (81)
47 PRK00275 glnD PII uridylyl-tra 94.8 0.079 1.7E-06 58.3 7.9 49 268-316 703-752 (895)
48 cd04886 ACT_ThrD-II-like C-ter 94.8 0.14 3.1E-06 36.9 6.8 46 272-317 1-51 (73)
49 PRK03059 PII uridylyl-transfer 94.8 0.089 1.9E-06 57.7 8.1 50 267-316 676-726 (856)
50 cd04872 ACT_1ZPV ACT domain pr 94.7 0.08 1.7E-06 41.3 5.6 48 270-317 2-49 (88)
51 cd04875 ACT_F4HF-DF N-terminal 94.6 0.12 2.7E-06 38.8 6.2 35 271-305 1-35 (74)
52 cd04888 ACT_PheB-BS C-terminal 94.2 0.21 4.6E-06 37.0 6.8 49 270-318 1-50 (76)
53 PRK05092 PII uridylyl-transfer 94.2 0.18 3.9E-06 55.8 8.7 58 259-316 720-780 (931)
54 cd04876 ACT_RelA-SpoT ACT dom 94.1 0.27 6E-06 33.9 6.7 46 272-317 1-47 (71)
55 cd04870 ACT_PSP_1 CT domains f 94.0 0.22 4.7E-06 37.8 6.4 47 271-317 1-47 (75)
56 PRK04435 hypothetical protein; 93.8 0.35 7.6E-06 41.9 8.1 54 265-318 65-119 (147)
57 PRK04374 PII uridylyl-transfer 93.7 0.21 4.6E-06 54.9 8.2 50 267-316 688-738 (869)
58 cd02116 ACT ACT domains are co 93.5 0.38 8.3E-06 31.3 6.3 35 272-306 1-35 (60)
59 cd04877 ACT_TyrR N-terminal AC 93.3 0.34 7.3E-06 36.5 6.3 37 271-308 2-38 (74)
60 cd04881 ACT_HSDH-Hom ACT_HSDH_ 92.7 0.46 1E-05 34.7 6.3 47 270-316 1-49 (79)
61 cd04874 ACT_Af1403 N-terminal 92.6 0.69 1.5E-05 33.2 7.0 45 271-315 2-47 (72)
62 KOG4395 Transcription factor A 91.9 0.28 6E-06 46.4 5.1 56 101-156 173-229 (285)
63 cd04878 ACT_AHAS N-terminal AC 91.5 1.3 2.8E-05 31.6 7.4 47 271-317 2-50 (72)
64 cd04879 ACT_3PGDH-like ACT_3PG 91.0 0.95 2.1E-05 32.1 6.2 45 272-316 2-48 (71)
65 cd04889 ACT_PDH-BS-like C-term 90.8 1 2.2E-05 31.7 6.1 46 272-317 1-47 (56)
66 cd04880 ACT_AAAH-PDT-like ACT 90.4 1.4 3E-05 33.0 6.9 46 273-318 3-49 (75)
67 PRK08577 hypothetical protein; 90.4 1.9 4.1E-05 36.5 8.5 51 268-318 55-107 (136)
68 cd04903 ACT_LSD C-terminal ACT 89.4 1.6 3.4E-05 31.1 6.3 44 272-315 2-47 (71)
69 cd04894 ACT_ACR-like_1 ACT dom 88.8 1.4 2.9E-05 33.5 5.4 46 271-316 2-47 (69)
70 cd04905 ACT_CM-PDT C-terminal 88.8 2.8 6E-05 31.9 7.5 48 271-318 3-51 (80)
71 PRK07334 threonine dehydratase 88.6 1.9 4.2E-05 43.0 8.3 49 270-318 327-380 (403)
72 COG2844 GlnD UTP:GlnB (protein 87.7 1.5 3.4E-05 47.7 7.2 58 259-316 674-732 (867)
73 cd04909 ACT_PDH-BS C-terminal 87.4 3.4 7.3E-05 30.1 7.0 36 270-305 2-37 (69)
74 KOG4447 Transcription factor T 86.3 0.69 1.5E-05 40.7 3.0 46 109-154 29-74 (173)
75 cd04882 ACT_Bt0572_2 C-termina 86.2 2.1 4.5E-05 30.4 5.2 44 272-315 2-47 (65)
76 TIGR00691 spoT_relA (p)ppGpp s 84.0 5.3 0.00012 43.0 9.1 61 259-319 595-661 (683)
77 cd04908 ACT_Bt0572_1 N-termina 83.9 5.6 0.00012 29.0 6.7 38 271-308 3-40 (66)
78 KOG3560 Aryl-hydrocarbon recep 83.9 0.86 1.9E-05 47.4 3.0 39 112-150 35-75 (712)
79 PRK10872 relA (p)ppGpp synthet 83.8 5.5 0.00012 43.4 9.1 61 259-319 651-718 (743)
80 PRK11092 bifunctional (p)ppGpp 83.7 5.5 0.00012 43.1 9.1 61 259-319 611-677 (702)
81 cd04883 ACT_AcuB C-terminal AC 83.5 7.6 0.00017 28.2 7.3 46 271-316 3-50 (72)
82 KOG3558 Hypoxia-inducible fact 80.5 1.3 2.7E-05 47.4 2.8 44 107-150 51-96 (768)
83 cd04884 ACT_CBS C-terminal ACT 80.1 9.2 0.0002 28.2 6.8 34 272-305 2-35 (72)
84 cd04931 ACT_PAH ACT domain of 79.6 9.9 0.00021 30.3 7.1 49 270-318 15-64 (90)
85 KOG3559 Transcriptional regula 79.4 1.6 3.5E-05 44.0 3.0 43 109-151 8-52 (598)
86 cd04904 ACT_AAAH ACT domain of 78.6 7.9 0.00017 29.2 6.0 46 273-318 4-50 (74)
87 cd04902 ACT_3PGDH-xct C-termin 78.6 5.8 0.00013 28.8 5.2 44 273-316 3-48 (73)
88 cd04901 ACT_3PGDH C-terminal A 76.7 2.1 4.7E-05 30.9 2.3 46 272-317 2-47 (69)
89 COG3830 ACT domain-containing 74.8 3.5 7.7E-05 33.2 3.2 49 269-317 3-51 (90)
90 PRK13010 purU formyltetrahydro 73.2 9.5 0.00021 36.8 6.4 35 269-303 9-43 (289)
91 cd04929 ACT_TPH ACT domain of 68.8 23 0.00051 27.0 6.5 43 276-318 7-50 (74)
92 KOG3582 Mlx interactors and re 67.3 1.6 3.6E-05 46.6 -0.3 64 101-164 650-716 (856)
93 cd04930 ACT_TH ACT domain of t 66.5 21 0.00045 29.7 6.3 48 271-318 43-91 (115)
94 PLN02705 beta-amylase 65.7 6.6 0.00014 41.7 3.7 25 103-127 85-109 (681)
95 PF02120 Flg_hook: Flagellar h 65.1 27 0.00058 26.5 6.3 47 259-305 27-79 (85)
96 PF13710 ACT_5: ACT domain; PD 64.9 29 0.00063 25.6 6.2 40 278-317 1-42 (63)
97 PRK06737 acetolactate synthase 62.6 35 0.00077 26.5 6.4 46 270-315 3-50 (76)
98 cd04868 ACT_AK-like ACT domain 61.9 38 0.00081 22.5 6.0 26 279-304 13-38 (60)
99 PRK11152 ilvM acetolactate syn 60.3 50 0.0011 25.6 6.9 46 270-315 4-51 (76)
100 cd04892 ACT_AK-like_2 ACT doma 60.0 44 0.00095 22.7 6.2 34 271-304 2-38 (65)
101 cd04922 ACT_AKi-HSDH-ThrA_2 AC 59.2 50 0.0011 23.2 6.5 34 271-304 3-39 (66)
102 cd04919 ACT_AK-Hom3_2 ACT doma 59.1 52 0.0011 23.3 6.6 34 271-304 3-39 (66)
103 cd04890 ACT_AK-like_1 ACT doma 58.3 44 0.00096 23.6 6.1 25 278-302 12-36 (62)
104 PRK00227 glnD PII uridylyl-tra 56.5 28 0.0006 37.7 6.6 46 270-316 547-593 (693)
105 COG4492 PheB ACT domain-contai 55.7 44 0.00096 29.1 6.4 51 267-317 70-121 (150)
106 PF05088 Bac_GDH: Bacterial NA 54.2 41 0.0009 39.7 7.8 51 268-318 488-543 (1528)
107 PRK08198 threonine dehydratase 50.8 76 0.0017 31.5 8.3 51 267-317 325-380 (404)
108 cd04916 ACT_AKiii-YclM-BS_2 AC 49.5 87 0.0019 21.9 6.4 34 271-304 3-39 (66)
109 PRK13562 acetolactate synthase 48.4 60 0.0013 25.9 5.7 46 271-316 4-51 (84)
110 PF13840 ACT_7: ACT domain ; P 48.0 26 0.00057 25.7 3.5 33 269-301 6-42 (65)
111 PRK11589 gcvR glycine cleavage 47.6 54 0.0012 29.7 6.1 48 270-317 96-147 (190)
112 cd04937 ACT_AKi-DapG-BS_2 ACT 47.0 98 0.0021 22.2 6.4 29 271-299 3-34 (64)
113 PF02344 Myc-LZ: Myc leucine z 46.2 23 0.00049 23.2 2.4 19 108-126 11-29 (32)
114 cd04932 ACT_AKiii-LysC-EC_1 AC 46.0 93 0.002 23.6 6.4 26 277-302 12-37 (75)
115 COG0317 SpoT Guanosine polypho 45.6 65 0.0014 35.1 7.2 60 259-318 612-677 (701)
116 PRK06382 threonine dehydratase 44.8 85 0.0018 31.4 7.6 51 267-317 328-383 (406)
117 PRK00227 glnD PII uridylyl-tra 44.7 18 0.00038 39.2 2.9 43 270-316 632-674 (693)
118 cd04885 ACT_ThrD-I Tandem C-te 44.5 1E+02 0.0022 22.5 6.2 31 273-304 2-32 (68)
119 cd04913 ACT_AKii-LysC-BS-like_ 40.9 1E+02 0.0023 21.7 5.8 27 277-303 10-36 (75)
120 TIGR01127 ilvA_1Cterm threonin 38.7 1.1E+02 0.0023 30.2 7.1 52 266-317 302-358 (380)
121 cd04912 ACT_AKiii-LysC-EC-like 38.2 1.3E+02 0.0027 22.5 6.0 31 271-301 3-36 (75)
122 cd04933 ACT_AK1-AT_1 ACT domai 38.1 1.4E+02 0.0031 23.0 6.4 32 271-302 3-37 (78)
123 cd04924 ACT_AK-Arch_2 ACT doma 37.8 1.4E+02 0.003 20.8 6.6 34 271-304 3-39 (66)
124 cd04921 ACT_AKi-HSDH-ThrA-like 36.5 1.5E+02 0.0033 21.8 6.2 33 271-303 3-38 (80)
125 PRK08178 acetolactate synthase 36.1 1.6E+02 0.0035 24.0 6.5 39 268-306 7-45 (96)
126 cd04906 ACT_ThrD-I_1 First of 34.9 2.1E+02 0.0045 21.9 7.1 31 270-302 2-32 (85)
127 COG4747 ACT domain-containing 34.6 1.3E+02 0.0029 25.8 6.0 38 271-308 5-42 (142)
128 cd04934 ACT_AK-Hom3_1 CT domai 34.6 1.9E+02 0.0041 21.8 6.4 32 271-302 3-37 (73)
129 PRK11899 prephenate dehydratas 33.8 1.8E+02 0.004 27.9 7.7 50 270-319 195-245 (279)
130 cd04918 ACT_AK1-AT_2 ACT domai 33.5 1.3E+02 0.0028 21.8 5.2 31 278-308 12-42 (65)
131 PF05687 DUF822: Plant protein 30.8 47 0.001 29.1 2.8 25 103-127 12-36 (150)
132 COG3978 Acetolactate synthase 30.5 1.8E+02 0.0038 23.2 5.6 47 270-316 4-52 (86)
133 COG4710 Predicted DNA-binding 29.9 1.1E+02 0.0025 23.8 4.4 33 116-154 15-48 (80)
134 PRK08526 threonine dehydratase 28.6 2.6E+02 0.0056 28.1 8.1 38 267-304 324-361 (403)
135 PRK15385 magnesium transport p 28.2 2.4E+02 0.0052 26.4 7.2 40 267-306 140-181 (225)
136 cd04935 ACT_AKiii-DAPDC_1 ACT 28.1 1.7E+02 0.0037 22.1 5.2 25 278-302 13-37 (75)
137 PRK06635 aspartate kinase; Rev 27.9 2.4E+02 0.0052 27.9 7.7 51 265-315 258-310 (404)
138 KOG3582 Mlx interactors and re 27.5 18 0.0004 39.0 -0.3 63 99-164 784-849 (856)
139 COG3074 Uncharacterized protei 27.4 1.1E+02 0.0023 23.8 3.9 25 142-166 13-37 (79)
140 PF09849 DUF2076: Uncharacteri 27.1 1.8E+02 0.004 27.6 6.3 50 114-165 6-73 (247)
141 PRK06291 aspartate kinase; Pro 26.7 2.6E+02 0.0057 28.5 7.9 40 266-305 318-360 (465)
142 PRK11898 prephenate dehydratas 26.3 2E+02 0.0043 27.5 6.5 49 270-318 197-247 (283)
143 cd04923 ACT_AK-LysC-DapG-like_ 25.6 2.2E+02 0.0048 19.3 6.3 26 278-303 12-37 (63)
144 cd04891 ACT_AK-LysC-DapG-like_ 25.4 2.1E+02 0.0046 19.0 5.6 27 277-303 9-35 (61)
145 TIGR00656 asp_kin_monofn aspar 25.2 2.8E+02 0.006 27.4 7.6 40 264-303 255-297 (401)
146 cd04936 ACT_AKii-LysC-BS-like_ 24.9 2.3E+02 0.005 19.3 6.1 26 278-303 12-37 (63)
147 PF06005 DUF904: Protein of un 24.6 1.4E+02 0.0029 23.0 4.1 24 142-165 13-36 (72)
148 cd04915 ACT_AK-Ectoine_2 ACT d 24.2 2E+02 0.0043 21.0 4.8 27 279-305 14-40 (66)
149 TIGR01270 Trp_5_monoox tryptop 23.4 1.9E+02 0.004 30.1 6.0 49 270-318 32-82 (464)
150 PF14992 TMCO5: TMCO5 family 22.5 1.2E+02 0.0026 29.4 4.1 27 140-166 144-170 (280)
151 PRK08210 aspartate kinase I; R 22.4 3.3E+02 0.0072 27.0 7.5 38 266-303 268-306 (403)
152 TIGR01268 Phe4hydrox_tetr phen 21.6 2.8E+02 0.006 28.6 6.7 49 270-318 17-66 (436)
153 cd04920 ACT_AKiii-DAPDC_2 ACT 20.7 1.8E+02 0.0039 21.0 4.0 24 278-301 12-35 (63)
154 PF14689 SPOB_a: Sensor_kinase 20.1 3.5E+02 0.0075 19.7 5.4 41 110-159 16-56 (62)
No 1
>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=99.44 E-value=1.4e-13 Score=99.81 Aligned_cols=51 Identities=37% Similarity=0.612 Sum_probs=48.1
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHhcCCCC---CCCCCChhhhHHHHHHHHHHHH
Q 042904 103 RMSHITVERNRRKQMNENLSVLRSLMPCF---YVKRGDQASIIGGVVDYINELQ 153 (320)
Q Consensus 103 r~~h~~~ER~RR~~in~~~~~LrslvP~~---~~~k~dKasIL~~AI~YIk~Lq 153 (320)
|..|+..||+||..||+.|..|+.+||.. ...|++|++||..||+||++||
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 67899999999999999999999999996 4678999999999999999997
No 2
>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=99.42 E-value=2.6e-13 Score=99.09 Aligned_cols=57 Identities=40% Similarity=0.625 Sum_probs=51.8
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHhcCCCCC-CCCCChhhhHHHHHHHHHHHHHHHH
Q 042904 101 QQRMSHITVERNRRKQMNENLSVLRSLMPCFY-VKRGDQASIIGGVVDYINELQQVLQ 157 (320)
Q Consensus 101 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~~-~~k~dKasIL~~AI~YIk~Lq~~v~ 157 (320)
..+..|+..||+||++||+.|..|+++||..+ ..|++|++||..||+||+.|+.+++
T Consensus 3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 34779999999999999999999999999963 4789999999999999999998763
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.37 E-value=1.1e-12 Score=93.84 Aligned_cols=51 Identities=39% Similarity=0.583 Sum_probs=46.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCC-CCCCChhhhHHHHHHHHHHHHHHHH
Q 042904 107 ITVERNRRKQMNENLSVLRSLMPCFY-VKRGDQASIIGGVVDYINELQQVLQ 157 (320)
Q Consensus 107 ~~~ER~RR~~in~~~~~LrslvP~~~-~~k~dKasIL~~AI~YIk~Lq~~v~ 157 (320)
+..||+||++||+.|..|+++||..+ ..+++|++||..||+||++|+.+++
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 46899999999999999999999753 6789999999999999999999875
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.19 E-value=3.4e-11 Score=118.97 Aligned_cols=61 Identities=36% Similarity=0.564 Sum_probs=53.0
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhcCCCCC--CCCCChhhhHHHHHHHHHHHHHHHHHH
Q 042904 99 DGQQRMSHITVERNRRKQMNENLSVLRSLMPCFY--VKRGDQASIIGGVVDYINELQQVLQSL 159 (320)
Q Consensus 99 ~~~~r~~h~~~ER~RR~~in~~~~~LrslvP~~~--~~k~dKasIL~~AI~YIk~Lq~~v~~L 159 (320)
+..+|.+||++||+||++||+++.+|..|||.+. ..|..|.+||..+++||++||+..++.
T Consensus 230 dr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~ 292 (411)
T KOG1318|consen 230 DRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRA 292 (411)
T ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHH
Confidence 3444889999999999999999999999999973 235679999999999999999988743
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.64 E-value=4.3e-08 Score=87.57 Aligned_cols=65 Identities=23% Similarity=0.358 Sum_probs=55.8
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHhcCCCCC-----CCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042904 102 QRMSHITVERNRRKQMNENLSVLRSLMPCFY-----VKRGDQASIIGGVVDYINELQQVLQSLEAKKQRK 166 (320)
Q Consensus 102 ~r~~h~~~ER~RR~~in~~~~~LrslvP~~~-----~~k~dKasIL~~AI~YIk~Lq~~v~~L~~~~~~~ 166 (320)
+|..|..+||+||+.||..+..|+.|||.+. +.|+.||-||..+|+||.+|.++...-+.+...+
T Consensus 62 rr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L 131 (229)
T KOG1319|consen 62 RRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTL 131 (229)
T ss_pred HHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3679999999999999999999999999862 1378999999999999999998877766665543
No 6
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.38 E-value=1.5e-06 Score=80.71 Aligned_cols=65 Identities=17% Similarity=0.316 Sum_probs=55.2
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCC-hhhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 042904 101 QQRMSHITVERNRRKQMNENLSVLRSLMPCFYVKRGD-QASIIGGVVDYINELQQVLQSLEAKKQR 165 (320)
Q Consensus 101 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~~~~k~d-KasIL~~AI~YIk~Lq~~v~~L~~~~~~ 165 (320)
..|..||.-||+||..|++.|..|+.+||.....+.. .++||+.|.+||+.|+.......+.+++
T Consensus 58 ~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~e~ 123 (232)
T KOG2483|consen 58 SSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQDIED 123 (232)
T ss_pred cchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHHHHH
Confidence 4488999999999999999999999999997544444 6899999999999999887776655544
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.23 E-value=1.2e-06 Score=93.42 Aligned_cols=53 Identities=23% Similarity=0.412 Sum_probs=49.0
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHhcCCCCC--CCCCChhhhHHHHHHHHHHHHHH
Q 042904 103 RMSHITVERNRRKQMNENLSVLRSLMPCFY--VKRGDQASIIGGVVDYINELQQV 155 (320)
Q Consensus 103 r~~h~~~ER~RR~~in~~~~~LrslvP~~~--~~k~dKasIL~~AI~YIk~Lq~~ 155 (320)
|.+|+.+||+||++||..+.+|.+|||.+. ..|+||.+||..||.+|+.+++.
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 669999999999999999999999999872 37999999999999999999885
No 8
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.22 E-value=6.5e-07 Score=84.18 Aligned_cols=58 Identities=24% Similarity=0.382 Sum_probs=50.4
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHhcCCCCC------CCCCChhhhHHHHHHHHHHHHHHHHH
Q 042904 101 QQRMSHITVERNRRKQMNENLSVLRSLMPCFY------VKRGDQASIIGGVVDYINELQQVLQS 158 (320)
Q Consensus 101 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~~------~~k~dKasIL~~AI~YIk~Lq~~v~~ 158 (320)
.++..|-+.||+||.+||+.|.+|+.|||... ..|++||.||.-|++|+++|+...+.
T Consensus 31 ~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~ 94 (250)
T KOG4304|consen 31 YRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQA 94 (250)
T ss_pred HhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence 44678999999999999999999999999641 26889999999999999999986543
No 9
>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=98.16 E-value=9.3e-06 Score=62.58 Aligned_cols=47 Identities=28% Similarity=0.369 Sum_probs=45.0
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
-+|+|.++.|||+|.+|.++|..+||+|..|.|+|.++.+..+|.|.
T Consensus 2 Tviev~a~DRpGLL~~i~~~l~~~gl~I~~AkIsT~Gerv~DvFyV~ 48 (72)
T cd04895 2 TLVKVDSARKPGILLEAVQVLTDLDLCITKAYISSDGGWFMDVFHVT 48 (72)
T ss_pred EEEEEEECCcCCHHHHHHHHHHHCCcEEEEEEEeecCCeEEEEEEEE
Confidence 37899999999999999999999999999999999999999999985
No 10
>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=98.15 E-value=9.6e-06 Score=62.99 Aligned_cols=46 Identities=17% Similarity=0.428 Sum_probs=44.5
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
+|+|.|+.|||+|.+|..+|-.++|+|.+|.|+|.++.+..+|.|+
T Consensus 3 vveV~~~DRpGLL~~i~~~l~~~~l~I~~A~I~T~gera~D~FyV~ 48 (75)
T cd04897 3 VVTVQCRDRPKLLFDVVCTLTDMDYVVFHATIDTDGDDAHQEYYIR 48 (75)
T ss_pred EEEEEeCCcCcHHHHHHHHHHhCCeEEEEEEEeecCceEEEEEEEE
Confidence 6899999999999999999999999999999999999999999985
No 11
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=98.12 E-value=5.5e-06 Score=77.21 Aligned_cols=66 Identities=24% Similarity=0.333 Sum_probs=55.7
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042904 101 QQRMSHITVERNRRKQMNENLSVLRSLMPCFYVKRGDQASIIGGVVDYINELQQVLQSLEAKKQRK 166 (320)
Q Consensus 101 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~~~~k~dKasIL~~AI~YIk~Lq~~v~~L~~~~~~~ 166 (320)
.+|....++||+|=+|+|+.|..|+.-.-.-.+.+.-|+.||..||+||..||.-++++.+....+
T Consensus 117 DRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~ 182 (284)
T KOG3960|consen 117 DRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEKGL 182 (284)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccchhh
Confidence 457889999999999999999999866543335788999999999999999999999888765543
No 12
>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=98.08 E-value=1.6e-05 Score=61.31 Aligned_cols=47 Identities=28% Similarity=0.346 Sum_probs=44.4
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEe-eCCeEEEEEEEE
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNIST-VDETMHNSFTIK 316 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist-~~~~vl~tf~vK 316 (320)
++|+|.|+.+||+|.+|..+|..++|.|++|.|+| .++.++++|.|.
T Consensus 1 ~~~ei~~~Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V~ 48 (76)
T cd04927 1 FLLKLFCSDRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFIT 48 (76)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEEe
Confidence 47899999999999999999999999999999996 899999999985
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.99 E-value=5.9e-06 Score=76.39 Aligned_cols=64 Identities=27% Similarity=0.338 Sum_probs=55.6
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHHhcCCCCC--CCCCChhhhHHHHHHHHHHHHHHHHHHHHHH
Q 042904 100 GQQRMSHITVERNRRKQMNENLSVLRSLMPCFY--VKRGDQASIIGGVVDYINELQQVLQSLEAKK 163 (320)
Q Consensus 100 ~~~r~~h~~~ER~RR~~in~~~~~LrslvP~~~--~~k~dKasIL~~AI~YIk~Lq~~v~~L~~~~ 163 (320)
..++..+|.+||+|=+.+|..|..||.+||... .+|.+|+.+|.-||.||+.|++-++.-+...
T Consensus 107 ~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~ 172 (228)
T KOG4029|consen 107 SAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL 172 (228)
T ss_pred hhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence 345778899999999999999999999999984 5788999999999999999999876655433
No 14
>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=97.97 E-value=3.9e-05 Score=58.27 Aligned_cols=47 Identities=28% Similarity=0.404 Sum_probs=43.6
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee-CCeEEEEEEEE
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV-DETMHNSFTIK 316 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~-~~~vl~tf~vK 316 (320)
..|.|.|+.+||+|.+|..+|..++|+|+.|.|.|. ++.++.+|.+.
T Consensus 2 ~~i~v~~~Dr~gLl~~i~~~l~~~~l~I~~A~i~T~~~~~v~D~F~v~ 49 (73)
T cd04900 2 TEVFIYTPDRPGLFARIAGALDQLGLNILDARIFTTRDGYALDTFVVL 49 (73)
T ss_pred EEEEEEecCCCCHHHHHHHHHHHCCCCeEEeEEEEeCCCeEEEEEEEE
Confidence 367899999999999999999999999999999877 79999999985
No 15
>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=97.95 E-value=3.4e-05 Score=59.97 Aligned_cols=46 Identities=17% Similarity=0.147 Sum_probs=44.3
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEE--eeCCeEEEEEEEE
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNIS--TVDETMHNSFTIK 316 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anis--t~~~~vl~tf~vK 316 (320)
+|+|.|..|||+|.+|.++|..++|+|..|.|+ |.++.+..+|.+.
T Consensus 2 vlev~a~DRpGLL~~i~~~l~~~~l~i~~AkI~~~T~Gerv~D~Fyv~ 49 (75)
T cd04896 2 LLQIRCVDQKGLLYDILRTSKDCNIQISYGRFSSKVKGYREVDLFIVQ 49 (75)
T ss_pred EEEEEeCCcccHHHHHHHHHHHCCeEEEEEEEecCcccCEEEEEEEEe
Confidence 689999999999999999999999999999999 9999999999984
No 16
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=97.92 E-value=5e-06 Score=89.14 Aligned_cols=66 Identities=24% Similarity=0.468 Sum_probs=59.8
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042904 100 GQQRMSHITVERNRRKQMNENLSVLRSLMPCFYVKRGDQASIIGGVVDYINELQQVLQSLEAKKQRK 166 (320)
Q Consensus 100 ~~~r~~h~~~ER~RR~~in~~~~~LrslvP~~~~~k~dKasIL~~AI~YIk~Lq~~v~~L~~~~~~~ 166 (320)
+.+|.+||.+||+-|..||+++.+|+.+||.. .-|+.|.++|..||+||++|+...+.|+.+.+.+
T Consensus 274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~-~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~l 339 (953)
T KOG2588|consen 274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGT-EAKLNKSAVLRKAIDYIEDLQGYNQKLKLENASL 339 (953)
T ss_pred CcccchhhHHHHHhhcchhHHHHHHHHhcCcc-HhhhhhhhhHHHHHHHHHHhhccccccchhhhhh
Confidence 47799999999999999999999999999986 4689999999999999999999998888766543
No 17
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.86 E-value=9.9e-06 Score=77.26 Aligned_cols=57 Identities=28% Similarity=0.379 Sum_probs=49.7
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCChhhhHHHHHHHHHHHHHHHHHH
Q 042904 103 RMSHITVERNRRKQMNENLSVLRSLMPCFYVKRGDQASIIGGVVDYINELQQVLQSL 159 (320)
Q Consensus 103 r~~h~~~ER~RR~~in~~~~~LrslvP~~~~~k~dKasIL~~AI~YIk~Lq~~v~~L 159 (320)
|...|.-||+|-.-||..|..||+|+|.....|.+||.||..+.+||.+|+.+--+|
T Consensus 61 ReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~l 117 (373)
T KOG0561|consen 61 REIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTEL 117 (373)
T ss_pred HHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhccccc
Confidence 446677799999999999999999999876779999999999999999998765444
No 18
>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=97.69 E-value=0.00021 Score=54.59 Aligned_cols=46 Identities=13% Similarity=0.260 Sum_probs=44.1
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
+|+|.++.+||+|.+|..+|..+++.|+.|.+.+.++.++.+|.|.
T Consensus 2 ~~~v~~~Dr~gLl~~i~~~l~~~~lnI~~A~i~t~~~~~~d~f~V~ 47 (74)
T cd04925 2 AIELTGTDRPGLLSEVFAVLADLHCNVVEARAWTHNGRLACVIYVR 47 (74)
T ss_pred EEEEEECCCCCHHHHHHHHHHHCCCcEEEEEEEEECCEEEEEEEEE
Confidence 6899999999999999999999999999999999999999999985
No 19
>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=97.48 E-value=0.00059 Score=52.07 Aligned_cols=46 Identities=17% Similarity=0.195 Sum_probs=42.1
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEe-eCCeEEEEEEEE
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNIST-VDETMHNSFTIK 316 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist-~~~~vl~tf~vK 316 (320)
.|-|.|+.+||+|.+|..+|..++|.|+.|+|.+ .+|.++.+|.|.
T Consensus 3 eI~V~~~Dr~gLFa~iag~L~~~~LnI~~A~i~tt~dG~~LDtF~V~ 49 (68)
T cd04928 3 EITFAAGDKPKLLSQLSSLLGDLGLNIAEAHAFSTDDGLALDIFVVT 49 (68)
T ss_pred EEEEEECCCcchHHHHHHHHHHCCCceEEEEEEEcCCCeEEEEEEEe
Confidence 5778999999999999999999999999999975 589999999885
No 20
>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=97.35 E-value=0.0012 Score=48.79 Aligned_cols=47 Identities=21% Similarity=0.372 Sum_probs=43.8
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
.|.|.|+.++|+|.+|+.+|.++++.|.++++.+.++.++..|.+.-
T Consensus 2 ~l~v~~~d~~gll~~i~~~l~~~~~~I~~~~~~~~~~~~~~~f~i~~ 48 (70)
T cd04899 2 VLELTALDRPGLLADVTRVLAELGLNIHSAKIATLGERAEDVFYVTD 48 (70)
T ss_pred EEEEEEcCCccHHHHHHHHHHHCCCeEEEEEEEecCCEEEEEEEEEC
Confidence 58899999999999999999999999999999998889999998864
No 21
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=97.32 E-value=0.00011 Score=64.08 Aligned_cols=64 Identities=25% Similarity=0.331 Sum_probs=55.0
Q ss_pred cccCCcccccccchhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCChhhhHHHHHHHHHHHHHHH
Q 042904 93 DEANNTDGQQRMSHITVERNRRKQMNENLSVLRSLMPCFYVKRGDQASIIGGVVDYINELQQVL 156 (320)
Q Consensus 93 ~~~~~~~~~~r~~h~~~ER~RR~~in~~~~~LrslvP~~~~~k~dKasIL~~AI~YIk~Lq~~v 156 (320)
...-++-..++..|+..||+|-..+|+.|..||.++|.....|.+|.-.|.-|..||..|-+-+
T Consensus 69 ~~~~dE~q~qrv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~vl 132 (173)
T KOG4447|consen 69 IQSLDELQKQRVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQVL 132 (173)
T ss_pred hhhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhcc
Confidence 3333344557999999999999999999999999999987788999999999999999987653
No 22
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.31 E-value=0.00064 Score=53.83 Aligned_cols=54 Identities=19% Similarity=0.365 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHhcCCCCCC----CCCChhhhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 042904 114 RKQMNENLSVLRSLMPCFYV----KRGDQASIIGGVVDYINELQQVLQSLEAKKQRKV 167 (320)
Q Consensus 114 R~~in~~~~~LrslvP~~~~----~k~dKasIL~~AI~YIk~Lq~~v~~L~~~~~~~~ 167 (320)
-++|++.+..|+.|+|.... .|..-+-+|.++..||+.|+++|..|-..+.++.
T Consensus 19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL 76 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELL 76 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47899999999999998522 2344456899999999999999999999988754
No 23
>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=97.26 E-value=0.0017 Score=49.31 Aligned_cols=46 Identities=15% Similarity=0.202 Sum_probs=42.3
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
.|.|.++.++|+|.+|..+|.++++.|+++.+.+.++.++.+|.+.
T Consensus 3 ri~V~~~D~~Gll~~i~~~l~~~~lnI~sa~i~t~~~~~~d~f~v~ 48 (72)
T cd04926 3 RLELRTEDRVGLLSDVTRVFRENGLTVTRAEISTQGDMAVNVFYVT 48 (72)
T ss_pred EEEEEECCccCHHHHHHHHHHHCCcEEEEEEEecCCCeEEEEEEEE
Confidence 5778889999999999999999999999999999888888888874
No 24
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=97.24 E-value=0.00042 Score=70.11 Aligned_cols=62 Identities=23% Similarity=0.280 Sum_probs=50.7
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhcCCCC-C-CCCCChhhhHHHHHHHHHHHHHHHHHHH
Q 042904 99 DGQQRMSHITVERNRRKQMNENLSVLRSLMPCF-Y-VKRGDQASIIGGVVDYINELQQVLQSLE 160 (320)
Q Consensus 99 ~~~~r~~h~~~ER~RR~~in~~~~~LrslvP~~-~-~~k~dKasIL~~AI~YIk~Lq~~v~~L~ 160 (320)
+..+|+.+|.+||-|-..||+.|++|..+.=-. . .+.-.|.-||..|+.-|-.|++||.+-.
T Consensus 523 EkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN 586 (632)
T KOG3910|consen 523 EKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN 586 (632)
T ss_pred HHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence 566789999999999999999999998876432 1 1223688899999999999999997643
No 25
>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=96.64 E-value=0.013 Score=42.72 Aligned_cols=47 Identities=28% Similarity=0.428 Sum_probs=42.1
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
.|.|.|+.++|+|.+|+.+|.++++.|.++.+.+.++.....|++.-
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~~~v~~ 48 (70)
T cd04873 2 VVEVYAPDRPGLLADITRVLADLGLNIHDARISTTGERALDVFYVTD 48 (70)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEEC
Confidence 57889999999999999999999999999999988777777787753
No 26
>PRK05007 PII uridylyl-transferase; Provisional
Probab=96.59 E-value=0.0062 Score=66.74 Aligned_cols=50 Identities=16% Similarity=0.333 Sum_probs=47.5
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
+...+|+|.|..|||+|.+|.++|..++|+|.+|.|+|.++.+..+|.|.
T Consensus 806 ~~~TvlEV~a~DRpGLL~~I~~~l~~~~l~I~~AkI~T~gera~DvFyV~ 855 (884)
T PRK05007 806 DRRSYMELIALDQPGLLARVGKIFADLGISLHGARITTIGERVEDLFILA 855 (884)
T ss_pred CCeEEEEEEeCCchHHHHHHHHHHHHCCcEEEEEEEeccCceEEEEEEEE
Confidence 45689999999999999999999999999999999999999999999985
No 27
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=96.44 E-value=0.023 Score=43.49 Aligned_cols=49 Identities=14% Similarity=0.292 Sum_probs=42.1
Q ss_pred eEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 269 NLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 269 ~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
.++|.+.++.|||++..|..+|.+++..|+.++.++.++.+...+.+.+
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~ 50 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSI 50 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEE
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEe
Confidence 5799999999999999999999999999999999999999777777665
No 28
>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=96.43 E-value=0.022 Score=40.96 Aligned_cols=38 Identities=18% Similarity=0.335 Sum_probs=35.6
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCC
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDE 307 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~ 307 (320)
+.|.|.|+.+||+|.+|..+|.++++.|.++.+.+..+
T Consensus 1 ~~v~v~~~drpG~l~~v~~~la~~~inI~~~~~~~~~~ 38 (66)
T PF01842_consen 1 YRVRVIVPDRPGILADVTEILADHGINIDSISQSSDKD 38 (66)
T ss_dssp EEEEEEEETSTTHHHHHHHHHHHTTEEEEEEEEEEESS
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHcCCCHHHeEEEecCC
Confidence 46889999999999999999999999999999998876
No 29
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=96.41 E-value=0.027 Score=42.99 Aligned_cols=51 Identities=24% Similarity=0.317 Sum_probs=43.0
Q ss_pred eEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee--CCeEEEEEEEEecC
Q 042904 269 NLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV--DETMHNSFTIKVTK 319 (320)
Q Consensus 269 ~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~--~~~vl~tf~vKv~~ 319 (320)
.+.|+|.+..++|+|.+|..+|.+.++.|.++++... ++.....|+++|..
T Consensus 6 ~~~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d 58 (80)
T PF13291_consen 6 PVRLRIEAEDRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKD 58 (80)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESS
T ss_pred EEEEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECC
Confidence 3788999999999999999999999999999999984 67888888888753
No 30
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=96.39 E-value=0.016 Score=63.77 Aligned_cols=58 Identities=21% Similarity=0.408 Sum_probs=50.9
Q ss_pred ceEEEEEe--CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 259 ADVEVKFS--GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 259 ~~VeV~~~--g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
+.|.+.-. .+...|.|.+..+||+|.+|..+|..++|+|+.|.|+|.++.++.+|.|.
T Consensus 802 ~~V~i~~~~~~~~T~i~V~a~DrpGLLa~I~~~L~~~~l~I~~AkI~T~g~~v~D~F~V~ 861 (895)
T PRK00275 802 TQVTISNDAQRPVTVLEIIAPDRPGLLARIGRIFLEFDLSLQNAKIATLGERVEDVFFIT 861 (895)
T ss_pred CEEEEEECCCCCeEEEEEEECCCCCHHHHHHHHHHHCCCEEEEeEEEecCCEEEEEEEEE
Confidence 44555432 35679999999999999999999999999999999999999999999986
No 31
>PRK04374 PII uridylyl-transferase; Provisional
Probab=96.25 E-value=0.02 Score=62.75 Aligned_cols=58 Identities=24% Similarity=0.352 Sum_probs=51.2
Q ss_pred ceEEEEEe--CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 259 ADVEVKFS--GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 259 ~~VeV~~~--g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
+.|.+... ++-..|.|.+..+||+|.+|..+|..++|+|+.|.|+|.++.++.+|.|.
T Consensus 784 ~~V~~~~~~~~~~t~leI~a~DrpGLLa~Ia~~l~~~~l~I~~AkI~T~g~~a~D~F~V~ 843 (869)
T PRK04374 784 PRVEFSESAGGRRTRISLVAPDRPGLLADVAHVLRMQHLRVHDARIATFGERAEDQFQIT 843 (869)
T ss_pred CeEEEeecCCCCeEEEEEEeCCcCcHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEE
Confidence 45555432 35689999999999999999999999999999999999999999999986
No 32
>PRK03059 PII uridylyl-transferase; Provisional
Probab=96.12 E-value=0.023 Score=62.19 Aligned_cols=50 Identities=22% Similarity=0.377 Sum_probs=47.0
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
++...|.|.|+.+||+|.+|..+|..++|+|+.|.|+|.++.++.+|.|.
T Consensus 784 ~~~T~i~V~a~DrpGLLa~Ia~~L~~~~l~I~~AkI~T~~~~v~DvF~V~ 833 (856)
T PRK03059 784 GQYYILSVSANDRPGLLYAIARVLAEHRVSVHTAKINTLGERVEDTFLID 833 (856)
T ss_pred CCEEEEEEEeCCcchHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEc
Confidence 35689999999999999999999999999999999999999999999983
No 33
>PRK03381 PII uridylyl-transferase; Provisional
Probab=96.11 E-value=0.023 Score=61.55 Aligned_cols=49 Identities=16% Similarity=0.324 Sum_probs=46.9
Q ss_pred CeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 268 PNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 268 ~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
+...|.|.|..+||+|.+|..+|..++|+|++|.|+|.++.++.+|.|.
T Consensus 706 ~~t~i~V~a~DrpGLla~Ia~~L~~~~lnI~~AkI~T~g~~a~D~F~V~ 754 (774)
T PRK03381 706 DATVLEVRAADRPGLLARLARALERAGVDVRWARVATLGADVVDVFYVT 754 (774)
T ss_pred CeEEEEEEeCCchhHHHHHHHHHHHCCCeEEEEEEeecCCeEEEEEEEE
Confidence 4589999999999999999999999999999999999999999999986
No 34
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=96.02 E-value=0.019 Score=62.86 Aligned_cols=50 Identities=14% Similarity=0.302 Sum_probs=47.2
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
+.-.+|+|.+..+||+|.+|.++|.+++|+|..|.|+|.++.+..+|-|.
T Consensus 781 ~~~T~iev~a~DrpGLL~~I~~~l~~~~l~i~~AkI~T~gerv~D~Fyv~ 830 (854)
T PRK01759 781 QEQTEMELFALDRAGLLAQVSQVFSELNLNLLNAKITTIGEKAEDFFILT 830 (854)
T ss_pred CCeEEEEEEeCCchHHHHHHHHHHHHCCCEEEEEEEcccCceEEEEEEEE
Confidence 34589999999999999999999999999999999999999999999985
No 35
>PRK05092 PII uridylyl-transferase; Provisional
Probab=95.93 E-value=0.034 Score=61.37 Aligned_cols=59 Identities=20% Similarity=0.273 Sum_probs=51.2
Q ss_pred ceEEEEEe--CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 259 ADVEVKFS--GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 259 ~~VeV~~~--g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
+.|.+.-. +....|.|.|..+||+|.+|..+|..+||+|.+|.|.|.++.++.+|.|.-
T Consensus 831 ~~V~~~~~~s~~~t~i~I~~~DrpGLl~~I~~~l~~~gl~I~~A~I~T~~~~~~D~F~v~d 891 (931)
T PRK05092 831 PRVTIDNEASNRFTVIEVNGRDRPGLLYDLTRALSDLNLNIASAHIATYGERAVDVFYVTD 891 (931)
T ss_pred CEEEEeeCCCCCeEEEEEEECCcCcHHHHHHHHHHHCCceEEEEEEEEcCCEEEEEEEEeC
Confidence 44555432 355899999999999999999999999999999999999999999999953
No 36
>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=95.86 E-value=0.046 Score=41.91 Aligned_cols=48 Identities=13% Similarity=0.277 Sum_probs=42.5
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
+.|.+.|+.+||++.+|-+.|.++|..|+.++....++..+..+.+.+
T Consensus 2 ~iltv~g~Dr~GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~~~ 49 (77)
T cd04893 2 LVISALGTDRPGILNELTRAVSESGCNILDSRMAILGTEFALTMLVEG 49 (77)
T ss_pred EEEEEEeCCCChHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEEEe
Confidence 688999999999999999999999999999999998887666555554
No 37
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=95.57 E-value=0.026 Score=60.80 Aligned_cols=58 Identities=19% Similarity=0.323 Sum_probs=51.4
Q ss_pred ceEEEEE--eCCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 259 ADVEVKF--SGPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 259 ~~VeV~~--~g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
|.|.+.- ..+..+|++.+..|||+|..|-.+|..++|+|++|.|+|+|+.+..+|.|-
T Consensus 779 p~v~i~~t~~~~~t~lEv~alDRpGLLa~v~~v~~dl~l~i~~AkItT~GErveD~F~vt 838 (867)
T COG2844 779 PRVTILPTASNDKTVLEVRALDRPGLLAALAGVFADLGLSLHSAKITTFGERVEDVFIVT 838 (867)
T ss_pred CceeeccccCCCceEEEEEeCCcccHHHHHHHHHHhcccceeeeeeccccccceeEEEEe
Confidence 5666653 345689999999999999999999999999999999999999999998875
No 38
>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=95.43 E-value=0.049 Score=59.44 Aligned_cols=51 Identities=20% Similarity=0.304 Sum_probs=47.1
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEE-eeCCeEEEEEEEEe
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIS-TVDETMHNSFTIKV 317 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anis-t~~~~vl~tf~vKv 317 (320)
.+...|.|.++.+||+|.+|..+|..++|+|+.|.|. +.++.++.+|.|+-
T Consensus 666 ~~~t~i~V~~~DrpgLla~i~~~L~~~~l~I~~A~I~tt~~g~~lD~F~V~~ 717 (850)
T TIGR01693 666 SGGTEVFIYAPDQPGLFAKVAGALAMLSLSVHDAQVNTTKDGVALDTFVVQD 717 (850)
T ss_pred CCeEEEEEEeCCCCcHHHHHHHHHHHCCCeEEEEEEEEecCCEEEEEEEEEC
Confidence 4567899999999999999999999999999999998 77999999999974
No 39
>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=95.39 E-value=0.11 Score=38.63 Aligned_cols=47 Identities=15% Similarity=0.263 Sum_probs=41.2
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEEEec
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTIKVT 318 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~vKv~ 318 (320)
|+|.+..+||+|.+|+.+|.+.+..|.++++.... +.....|++++.
T Consensus 2 l~v~~~d~~g~L~~i~~~i~~~~~nI~~v~~~~~~~~~~~~~~~vev~ 49 (74)
T cd04887 2 LRLELPNRPGMLGRVTTAIGEAGGDIGAIDLVEQGRDYTVRDITVDAP 49 (74)
T ss_pred EEEEeCCCCchHHHHHHHHHHcCCcEEEEEEEEecCCEEEEEEEEEcC
Confidence 78899999999999999999999999999998764 676677888774
No 40
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=95.38 E-value=0.017 Score=54.66 Aligned_cols=58 Identities=24% Similarity=0.333 Sum_probs=50.9
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhcCCCC-CCCCCChhhhHHHHHHHHHHHHHHH
Q 042904 99 DGQQRMSHITVERNRRKQMNENLSVLRSLMPCF-YVKRGDQASIIGGVVDYINELQQVL 156 (320)
Q Consensus 99 ~~~~r~~h~~~ER~RR~~in~~~~~LrslvP~~-~~~k~dKasIL~~AI~YIk~Lq~~v 156 (320)
.-..|..-|..||+|--.+|+.|+.||.++|.. ...|+.|...|.-|-+||..|++-.
T Consensus 69 ~~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~~ 127 (254)
T KOG3898|consen 69 LTLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEVL 127 (254)
T ss_pred hhhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcccc
Confidence 445688999999999999999999999999953 4678999999999999999998653
No 41
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=95.21 E-value=0.066 Score=58.63 Aligned_cols=58 Identities=17% Similarity=0.147 Sum_probs=50.2
Q ss_pred ceEEEEE--eCCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEe-eCCeEEEEEEEE
Q 042904 259 ADVEVKF--SGPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIST-VDETMHNSFTIK 316 (320)
Q Consensus 259 ~~VeV~~--~g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist-~~~~vl~tf~vK 316 (320)
+.|.+.- ..+...|.|.|+.+||+|.+|..+|..++|.|+.|.|.| .+|.++.+|.|.
T Consensus 665 ~~V~i~~~~~~~~t~V~V~~~DrpGLfa~Ia~~L~~~~L~I~~A~I~T~~~g~alD~F~V~ 725 (854)
T PRK01759 665 LLVKISNRFSRGGTEIFIYCQDQANLFLKVVSTIGAKKLSIHDAQIITSQDGYVLDSFIVT 725 (854)
T ss_pred CEEEEEecCCCCeEEEEEEecCCccHHHHHHHHHHHCCCeEEEEEEEEccCCEEEEEEEEe
Confidence 4555543 245679999999999999999999999999999999976 899999999985
No 42
>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=95.14 E-value=0.066 Score=58.44 Aligned_cols=51 Identities=20% Similarity=0.323 Sum_probs=47.6
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
.+..+|.|.|..+||+|.+|.++|..++++|.++.|+|.++.+..+|.+..
T Consensus 777 ~~~t~~~v~~~DrpGll~~i~~~l~~~~~~i~~a~i~t~~~~~~d~F~v~~ 827 (850)
T TIGR01693 777 RKATIMEVRALDRPGLLARVGRTLEELGLSIQSAKITTFGEKAEDVFYVTD 827 (850)
T ss_pred CCeEEEEEEECCccHHHHHHHHHHHHCCCeEEEEEEEecCccceeEEEEEC
Confidence 356899999999999999999999999999999999999999999999864
No 43
>PRK03381 PII uridylyl-transferase; Provisional
Probab=95.10 E-value=0.07 Score=57.85 Aligned_cols=58 Identities=16% Similarity=0.172 Sum_probs=50.1
Q ss_pred ceEEEEEe-CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 259 ADVEVKFS-GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 259 ~~VeV~~~-g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
+-|.++-. .+.+.|.|.|+.+||++.+|..+|..+|+.|+.|+|.+.+|.++.+|.|.
T Consensus 588 ~~v~~~~~~~~~~~V~V~~~DrpGLfa~i~~vL~~~glnI~dA~i~t~dg~~ld~F~V~ 646 (774)
T PRK03381 588 VHVEIAPADPHMVEVTVVAPDRRGLLSKAAGVLALHRLRVRSASVRSHDGVAVLEFVVS 646 (774)
T ss_pred CEEEEeeCCCCeEEEEEEecCCccHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEE
Confidence 34444322 46689999999999999999999999999999999999999999999986
No 44
>PRK05007 PII uridylyl-transferase; Provisional
Probab=95.05 E-value=0.085 Score=58.00 Aligned_cols=58 Identities=16% Similarity=0.118 Sum_probs=49.2
Q ss_pred ceEEEEE--eCCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee-CCeEEEEEEEE
Q 042904 259 ADVEVKF--SGPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV-DETMHNSFTIK 316 (320)
Q Consensus 259 ~~VeV~~--~g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~-~~~vl~tf~vK 316 (320)
+-|.+.- ..+...|.|.|+.++|+|.+|..+|..++|+|+.|.|.|. +|.++.+|.|.
T Consensus 689 p~V~i~~~~~~~~t~V~V~a~DrpGLfa~Ia~~La~~~L~I~~A~I~T~~dg~alD~F~V~ 749 (884)
T PRK05007 689 PLVLLSKQATRGGTEIFIWSPDRPYLFAAVCAELDRRNLSVHDAQIFTSRDGMAMDTFIVL 749 (884)
T ss_pred CeEEEEecCCCCeEEEEEEecCCcCHHHHHHHHHHHCCCEEEEEEEEEcCCCeEEEEEEEE
Confidence 4455543 2467899999999999999999999999999999999765 56999999985
No 45
>PRK00194 hypothetical protein; Validated
Probab=94.99 E-value=0.073 Score=41.54 Aligned_cols=49 Identities=12% Similarity=0.277 Sum_probs=42.0
Q ss_pred eEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 269 NLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 269 ~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
.+.|.|.|+.+||++.+|.+.|.++|+.|++.+..+.++...-.+.+.+
T Consensus 3 ~~~ltv~g~DrpGiva~vt~~la~~g~nI~~~~~~~~~~~~~~~~~v~~ 51 (90)
T PRK00194 3 KAIITVIGKDKVGIIAGVSTVLAELNVNILDISQTIMDGYFTMIMLVDI 51 (90)
T ss_pred eEEEEEEcCCCCCHHHHHHHHHHHcCCCEEehhhHhhCCeeEEEEEEEe
Confidence 5789999999999999999999999999999998887776555455544
No 46
>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=94.97 E-value=0.12 Score=39.22 Aligned_cols=47 Identities=15% Similarity=0.227 Sum_probs=38.7
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC------CeEEEEEEEEe
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD------ETMHNSFTIKV 317 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~------~~vl~tf~vKv 317 (320)
.|.|.|+.+||++.+|-+.|.++++.|.+.+..+.+ +.+.-.+.+.+
T Consensus 1 ~l~v~g~D~~Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~ 53 (81)
T cd04869 1 VVEVVGNDRPGIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLAL 53 (81)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEec
Confidence 378999999999999999999999999999998876 44444444443
No 47
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=94.85 E-value=0.079 Score=58.32 Aligned_cols=49 Identities=10% Similarity=0.196 Sum_probs=45.1
Q ss_pred CeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEE-EeeCCeEEEEEEEE
Q 042904 268 PNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNI-STVDETMHNSFTIK 316 (320)
Q Consensus 268 ~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~ani-st~~~~vl~tf~vK 316 (320)
+-..|.|.|+.+||+|.+|+.+|..++|.|+.|.| |+-+|.++.+|.|.
T Consensus 703 ~~t~V~V~~~DrpgLFa~i~g~L~~~~lnI~~A~I~Tt~dg~alD~F~V~ 752 (895)
T PRK00275 703 GGTQIFIYAPDQHDFFAATVAAMDQLNLNIHDARIITSSSQFTLDTYIVL 752 (895)
T ss_pred CeEEEEEEeCCCCcHHHHHHHHHHHCCCeEEEEEEEEcCCCeEEEEEEEe
Confidence 56899999999999999999999999999999998 56688999999984
No 48
>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=94.82 E-value=0.14 Score=36.86 Aligned_cols=46 Identities=20% Similarity=0.364 Sum_probs=37.2
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee-----CCeEEEEEEEEe
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTV-----DETMHNSFTIKV 317 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~-----~~~vl~tf~vKv 317 (320)
|.|.++.+||.|.+|+.+|.+.++.|.+.+.... .+.....|++++
T Consensus 1 ~~v~~~d~~G~L~~i~~~i~~~~~nI~~i~~~~~~~~~~~~~~~~~i~v~~ 51 (73)
T cd04886 1 LRVELPDRPGQLAKLLAVIAEAGANIIEVSHDRAFKTLPLGEVEVELTLET 51 (73)
T ss_pred CEEEeCCCCChHHHHHHHHHHcCCCEEEEEEEeccCCCCCceEEEEEEEEe
Confidence 4678899999999999999999999998887654 355555666655
No 49
>PRK03059 PII uridylyl-transferase; Provisional
Probab=94.81 E-value=0.089 Score=57.68 Aligned_cols=50 Identities=20% Similarity=0.364 Sum_probs=46.0
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEE-EeeCCeEEEEEEEE
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNI-STVDETMHNSFTIK 316 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~ani-st~~~~vl~tf~vK 316 (320)
.+...|-|.|+.+||+|.+|..+|..++|.|+.|.| ++.+|.++.+|.|-
T Consensus 676 ~~~~~v~i~~~d~~gLFa~i~g~l~~~~l~I~~A~i~t~~~g~~ld~f~V~ 726 (856)
T PRK03059 676 GEGLQVMVYTPDQPDLFARICGYFDRAGFSILDARVHTTRHGYALDTFQVL 726 (856)
T ss_pred CCeEEEEEEecCCCcHHHHHHHHHHHCCCceeeeEEEEcCCCeEEEEEEEe
Confidence 366899999999999999999999999999999999 46789999999984
No 50
>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=94.72 E-value=0.08 Score=41.33 Aligned_cols=48 Identities=15% Similarity=0.278 Sum_probs=41.8
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
+.|.+.|+.+||++..|.+.|-.+|+.|++.+..+.++.+.-.+.+.+
T Consensus 2 ~vl~i~g~D~pGiva~vt~~la~~g~nI~~~~~~~~~~~f~~~~~v~~ 49 (88)
T cd04872 2 AVITVVGKDRVGIVAGVSTKLAELNVNILDISQTIMDGYFTMIMIVDI 49 (88)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHcCCCEEechhHhhCCccEEEEEEEe
Confidence 679999999999999999999999999999999888777555555554
No 51
>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=94.60 E-value=0.12 Score=38.81 Aligned_cols=35 Identities=17% Similarity=0.210 Sum_probs=32.4
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV 305 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~ 305 (320)
.|.|.|+.+||++.+|.+.|.++|+.|++.+..+.
T Consensus 1 ii~v~g~D~~Giv~~it~~l~~~g~nI~~~~~~~~ 35 (74)
T cd04875 1 ILTLSCPDRPGIVAAVSGFLAEHGGNIVESDQFVD 35 (74)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHcCCCEEeeeeeec
Confidence 37899999999999999999999999999998863
No 52
>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=94.25 E-value=0.21 Score=37.05 Aligned_cols=49 Identities=14% Similarity=0.276 Sum_probs=40.5
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee-CCeEEEEEEEEec
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV-DETMHNSFTIKVT 318 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~-~~~vl~tf~vKv~ 318 (320)
+.|.|.+..++|+|.+|+.+|.+++..|...+.+.. ++.....|++.+.
T Consensus 1 ~~l~i~~~d~~g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~~~v~v~ 50 (76)
T cd04888 1 VTLSLLLEHRPGVLSKVLNTIAQVRGNVLTINQNIPIHGRANVTISIDTS 50 (76)
T ss_pred CEEEEEecCCCchHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEEEEEEcC
Confidence 357889999999999999999999999999987653 4666667777654
No 53
>PRK05092 PII uridylyl-transferase; Provisional
Probab=94.19 E-value=0.18 Score=55.78 Aligned_cols=58 Identities=21% Similarity=0.213 Sum_probs=49.8
Q ss_pred ceEEEEEe--CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEe-eCCeEEEEEEEE
Q 042904 259 ADVEVKFS--GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIST-VDETMHNSFTIK 316 (320)
Q Consensus 259 ~~VeV~~~--g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist-~~~~vl~tf~vK 316 (320)
+.|.++.. .+...|.|.|+.++|+|.+|..+|..++++|+.|.|.| .+++++.+|.|.
T Consensus 720 ~~v~~~~~~~~~~t~v~I~~~Dr~GLfa~i~~~L~~~glnI~~A~I~t~~dg~alD~F~V~ 780 (931)
T PRK05092 720 LATEVRPDPARGVTEVTVLAADHPGLFSRIAGACAAAGANIVDARIFTTTDGRALDTFWIQ 780 (931)
T ss_pred cEEEEEecCCCCeEEEEEEeCCCCcHHHHHHHHHHHCCCcEEEEEEEEecCCeEEEEEEEE
Confidence 44555443 35789999999999999999999999999999999976 689999999885
No 54
>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=94.05 E-value=0.27 Score=33.94 Aligned_cols=46 Identities=24% Similarity=0.327 Sum_probs=37.6
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEEEe
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTIKV 317 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~vKv 317 (320)
|++.|..++|.+.+|++.|.+++++|.+..+...+ +.....|++++
T Consensus 1 l~v~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~ 47 (71)
T cd04876 1 IRVEAIDRPGLLADITTVIAEEKINILSVNTRTDDDGLATIRLTLEV 47 (71)
T ss_pred CEEEEeccCcHHHHHHHHHHhCCCCEEEEEeEECCCCEEEEEEEEEE
Confidence 46789999999999999999999999999887655 55545566654
No 55
>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=93.97 E-value=0.22 Score=37.76 Aligned_cols=47 Identities=17% Similarity=0.360 Sum_probs=40.5
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
+|.+.++.|||++.+|.++|.++++.|.+.+.++.++.+...|.+.+
T Consensus 1 ~vtv~G~DrpGiv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~~v~~ 47 (75)
T cd04870 1 LITVTGPDRPGLTSALTEVLAAHGVRILDVGQAVIHGRLSLGILVQI 47 (75)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHCCCCEEecccEEEcCeeEEEEEEEc
Confidence 47899999999999999999999999999998888887555555554
No 56
>PRK04435 hypothetical protein; Provisional
Probab=93.78 E-value=0.35 Score=41.93 Aligned_cols=54 Identities=17% Similarity=0.273 Sum_probs=46.6
Q ss_pred EeCCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEe-eCCeEEEEEEEEec
Q 042904 265 FSGPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIST-VDETMHNSFTIKVT 318 (320)
Q Consensus 265 ~~g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist-~~~~vl~tf~vKv~ 318 (320)
..|+.+.|.+.+..++|+|.+|+++|.+.+..|++.+.+. .++....+|++.+.
T Consensus 65 ~~~r~vtL~i~l~Dr~GlLs~Il~~IA~~~aNIltI~q~i~~~g~a~vs~tVevs 119 (147)
T PRK04435 65 VKGKIITLSLLLEDRSGTLSKVLNVIAEAGGNILTINQSIPLQGRANVTISIDTS 119 (147)
T ss_pred CCCcEEEEEEEEecCCCHHHHHHHHHHHcCCCeEEEEEEcCCCCEEEEEEEEEeC
Confidence 4578899999999999999999999999999999998765 46777777888764
No 57
>PRK04374 PII uridylyl-transferase; Provisional
Probab=93.75 E-value=0.21 Score=54.92 Aligned_cols=50 Identities=16% Similarity=0.283 Sum_probs=46.1
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEe-eCCeEEEEEEEE
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIST-VDETMHNSFTIK 316 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist-~~~~vl~tf~vK 316 (320)
.+...|-|.|+.++|+|.+|..+|..++|.|+.|.|.| .+|.++.+|.|.
T Consensus 688 ~~~~~v~v~~~d~~gLFa~i~g~l~~~~lnI~~A~i~t~~~g~~ld~f~V~ 738 (869)
T PRK04374 688 NDALEVFVYSPDRDGLFAAIVATLDRKGYGIHRARVLDAPHDAIFDVFEVL 738 (869)
T ss_pred CCeEEEEEEeCCCccHHHHHHHHHHHCCCeEEEEEEEEcCCCEEEEEEEEe
Confidence 35689999999999999999999999999999999986 689999999985
No 58
>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=93.49 E-value=0.38 Score=31.34 Aligned_cols=35 Identities=26% Similarity=0.432 Sum_probs=31.2
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD 306 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~ 306 (320)
|.+.|+.++|.+.+|+.+|...++.|...+.....
T Consensus 1 i~i~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~~ 35 (60)
T cd02116 1 LTVSGPDRPGLLAKVLSVLAEAGINITSIEQRTSG 35 (60)
T ss_pred CEEEecCCCchHHHHHHHHHHCCCcEEEEEeEEcC
Confidence 56888999999999999999999999999987653
No 59
>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=93.26 E-value=0.34 Score=36.52 Aligned_cols=37 Identities=11% Similarity=0.170 Sum_probs=33.8
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCe
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDET 308 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~ 308 (320)
.|+|.|..++|+|.+|+.+|.+++..|.+.++.+- +.
T Consensus 2 ~l~I~~~dr~Gll~dI~~~i~~~~~nI~~~~~~~~-~~ 38 (74)
T cd04877 2 RLEITCEDRLGITQEVLDLLVEHNIDLRGIEIDPK-GR 38 (74)
T ss_pred EEEEEEEccchHHHHHHHHHHHCCCceEEEEEecC-Ce
Confidence 58899999999999999999999999999999765 55
No 60
>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=92.74 E-value=0.46 Score=34.68 Aligned_cols=47 Identities=21% Similarity=0.198 Sum_probs=37.8
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee-C-CeEEEEEEEE
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV-D-ETMHNSFTIK 316 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~-~-~~vl~tf~vK 316 (320)
++|+|.+..++|+|.+|+..|.+.+..|.+.+.... + +.....|.++
T Consensus 1 ~yl~i~~~d~~g~l~~i~~~l~~~~i~I~~~~~~~~~~~~~~~~~i~~~ 49 (79)
T cd04881 1 YYLRLTVKDKPGVLAKITGILAEHGISIESVIQKEADGGETAPVVIVTH 49 (79)
T ss_pred CEEEEEeCCCCcHHHHHHHHHHHcCCCeEEEEEcccCCCCceeEEEEEc
Confidence 478999999999999999999999999999987665 3 5444444443
No 61
>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=92.61 E-value=0.69 Score=33.25 Aligned_cols=45 Identities=9% Similarity=0.066 Sum_probs=35.8
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEE
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTI 315 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~v 315 (320)
.|.+.++.++|.|.+|+..|.+.++.|.+.+....+ +.....|.+
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~i~~ 47 (72)
T cd04874 2 ALSIIAEDKPGVLRDLTGVIAEHGGNITYTQQFIEREGKARIYMEL 47 (72)
T ss_pred eEEEEeCCCCChHHHHHHHHHhCCCCEEEEEEeccCCCeEEEEEEE
Confidence 578899999999999999999999999998887653 443333433
No 62
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=91.93 E-value=0.28 Score=46.42 Aligned_cols=56 Identities=23% Similarity=0.253 Sum_probs=47.8
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHhcCCCC-CCCCCChhhhHHHHHHHHHHHHHHH
Q 042904 101 QQRMSHITVERNRRKQMNENLSVLRSLMPCF-YVKRGDQASIIGGVVDYINELQQVL 156 (320)
Q Consensus 101 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~-~~~k~dKasIL~~AI~YIk~Lq~~v 156 (320)
-+|..-+..||+|-..||..|+.||..||.. ..+|.+|-..|.-|-.||--|-..+
T Consensus 173 ~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 173 HRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLL 229 (285)
T ss_pred hhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhh
Confidence 3467789999999999999999999999986 3567889999999999998776554
No 63
>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=91.46 E-value=1.3 Score=31.60 Aligned_cols=47 Identities=13% Similarity=0.191 Sum_probs=38.6
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee--CCeEEEEEEEEe
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV--DETMHNSFTIKV 317 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~--~~~vl~tf~vKv 317 (320)
.|.+.+..++|+|.+|+..|.+.++.|...+.... ++.....|.+++
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 50 (72)
T cd04878 2 TLSVLVENEPGVLNRISGLFARRGFNIESLTVGPTEDPGISRITIVVEG 50 (72)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCCEEEEEeeecCCCCeEEEEEEEEC
Confidence 46788899999999999999999999999988764 455566666654
No 64
>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=90.99 E-value=0.95 Score=32.14 Aligned_cols=45 Identities=16% Similarity=0.231 Sum_probs=37.6
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC--CeEEEEEEEE
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD--ETMHNSFTIK 316 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~--~~vl~tf~vK 316 (320)
+.|.+..++|++.+|+..|.+.++.|.+.++.... +.....|+++
T Consensus 2 l~v~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v~ 48 (71)
T cd04879 2 LLIVHKDVPGVIGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDVD 48 (71)
T ss_pred EEEEecCCCCHHHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEcC
Confidence 56788999999999999999999999999987654 6666666653
No 65
>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=90.76 E-value=1 Score=31.67 Aligned_cols=46 Identities=15% Similarity=0.208 Sum_probs=37.4
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEEEe
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTIKV 317 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~vKv 317 (320)
|.+..+.+||.|.+|++.|.+.++.|.+..+...+ +..+..|.+..
T Consensus 1 ~~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v~~ 47 (56)
T cd04889 1 LSVFVENKPGRLAEVTEILAEAGINIKAISIAETRGEFGILRLIFSD 47 (56)
T ss_pred CEEEeCCCCChHHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEECC
Confidence 45678999999999999999999999888887655 66666666543
No 66
>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=90.44 E-value=1.4 Score=32.99 Aligned_cols=46 Identities=9% Similarity=0.170 Sum_probs=36.4
Q ss_pred EEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCC-eEEEEEEEEec
Q 042904 273 KTVSPRIPGQAVKIISALEDLAFEILHVNISTVDE-TMHNSFTIKVT 318 (320)
Q Consensus 273 kI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~-~vl~tf~vKv~ 318 (320)
-+..+.+||.|.+|+..|..+++.+++.......+ .--|.|.+.+.
T Consensus 3 ~~~l~d~pG~L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~f~id~~ 49 (75)
T cd04880 3 VFSLKNKPGALAKALKVFAERGINLTKIESRPSRKGLWEYEFFVDFE 49 (75)
T ss_pred EEEeCCcCCHHHHHHHHHHHCCCCEEEEEeeecCCCCceEEEEEEEE
Confidence 34456789999999999999999999998876644 44567777664
No 67
>PRK08577 hypothetical protein; Provisional
Probab=90.42 E-value=1.9 Score=36.54 Aligned_cols=51 Identities=18% Similarity=0.255 Sum_probs=41.4
Q ss_pred CeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC--CeEEEEEEEEec
Q 042904 268 PNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD--ETMHNSFTIKVT 318 (320)
Q Consensus 268 ~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~--~~vl~tf~vKv~ 318 (320)
+.+.|.|.+..++|+|.+|+++|.+++..+.+.+..+.. +...-.|++.+.
T Consensus 55 ~~~~I~V~~~Dr~GvLa~I~~~l~~~~inI~~i~~~~~~~~~~~~i~l~vev~ 107 (136)
T PRK08577 55 KLVEIELVVEDRPGVLAKITGLLAEHGVDILATECEELKRGELAECVIIVDLS 107 (136)
T ss_pred cEEEEEEEEcCCCCHHHHHHHHHHHCCCCEEEEEEEEecCCCEEEEEEEEEeC
Confidence 478999999999999999999999999999998887653 444445555553
No 68
>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=89.38 E-value=1.6 Score=31.12 Aligned_cols=44 Identities=23% Similarity=0.313 Sum_probs=34.5
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee--CCeEEEEEEE
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTV--DETMHNSFTI 315 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~--~~~vl~tf~v 315 (320)
|.+.+..++|.+.+|+..|.++++.|.+.+.... ++.....|.+
T Consensus 2 l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~i~i~v 47 (71)
T cd04903 2 LIVVHKDKPGAIAKVTSVLADHEINIAFMRVSRKEKGDQALMVIEV 47 (71)
T ss_pred EEEEeCCCCChHHHHHHHHHHcCcCeeeeEEEeccCCCeEEEEEEe
Confidence 6788999999999999999999999998887653 3443333443
No 69
>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=88.78 E-value=1.4 Score=33.47 Aligned_cols=46 Identities=13% Similarity=0.128 Sum_probs=40.3
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
+|.|.|+.+.|+--+|++.+=++||.|....++|-+..-+-.|-|.
T Consensus 2 vitvnCPDktGLgcdlcr~il~fGl~i~rgd~sTDGkWCyiv~wVv 47 (69)
T cd04894 2 VITINCPDKTGLGCDLCRIILEFGLNITRGDDSTDGRWCYIVFWVV 47 (69)
T ss_pred EEEEeCCCccCcccHHHHHHHHhceEEEecccccCCcEEEEEEEEe
Confidence 6899999999999999999999999999999999887655555553
No 70
>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=88.78 E-value=2.8 Score=31.89 Aligned_cols=48 Identities=10% Similarity=0.223 Sum_probs=37.6
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEEEec
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTIKVT 318 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~vKv~ 318 (320)
.|.+.-+.++|.|.+|+..|.++++.+++....... +...+.|.+.+.
T Consensus 3 sl~~~~~d~~G~L~~il~~f~~~~ini~~i~s~p~~~~~~~~~f~vd~~ 51 (80)
T cd04905 3 SIVFTLPNKPGALYDVLGVFAERGINLTKIESRPSKGGLWEYVFFIDFE 51 (80)
T ss_pred EEEEEECCCCCHHHHHHHHHHHCCcCEEEEEEEEcCCCCceEEEEEEEE
Confidence 344555778999999999999999999999877653 455577777664
No 71
>PRK07334 threonine dehydratase; Provisional
Probab=88.59 E-value=1.9 Score=43.02 Aligned_cols=49 Identities=12% Similarity=0.209 Sum_probs=43.0
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee-----CCeEEEEEEEEec
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV-----DETMHNSFTIKVT 318 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~-----~~~vl~tf~vKv~ 318 (320)
+.|+|.+..++|+|.+|+.+|.+.++.|.++++.+. ++...-.|+++|.
T Consensus 327 v~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~ 380 (403)
T PRK07334 327 ARLRVDIRDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETR 380 (403)
T ss_pred EEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeC
Confidence 899999999999999999999999999999998764 5676667777764
No 72
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=87.70 E-value=1.5 Score=47.67 Aligned_cols=58 Identities=17% Similarity=0.176 Sum_probs=49.7
Q ss_pred ceEEEEEeCCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEE-eeCCeEEEEEEEE
Q 042904 259 ADVEVKFSGPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIS-TVDETMHNSFTIK 316 (320)
Q Consensus 259 ~~VeV~~~g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anis-t~~~~vl~tf~vK 316 (320)
..+.++...+...|-|.|+.+|.++..|+.++...|++|+.|+|- +-+|.++.+|.|-
T Consensus 674 v~~~~r~~~~~teV~V~a~d~p~Lfa~v~~~~~~~g~~i~dAqi~tt~dG~alDtfiv~ 732 (867)
T COG2844 674 VLISVRPHSGGTEVFVYAPDRPRLFAVVCAALSRRGLSIVDAQIFTTRDGYALDTFIVL 732 (867)
T ss_pred eeeeecccCCceEEEEEcCCCccHHHHHHHHHccCCCceeeeEEEEccCCceeeeEEEe
Confidence 344445556778999999999999999999999999999999995 5689999999775
No 73
>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=87.45 E-value=3.4 Score=30.12 Aligned_cols=36 Identities=22% Similarity=0.317 Sum_probs=31.6
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV 305 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~ 305 (320)
+.+.+.++.+||.|.+|+..|.++++.|........
T Consensus 2 ~~~~v~~~d~~G~L~~l~~~l~~~~i~i~~~~~~~~ 37 (69)
T cd04909 2 YDLYVDVPDEPGVIAEVTQILGDAGISIKNIEILEI 37 (69)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHcCCCceeeEeEEe
Confidence 457888999999999999999999999998876654
No 74
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=86.26 E-value=0.69 Score=40.74 Aligned_cols=46 Identities=20% Similarity=0.258 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCCCChhhhHHHHHHHHHHHHH
Q 042904 109 VERNRRKQMNENLSVLRSLMPCFYVKRGDQASIIGGVVDYINELQQ 154 (320)
Q Consensus 109 ~ER~RR~~in~~~~~LrslvP~~~~~k~dKasIL~~AI~YIk~Lq~ 154 (320)
.||.|-+++|+.|.-|+.|+|.....++.+.--|.-+-+||.+|.+
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~dE 74 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSLDE 74 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhHHH
Confidence 6999999999999999999999755555544446666666665543
No 75
>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=86.23 E-value=2.1 Score=30.44 Aligned_cols=44 Identities=18% Similarity=0.169 Sum_probs=33.5
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC--CeEEEEEEE
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD--ETMHNSFTI 315 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~--~~vl~tf~v 315 (320)
|.+.-+.+||.|.+|+..|.+.++.|.+....... +.....|.+
T Consensus 2 i~v~~~d~pG~L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~v 47 (65)
T cd04882 2 LAVEVPDKPGGLHEILQILSEEGINIEYMYAFVEKKGGKALLIFRT 47 (65)
T ss_pred EEEEeCCCCcHHHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEe
Confidence 56677899999999999999999999877765443 444444444
No 76
>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=83.98 E-value=5.3 Score=42.97 Aligned_cols=61 Identities=11% Similarity=0.181 Sum_probs=49.9
Q ss_pred ceEEEEEeCC-----eEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee-CCeEEEEEEEEecC
Q 042904 259 ADVEVKFSGP-----NLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV-DETMHNSFTIKVTK 319 (320)
Q Consensus 259 ~~VeV~~~g~-----~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~-~~~vl~tf~vKv~~ 319 (320)
.-|.|+.... .+.|+|.+..++|+|.+|+.+|.+.+..|.++++.+. +++..-.|+++|..
T Consensus 595 r~I~v~W~~~~~~~f~v~I~I~~~dr~GlLadI~~~ia~~~~nI~~v~~~~~~~~~~~~~~~ieV~~ 661 (683)
T TIGR00691 595 KIIEVEWNASKPRRFIVDINIEAVDRKGVLSDLTTAISENDSNIVSISTKTYGKREAILNITVEIKN 661 (683)
T ss_pred cEEEEEecCCCCceeEEEEEEEEecCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCEEEEEEEEEECC
Confidence 3577777432 4689999999999999999999999999999999876 46766678887753
No 77
>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=83.94 E-value=5.6 Score=29.01 Aligned_cols=38 Identities=18% Similarity=0.292 Sum_probs=32.5
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCe
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDET 308 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~ 308 (320)
.|.|..+.+||.|.+|+++|.+.++.|.+..+....+.
T Consensus 3 ri~v~v~d~pG~La~v~~~l~~~~inI~~i~~~~~~~~ 40 (66)
T cd04908 3 QLSVFLENKPGRLAAVTEILSEAGINIRALSIADTSEF 40 (66)
T ss_pred EEEEEEcCCCChHHHHHHHHHHCCCCEEEEEEEecCCC
Confidence 46778899999999999999999999998887665553
No 78
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=83.93 E-value=0.86 Score=47.45 Aligned_cols=39 Identities=28% Similarity=0.474 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHhcCCCC--CCCCCChhhhHHHHHHHHH
Q 042904 112 NRRKQMNENLSVLRSLMPCF--YVKRGDQASIIGGVVDYIN 150 (320)
Q Consensus 112 ~RR~~in~~~~~LrslvP~~--~~~k~dKasIL~~AI~YIk 150 (320)
+-|+++|.-|+.|.+|+|-. .++|.||.|||.-++.|++
T Consensus 35 RHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 35 RHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred hHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHH
Confidence 35899999999999999964 3579999999999999986
No 79
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=83.81 E-value=5.5 Score=43.36 Aligned_cols=61 Identities=15% Similarity=0.209 Sum_probs=49.8
Q ss_pred ceEEEEEeCC-----eEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee--CCeEEEEEEEEecC
Q 042904 259 ADVEVKFSGP-----NLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV--DETMHNSFTIKVTK 319 (320)
Q Consensus 259 ~~VeV~~~g~-----~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~--~~~vl~tf~vKv~~ 319 (320)
.-|+|++... .+.|.|.+..++|+|.+|..+|.+.++.|.++++.+. +++..-.|+++|..
T Consensus 651 R~I~V~W~~~~~~~~~v~I~I~~~Dr~GlL~dIt~~is~~~~nI~~v~~~~~~~~~~~~~~~~ieV~~ 718 (743)
T PRK10872 651 RIVDAVWGESYSSGYSLVVRVTANDRSGLLRDITTILANEKVNVLGVASRSDTKQQLATIDMTIEIYN 718 (743)
T ss_pred eEEEeEecCCCCceeEEEEEEEEcCCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCCEEEEEEEEEECC
Confidence 3577877532 3689999999999999999999999999999999765 46766678888753
No 80
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=83.72 E-value=5.5 Score=43.08 Aligned_cols=61 Identities=11% Similarity=0.100 Sum_probs=49.5
Q ss_pred ceEEEEEeCC-----eEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEEEecC
Q 042904 259 ADVEVKFSGP-----NLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTIKVTK 319 (320)
Q Consensus 259 ~~VeV~~~g~-----~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~vKv~~ 319 (320)
.-|+|+.... .+.|+|.+..++|+|.+|+.+|.+.++.|.++++.+.+ ++..-.|+++|..
T Consensus 611 r~i~v~W~~~~~~~~~v~i~I~~~dr~GlL~dI~~~i~~~~~nI~~v~~~~~~~~~~~~~~~ieV~~ 677 (702)
T PRK11092 611 KFMAVEWDKETEQEFIAEIKVEMFNHQGALANLTAAINTTGSNIQSLNTEEKDGRVYSAFIRLTARD 677 (702)
T ss_pred eeEEeEECCCCCceeEEEEEEEEeCCCCHHHHHHHHHHHCCCCeEEEEEEEcCCCEEEEEEEEEECC
Confidence 3577877532 46899999999999999999999999999999987765 5655668887753
No 81
>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=83.47 E-value=7.6 Score=28.24 Aligned_cols=46 Identities=20% Similarity=0.344 Sum_probs=35.8
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee--CCeEEEEEEEE
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV--DETMHNSFTIK 316 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~--~~~vl~tf~vK 316 (320)
.|.+..+.+||.|.+|+..|.+.++.|.+...... ++.....|.+.
T Consensus 3 ~~~v~~~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~ 50 (72)
T cd04883 3 QIEVRVPDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQ 50 (72)
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEe
Confidence 57778899999999999999999999998765433 34555556554
No 82
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=80.54 E-value=1.3 Score=47.39 Aligned_cols=44 Identities=30% Similarity=0.398 Sum_probs=37.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhcCCCC--CCCCCChhhhHHHHHHHHH
Q 042904 107 ITVERNRRKQMNENLSVLRSLMPCF--YVKRGDQASIIGGVVDYIN 150 (320)
Q Consensus 107 ~~~ER~RR~~in~~~~~LrslvP~~--~~~k~dKasIL~~AI~YIk 150 (320)
.-+-|-||.|=|+-|++|..+||-. -....|||+|+.-||-|++
T Consensus 51 RdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLR 96 (768)
T KOG3558|consen 51 RDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLR 96 (768)
T ss_pred hhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHH
Confidence 3456889999999999999999942 1346799999999999986
No 83
>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=80.13 E-value=9.2 Score=28.22 Aligned_cols=34 Identities=12% Similarity=0.244 Sum_probs=29.4
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTV 305 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~ 305 (320)
+.+.-+.+||.|.+++..|.++|..|++......
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 4566688999999999999999999999877654
No 84
>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=79.63 E-value=9.9 Score=30.33 Aligned_cols=49 Identities=14% Similarity=0.208 Sum_probs=38.7
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEEEec
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTIKVT 318 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~vKv~ 318 (320)
..|-+..+.++|.|.+|+..|...++.+.+...-... ..--|.|.|.++
T Consensus 15 tslif~l~~~pGsL~~vL~~Fa~~~INLt~IeSRP~~~~~~~Y~FfVDie 64 (90)
T cd04931 15 ISLIFSLKEEVGALAKVLRLFEEKDINLTHIESRPSRLNKDEYEFFINLD 64 (90)
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEE
Confidence 4455555788999999999999999999999998753 333477777765
No 85
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=79.41 E-value=1.6 Score=44.05 Aligned_cols=43 Identities=30% Similarity=0.385 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCC--CCCCCChhhhHHHHHHHHHH
Q 042904 109 VERNRRKQMNENLSVLRSLMPCF--YVKRGDQASIIGGVVDYINE 151 (320)
Q Consensus 109 ~ER~RR~~in~~~~~LrslvP~~--~~~k~dKasIL~~AI~YIk~ 151 (320)
.-|.||++=|--|.+|..++|-. ..+..||++|+.-+..|||-
T Consensus 8 aA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKm 52 (598)
T KOG3559|consen 8 AARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKM 52 (598)
T ss_pred HHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHH
Confidence 45789999999999999999953 12458999999999999984
No 86
>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=78.65 E-value=7.9 Score=29.24 Aligned_cols=46 Identities=9% Similarity=0.164 Sum_probs=36.7
Q ss_pred EEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCC-eEEEEEEEEec
Q 042904 273 KTVSPRIPGQAVKIISALEDLAFEILHVNISTVDE-TMHNSFTIKVT 318 (320)
Q Consensus 273 kI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~-~vl~tf~vKv~ 318 (320)
-+..+.+||.|.+|+..|...++.+.+...-...+ .--|.|.+.+.
T Consensus 4 ~f~l~~~pG~L~~vL~~f~~~~iNlt~IeSRP~~~~~~~y~Ffvd~~ 50 (74)
T cd04904 4 IFSLKEEVGALARALKLFEEFGVNLTHIESRPSRRNGSEYEFFVDCE 50 (74)
T ss_pred EEEeCCCCcHHHHHHHHHHHCCCcEEEEECCCCCCCCceEEEEEEEE
Confidence 34447789999999999999999999999987653 33477777765
No 87
>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=78.59 E-value=5.8 Score=28.78 Aligned_cols=44 Identities=11% Similarity=0.142 Sum_probs=35.3
Q ss_pred EEEcCCCCChHHHHHHHHHhCCceEEEEEEEe--eCCeEEEEEEEE
Q 042904 273 KTVSPRIPGQAVKIISALEDLAFEILHVNIST--VDETMHNSFTIK 316 (320)
Q Consensus 273 kI~c~rr~glL~~Im~aLE~L~LdV~~anist--~~~~vl~tf~vK 316 (320)
-+..+.++|.+.+|...|.++++.|.+..+.. -++.....|.++
T Consensus 3 ~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~i~v~ 48 (73)
T cd04902 3 VVRNTDRPGVIGKVGTILGEAGINIAGMQVGRDEPGGEALMVLSVD 48 (73)
T ss_pred EEEeCCCCCHHHHHHHHHHHcCcChhheEeeccCCCCEEEEEEEeC
Confidence 45778999999999999999999998887654 356666666654
No 88
>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=76.72 E-value=2.1 Score=30.90 Aligned_cols=46 Identities=17% Similarity=0.186 Sum_probs=35.3
Q ss_pred EEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 272 LKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 272 IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
|-+.+..++|++.+|+..|.+.+..|...+....++..+..|.+.+
T Consensus 2 ~~~~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~a~~~~~~~~ 47 (69)
T cd04901 2 ILHIHKNVPGVLGQINTILAEHNINIAAQYLQTRGEIGYVVIDIDS 47 (69)
T ss_pred EEEEecCCCcHHHHHHHHHHHcCCCHHHHhccCCCCEEEEEEEcCC
Confidence 3457888999999999999999999977766655566555565543
No 89
>COG3830 ACT domain-containing protein [Signal transduction mechanisms]
Probab=74.84 E-value=3.5 Score=33.22 Aligned_cols=49 Identities=10% Similarity=0.232 Sum_probs=41.8
Q ss_pred eEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEEe
Q 042904 269 NLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIKV 317 (320)
Q Consensus 269 ~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vKv 317 (320)
.++|.|.-..|+|+...|..+|-++++.|++.+=+..+++.--.+.+.+
T Consensus 3 ~avITV~GkDr~GIva~is~vLAe~~vNIldisQtvm~~~ftm~~lV~~ 51 (90)
T COG3830 3 RAVITVIGKDRVGIVAAVSRVLAEHGVNILDISQTVMDGFFTMIMLVDI 51 (90)
T ss_pred eEEEEEEcCCCCchhHHHHHHHHHcCCcEEEHHHHHHhhhceeeeEEcC
Confidence 4789999999999999999999999999999998888888555554443
No 90
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=73.22 E-value=9.5 Score=36.78 Aligned_cols=35 Identities=17% Similarity=0.280 Sum_probs=33.0
Q ss_pred eEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEE
Q 042904 269 NLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIS 303 (320)
Q Consensus 269 ~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anis 303 (320)
.+.|.|.|+.++|+..+|-..|-++++.|++++-.
T Consensus 9 ~~iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~ 43 (289)
T PRK13010 9 SYVLTLACPSAPGIVAAVSGFLAEKGCYIVELTQF 43 (289)
T ss_pred CEEEEEECCCCCCcHHHHHHHHHHCCCCEEecccc
Confidence 47899999999999999999999999999999985
No 91
>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=68.76 E-value=23 Score=27.02 Aligned_cols=43 Identities=9% Similarity=0.214 Sum_probs=34.9
Q ss_pred cCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEEEec
Q 042904 276 SPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTIKVT 318 (320)
Q Consensus 276 c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~vKv~ 318 (320)
-+.++|.|.+++..|+..++.+.+...-... ..--|.|.+.++
T Consensus 7 l~~~~g~L~~iL~~f~~~~inl~~IeSRP~~~~~~~y~F~id~e 50 (74)
T cd04929 7 LKNEVGGLAKALKLFQELGINVVHIESRKSKRRSSEFEIFVDCE 50 (74)
T ss_pred cCCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEE
Confidence 3678999999999999999999999988653 334577777765
No 92
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=67.34 E-value=1.6 Score=46.58 Aligned_cols=64 Identities=23% Similarity=0.323 Sum_probs=52.7
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHhcCCCC---CCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 042904 101 QQRMSHITVERNRRKQMNENLSVLRSLMPCF---YVKRGDQASIIGGVVDYINELQQVLQSLEAKKQ 164 (320)
Q Consensus 101 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~---~~~k~dKasIL~~AI~YIk~Lq~~v~~L~~~~~ 164 (320)
.+++.|+.+|.+||..++-.|..|.+++-+. ...|+.+..-+...+.||..++++...+.++..
T Consensus 650 ~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~ 716 (856)
T KOG3582|consen 650 NRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAH 716 (856)
T ss_pred CCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhh
Confidence 6689999999999999999999999998764 234677778899999999988887766665544
No 93
>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=66.53 E-value=21 Score=29.75 Aligned_cols=48 Identities=10% Similarity=0.056 Sum_probs=36.8
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCC-eEEEEEEEEec
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDE-TMHNSFTIKVT 318 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~-~vl~tf~vKv~ 318 (320)
.|-+..+.++|.|.+|+..|...++.+.+...-...+ .--|.|.|.+.
T Consensus 43 Slifsl~~~pGsL~~iL~~Fa~~gINLt~IESRP~~~~~~eY~FfIdie 91 (115)
T cd04930 43 TLLFSLKEGFSSLSRILKVFETFEAKIHHLESRPSRKEGGDLEVLVRCE 91 (115)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHCCCCEEEEECCcCCCCCceEEEEEEEE
Confidence 3444447789999999999999999999999887632 23467777664
No 94
>PLN02705 beta-amylase
Probab=65.72 E-value=6.6 Score=41.73 Aligned_cols=25 Identities=28% Similarity=0.276 Sum_probs=19.3
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHhc
Q 042904 103 RMSHITVERNRRKQMNENLSVLRSL 127 (320)
Q Consensus 103 r~~h~~~ER~RR~~in~~~~~Lrsl 127 (320)
|.+...+||+||.--...|.-||.+
T Consensus 85 ~e~~~~rer~rrai~~ki~aglr~~ 109 (681)
T PLN02705 85 KERTKLRERHRRAITSRMLAGLRQY 109 (681)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHhc
Confidence 5678888999998777777777765
No 95
>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=65.13 E-value=27 Score=26.51 Aligned_cols=47 Identities=15% Similarity=0.304 Sum_probs=35.6
Q ss_pred ceEEEEEeCCeEEEEEEcCCCC------ChHHHHHHHHHhCCceEEEEEEEee
Q 042904 259 ADVEVKFSGPNLLLKTVSPRIP------GQAVKIISALEDLAFEILHVNISTV 305 (320)
Q Consensus 259 ~~VeV~~~g~~v~IkI~c~rr~------glL~~Im~aLE~L~LdV~~anist~ 305 (320)
..|.+++.++.+.|.|.+.... ..+..+-++|...|+.+.+.++..-
T Consensus 27 v~v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~~~~~~v~~~ 79 (85)
T PF02120_consen 27 VEVKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGLEVVNLSVSQG 79 (85)
T ss_dssp EEEEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-EEEEEEEESS
T ss_pred EEEEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEEEEC
Confidence 4666677889999999998762 3577888999999999999888754
No 96
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=64.93 E-value=29 Score=25.58 Aligned_cols=40 Identities=13% Similarity=0.199 Sum_probs=31.8
Q ss_pred CCCChHHHHHHHHHhCCceEEEEEEEe--eCCeEEEEEEEEe
Q 042904 278 RIPGQAVKIISALEDLAFEILHVNIST--VDETMHNSFTIKV 317 (320)
Q Consensus 278 rr~glL~~Im~aLE~L~LdV~~anist--~~~~vl~tf~vKv 317 (320)
.+||.|.+|+..+..-|+.|.+.++.. .++..-.+++++-
T Consensus 1 n~~GvL~Ri~~vf~rRg~nI~sl~v~~~~~~~~~riti~v~~ 42 (63)
T PF13710_consen 1 NQPGVLNRITGVFRRRGFNIESLSVGPTEDPGISRITIVVSG 42 (63)
T ss_dssp SSTTHHHHHHHHHHTTT-EECEEEEEE-SSTTEEEEEEEEES
T ss_pred CCcHHHHHHHHHHhcCCeEEeeEEeeecCCCCEEEEEEEEee
Confidence 368999999999999999999999987 5566666666653
No 97
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=62.59 E-value=35 Score=26.49 Aligned_cols=46 Identities=15% Similarity=0.161 Sum_probs=36.3
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC--CeEEEEEEE
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD--ETMHNSFTI 315 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~--~~vl~tf~v 315 (320)
..|.+.-..+||+|.+|...+..-|+.|.+.++.... +..-.++++
T Consensus 3 ~tisi~v~n~pGVL~Ri~~lf~rRgfNI~Sl~vg~te~~~~sriti~~ 50 (76)
T PRK06737 3 HTFSLVIHNDPSVLLRISGIFARRGYYISSLNLNERDTSGVSEMKLTA 50 (76)
T ss_pred EEEEEEEecCCCHHHHHHHHHhccCcceEEEEecccCCCCeeEEEEEE
Confidence 4678888999999999999999999999888887544 444444543
No 98
>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=61.85 E-value=38 Score=22.54 Aligned_cols=26 Identities=35% Similarity=0.479 Sum_probs=22.1
Q ss_pred CCChHHHHHHHHHhCCceEEEEEEEe
Q 042904 279 IPGQAVKIISALEDLAFEILHVNIST 304 (320)
Q Consensus 279 r~glL~~Im~aLE~L~LdV~~anist 304 (320)
.+|.+.+++++|.+.++.|...+.+.
T Consensus 13 ~~~~~~~i~~~l~~~~i~i~~i~~~~ 38 (60)
T cd04868 13 TPGVAAKIFSALAEAGINVDMISQSE 38 (60)
T ss_pred CCCHHHHHHHHHHHCCCcEEEEEcCC
Confidence 57899999999999999997776553
No 99
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=60.27 E-value=50 Score=25.60 Aligned_cols=46 Identities=11% Similarity=0.236 Sum_probs=36.7
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee--CCeEEEEEEE
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV--DETMHNSFTI 315 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~--~~~vl~tf~v 315 (320)
..|.+.-..+||.|.+|+..+..-|+.|.+.++... .+..--+|++
T Consensus 4 ~~lsi~v~n~pGVL~Ri~~lf~rRGfnI~sl~v~~t~~~~~sriti~v 51 (76)
T PRK11152 4 HQLTIKARFRPEVLERVLRVVRHRGFQVCSMNMTQNTDAQNINIELTV 51 (76)
T ss_pred EEEEEEEECCccHHHHHHHHHhcCCeeeeeEEeeecCCCCEEEEEEEE
Confidence 467788899999999999999999999999988864 3444445554
No 100
>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=60.02 E-value=44 Score=22.75 Aligned_cols=34 Identities=29% Similarity=0.523 Sum_probs=27.0
Q ss_pred EEEEEcC---CCCChHHHHHHHHHhCCceEEEEEEEe
Q 042904 271 LLKTVSP---RIPGQAVKIISALEDLAFEILHVNIST 304 (320)
Q Consensus 271 ~IkI~c~---rr~glL~~Im~aLE~L~LdV~~anist 304 (320)
.|.|.+. ..++.+.+++++|.+.++.|...+.+.
T Consensus 2 ~i~i~g~~~~~~~~~~~~i~~~l~~~~i~v~~i~~~~ 38 (65)
T cd04892 2 LVSVVGAGMRGTPGVAARIFSALAEAGINIIMISQGS 38 (65)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCcEEEEEcCC
Confidence 4566554 467899999999999999998877654
No 101
>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=59.24 E-value=50 Score=23.21 Aligned_cols=34 Identities=26% Similarity=0.357 Sum_probs=26.4
Q ss_pred EEEEEcC---CCCChHHHHHHHHHhCCceEEEEEEEe
Q 042904 271 LLKTVSP---RIPGQAVKIISALEDLAFEILHVNIST 304 (320)
Q Consensus 271 ~IkI~c~---rr~glL~~Im~aLE~L~LdV~~anist 304 (320)
.|.|.+. ..++.+.+|+++|.+.++.|.-.+.++
T Consensus 3 ~isvvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~~~~ 39 (66)
T cd04922 3 ILALVGDGMAGTPGVAATFFSALAKANVNIRAIAQGS 39 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 4555554 458999999999999999997766544
No 102
>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=59.11 E-value=52 Score=23.29 Aligned_cols=34 Identities=21% Similarity=0.317 Sum_probs=25.7
Q ss_pred EEEEEcC---CCCChHHHHHHHHHhCCceEEEEEEEe
Q 042904 271 LLKTVSP---RIPGQAVKIISALEDLAFEILHVNIST 304 (320)
Q Consensus 271 ~IkI~c~---rr~glL~~Im~aLE~L~LdV~~anist 304 (320)
+|.+... ..+|.+.+|+++|.+.+++|.-.+-++
T Consensus 3 ~isvvg~~~~~~~~~~~~if~~L~~~~I~v~~i~q~~ 39 (66)
T cd04919 3 ILSLVGKHMKNMIGIAGRMFTTLADHRINIEMISQGA 39 (66)
T ss_pred EEEEECCCCCCCcCHHHHHHHHHHHCCCCEEEEEecC
Confidence 3444444 358999999999999999997665544
No 103
>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=58.29 E-value=44 Score=23.58 Aligned_cols=25 Identities=20% Similarity=0.130 Sum_probs=22.0
Q ss_pred CCCChHHHHHHHHHhCCceEEEEEE
Q 042904 278 RIPGQAVKIISALEDLAFEILHVNI 302 (320)
Q Consensus 278 rr~glL~~Im~aLE~L~LdV~~ani 302 (320)
..+|.+.+|+++|++.++.|.....
T Consensus 12 ~~~~~~~~if~~l~~~~i~v~~i~t 36 (62)
T cd04890 12 GEVGFLRKIFEILEKHGISVDLIPT 36 (62)
T ss_pred cccCHHHHHHHHHHHcCCeEEEEec
Confidence 4588999999999999999999853
No 104
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=56.47 E-value=28 Score=37.74 Aligned_cols=46 Identities=11% Similarity=0.302 Sum_probs=39.8
Q ss_pred EEEE-EEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 270 LLLK-TVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 270 v~Ik-I~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
..+. +.|+.++|+|.++..+|--+++.|.+|++.+ +|..+..|.|.
T Consensus 547 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~a~~~~-~~~~~~~~~v~ 593 (693)
T PRK00227 547 GFFTVIWHGDYPRELVRVLALIAAKGWNILSARMVA-NGPWSAEFDVR 593 (693)
T ss_pred CeEEEEecCCcccHHHHHHHHHHhcCceeeEeEEec-CCceEEEEEEe
Confidence 3444 4559999999999999999999999999999 88888888875
No 105
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=55.70 E-value=44 Score=29.09 Aligned_cols=51 Identities=8% Similarity=0.153 Sum_probs=43.2
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEE-eeCCeEEEEEEEEe
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIS-TVDETMHNSFTIKV 317 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anis-t~~~~vl~tf~vKv 317 (320)
+..+.+.+.-+.|.|.|.++++++-...+.|++.+=+ ..+|+.--++.++.
T Consensus 70 ~ri~TL~l~ledr~G~LS~vLd~iA~~~~nvLTI~Q~ipl~g~Anvtlsi~~ 121 (150)
T COG4492 70 ERIITLSLSLEDRVGILSDVLDVIAREEINVLTIHQTIPLQGRANVTLSIDT 121 (150)
T ss_pred ceEEEEEEEEhhhhhhHHHHHHHHHHhCCcEEEEecccccCceeeEEEEEEc
Confidence 4568888999999999999999999999999999877 67888766666654
No 106
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase
Probab=54.19 E-value=41 Score=39.66 Aligned_cols=51 Identities=18% Similarity=0.290 Sum_probs=42.7
Q ss_pred CeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-----CeEEEEEEEEec
Q 042904 268 PNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-----ETMHNSFTIKVT 318 (320)
Q Consensus 268 ~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-----~~vl~tf~vKv~ 318 (320)
+.+.++|....++..|++||-.||+|||.|+.-.--.+. ...+|.|.+...
T Consensus 488 ~~~~lkiy~~~~~~~Ls~vlPilenlGl~V~~e~~~~i~~~~~~~~~i~~F~l~~~ 543 (1528)
T PF05088_consen 488 GRLRLKIYHPGEPLPLSDVLPILENLGLRVIDERPYEIRRADGRRVWIHDFGLQYP 543 (1528)
T ss_pred CeEEEEEEcCCCCcCHHHHHHHHHhCCCEEEEEecceeecCCCceEEEEEEEEecC
Confidence 469999999999999999999999999999998755442 356888888753
No 107
>PRK08198 threonine dehydratase; Provisional
Probab=50.79 E-value=76 Score=31.52 Aligned_cols=51 Identities=24% Similarity=0.406 Sum_probs=40.7
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee-----CCeEEEEEEEEe
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV-----DETMHNSFTIKV 317 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~-----~~~vl~tf~vKv 317 (320)
+..+.+.|.=+.+||.|.+++..|.+.+..|+.++..-. .+.+...+.+++
T Consensus 325 gr~~~l~v~l~D~PG~L~~ll~~i~~~g~NI~~i~~~~~~~~~~~~~~~v~v~ie~ 380 (404)
T PRK08198 325 GRYLKLRVRLPDRPGQLAKLLSIIAELGANVIDVDHDRFSPDLRLGEVEVELTLET 380 (404)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEEccCCCCCceEEEEEEEEe
Confidence 566788899999999999999999999999988877632 355556666665
No 108
>cd04916 ACT_AKiii-YclM-BS_2 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. B. subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from B. subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=49.46 E-value=87 Score=21.92 Aligned_cols=34 Identities=21% Similarity=0.303 Sum_probs=25.9
Q ss_pred EEEEEcC---CCCChHHHHHHHHHhCCceEEEEEEEe
Q 042904 271 LLKTVSP---RIPGQAVKIISALEDLAFEILHVNIST 304 (320)
Q Consensus 271 ~IkI~c~---rr~glL~~Im~aLE~L~LdV~~anist 304 (320)
+|.|.+. ..++.+.+|+.+|.+.++.|.-.+.+.
T Consensus 3 lisivg~~~~~~~~~~~~i~~~L~~~~i~v~~i~~~~ 39 (66)
T cd04916 3 LIMVVGEGMKNTVGVSARATAALAKAGINIRMINQGS 39 (66)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 4555554 468999999999999999997666543
No 109
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=48.40 E-value=60 Score=25.85 Aligned_cols=46 Identities=15% Similarity=0.216 Sum_probs=36.4
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC--CeEEEEEEEE
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD--ETMHNSFTIK 316 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~--~~vl~tf~vK 316 (320)
.|.+.-..+||+|.+|...|-..|+.|.+.+++... +..-.+|++.
T Consensus 4 ~isvlVeN~~GVL~Rit~lFsRRg~NI~SLtvg~Te~~~iSRmtivv~ 51 (84)
T PRK13562 4 ILKLQVADQVSTLNRITSAFVRLQYNIDTLHVTHSEQPGISNMEIQVD 51 (84)
T ss_pred EEEEEEECCCCHHHHHHHHHhccCcCeeeEEecccCCCCceEEEEEEe
Confidence 578888999999999999999999888888887554 4444555554
No 110
>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=47.98 E-value=26 Score=25.75 Aligned_cols=33 Identities=33% Similarity=0.554 Sum_probs=27.0
Q ss_pred eEEEEEEcC----CCCChHHHHHHHHHhCCceEEEEE
Q 042904 269 NLLLKTVSP----RIPGQAVKIISALEDLAFEILHVN 301 (320)
Q Consensus 269 ~v~IkI~c~----rr~glL~~Im~aLE~L~LdV~~an 301 (320)
-..|.|.++ ..+|++.+|+.+|.+.++.|...+
T Consensus 6 ~~~i~v~g~g~~~~~~Gv~a~i~~~La~~~I~i~~is 42 (65)
T PF13840_consen 6 WAKISVVGPGLRFDVPGVAAKIFSALAEAGINIFMIS 42 (65)
T ss_dssp EEEEEEEEECGTTTSHHHHHHHHHHHHHTTS-ECEEE
T ss_pred EEEEEEEccccCCCcccHHHHHHHHHHHCCCCEEEEE
Confidence 356677776 368999999999999999999888
No 111
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=47.61 E-value=54 Score=29.70 Aligned_cols=48 Identities=8% Similarity=0.097 Sum_probs=38.7
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC----CeEEEEEEEEe
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD----ETMHNSFTIKV 317 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~----~~vl~tf~vKv 317 (320)
+.|.+.-..+||++.+|-++|-++++.|.+.+.-+.. +.-++..++.+
T Consensus 96 ~~v~v~G~DrPGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v 147 (190)
T PRK11589 96 VWVQVEVADSPHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITA 147 (190)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEE
Confidence 7899999999999999999999999999988887664 33344444443
No 112
>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=47.05 E-value=98 Score=22.20 Aligned_cols=29 Identities=31% Similarity=0.536 Sum_probs=23.2
Q ss_pred EEEEEcC---CCCChHHHHHHHHHhCCceEEE
Q 042904 271 LLKTVSP---RIPGQAVKIISALEDLAFEILH 299 (320)
Q Consensus 271 ~IkI~c~---rr~glL~~Im~aLE~L~LdV~~ 299 (320)
.|.|.+. ..+|++.+++.+|.+.++.|+.
T Consensus 3 ~isvvG~~~~~~~gi~~~if~aL~~~~I~v~~ 34 (64)
T cd04937 3 KVTIIGSRIRGVPGVMAKIVGALSKEGIEILQ 34 (64)
T ss_pred EEEEECCCccCCcCHHHHHHHHHHHCCCCEEE
Confidence 3445554 4699999999999999999963
No 113
>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=46.15 E-value=23 Score=23.20 Aligned_cols=19 Identities=37% Similarity=0.545 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 042904 108 TVERNRRKQMNENLSVLRS 126 (320)
Q Consensus 108 ~~ER~RR~~in~~~~~Lrs 126 (320)
..=|+||++++.++..||.
T Consensus 11 eqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 11 EQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3347899999999999985
No 114
>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=46.01 E-value=93 Score=23.59 Aligned_cols=26 Identities=12% Similarity=0.141 Sum_probs=22.7
Q ss_pred CCCCChHHHHHHHHHhCCceEEEEEE
Q 042904 277 PRIPGQAVKIISALEDLAFEILHVNI 302 (320)
Q Consensus 277 ~rr~glL~~Im~aLE~L~LdV~~ani 302 (320)
+..+|.+.+|+++|.+.++.|-....
T Consensus 12 ~~~~g~~~~IF~~La~~~I~VDmI~~ 37 (75)
T cd04932 12 LHAQGFLAKVFGILAKHNISVDLITT 37 (75)
T ss_pred CCCcCHHHHHHHHHHHcCCcEEEEee
Confidence 45689999999999999999988854
No 115
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=45.61 E-value=65 Score=35.06 Aligned_cols=60 Identities=18% Similarity=0.227 Sum_probs=48.0
Q ss_pred ceEEEEEeCC-----eEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee-CCeEEEEEEEEec
Q 042904 259 ADVEVKFSGP-----NLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV-DETMHNSFTIKVT 318 (320)
Q Consensus 259 ~~VeV~~~g~-----~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~-~~~vl~tf~vKv~ 318 (320)
.-|.|..... .+.|.|.-..++|+|.+|+++|-+.+..|++++..+. +++..-.|+++|.
T Consensus 612 r~i~v~W~~~~~~~f~~~i~v~~~~r~glL~~i~~~i~~~~~ni~~v~~~~~~~~~~~~~~~i~v~ 677 (701)
T COG0317 612 RVIDVSWGPEYGQVYPVDIEIRAYDRSGLLRDVSQVLANEKINVLGVNTRSDKDQFATMQFTIEVK 677 (701)
T ss_pred eEEEEEecCCCCcceEEEEEEEEccccchHHHHHHHHHhCCCceEEeeccccCCceEEEEEEEEEC
Confidence 4677776422 4788899999999999999999999999999999885 4555556666664
No 116
>PRK06382 threonine dehydratase; Provisional
Probab=44.84 E-value=85 Score=31.40 Aligned_cols=51 Identities=22% Similarity=0.337 Sum_probs=39.6
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEE----ee-CCeEEEEEEEEe
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIS----TV-DETMHNSFTIKV 317 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anis----t~-~~~vl~tf~vKv 317 (320)
+..+.|.|.-+.+||.|.+|+..|.+++..|+++... .. .+....+|.++.
T Consensus 328 ~~~~rl~v~v~D~pG~L~~l~~ii~~~~~nI~~v~~~~~~~~~~~~~~~v~i~vet 383 (406)
T PRK06382 328 GQLVRIECNIPDRPGNLYRIANAIASNGGNIYHAEVDNLRKETPPGFQSVTFTVNV 383 (406)
T ss_pred CCEEEEEEEcCCCCCHHHHHHHHHhcCCCcEEEEEEeeccccCCCCcEEEEEEEEe
Confidence 4567888899999999999999999999999988764 22 345555566654
No 117
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=44.66 E-value=18 Score=39.20 Aligned_cols=43 Identities=21% Similarity=0.257 Sum_probs=40.6
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCeEEEEEEEE
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDETMHNSFTIK 316 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~vl~tf~vK 316 (320)
.+++|....|+|+|..|+.+|+ ||.-+.++|.+.+++..|-++
T Consensus 632 ~~~e~r~~dr~g~l~~~~~~l~----~~~~~~~~~~g~~~~~~~~~~ 674 (693)
T PRK00227 632 NILEVRTEDRRGALGALLGVLP----DLLWITASTPGATMIVQAALK 674 (693)
T ss_pred cEEEEEeCccccHHHHHHHHhh----hhhhHhhcCCCcceEEEEEec
Confidence 6899999999999999999999 999999999999999988876
No 118
>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=44.50 E-value=1e+02 Score=22.48 Aligned_cols=31 Identities=19% Similarity=0.260 Sum_probs=26.1
Q ss_pred EEEcCCCCChHHHHHHHHHhCCceEEEEEEEe
Q 042904 273 KTVSPRIPGQAVKIISALEDLAFEILHVNIST 304 (320)
Q Consensus 273 kI~c~rr~glL~~Im~aLE~L~LdV~~anist 304 (320)
+|.=+.+||.|.++++.|.. +..|+..+-..
T Consensus 2 ~v~ipdkPG~l~~~~~~i~~-~~nI~~~~~~~ 32 (68)
T cd04885 2 AVTFPERPGALKKFLELLGP-PRNITEFHYRN 32 (68)
T ss_pred EEECCCCCCHHHHHHHHhCC-CCcEEEEEEEc
Confidence 45568899999999999999 98888877654
No 119
>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=40.93 E-value=1e+02 Score=21.67 Aligned_cols=27 Identities=30% Similarity=0.448 Sum_probs=22.4
Q ss_pred CCCCChHHHHHHHHHhCCceEEEEEEE
Q 042904 277 PRIPGQAVKIISALEDLAFEILHVNIS 303 (320)
Q Consensus 277 ~rr~glL~~Im~aLE~L~LdV~~anis 303 (320)
+..+|.+.+|+++|.+.++.|.-...+
T Consensus 10 ~~~~g~~~~i~~~L~~~~I~i~~i~~~ 36 (75)
T cd04913 10 PDKPGVAAKIFGALAEANINVDMIVQN 36 (75)
T ss_pred CCCCcHHHHHHHHHHHcCCeEEEEEeC
Confidence 556899999999999999999755443
No 120
>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=38.68 E-value=1.1e+02 Score=30.19 Aligned_cols=52 Identities=17% Similarity=0.324 Sum_probs=39.9
Q ss_pred eCCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEe-----eCCeEEEEEEEEe
Q 042904 266 SGPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIST-----VDETMHNSFTIKV 317 (320)
Q Consensus 266 ~g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist-----~~~~vl~tf~vKv 317 (320)
.|..+.|.|.=+.+||.|.+|++.|.+.+..|++....- -.+.+.-.|.+++
T Consensus 302 ~gr~~~l~v~l~D~pG~L~~v~~~i~~~~~NI~~i~~~r~~~~~~~~~~~v~v~vet 358 (380)
T TIGR01127 302 SGRKVRIETVLPDRPGALYHLLESIAEARANIVKIDHDRLSKEIPPGFAMVEITLET 358 (380)
T ss_pred CCCEEEEEEEeCCCCCHHHHHHHHHhcCCCcEEEEEeeccccCCCCceEEEEEEEEe
Confidence 356678889999999999999999999999999886651 1245445555554
No 121
>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=38.18 E-value=1.3e+02 Score=22.46 Aligned_cols=31 Identities=16% Similarity=0.191 Sum_probs=24.4
Q ss_pred EEEEEc---CCCCChHHHHHHHHHhCCceEEEEE
Q 042904 271 LLKTVS---PRIPGQAVKIISALEDLAFEILHVN 301 (320)
Q Consensus 271 ~IkI~c---~rr~glL~~Im~aLE~L~LdV~~an 301 (320)
+|.|.+ ...+|.+.+|+++|.+.++.|....
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 3458999999999999999998775
No 122
>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=38.08 E-value=1.4e+02 Score=22.95 Aligned_cols=32 Identities=25% Similarity=0.267 Sum_probs=25.4
Q ss_pred EEEEEcC---CCCChHHHHHHHHHhCCceEEEEEE
Q 042904 271 LLKTVSP---RIPGQAVKIISALEDLAFEILHVNI 302 (320)
Q Consensus 271 ~IkI~c~---rr~glL~~Im~aLE~L~LdV~~ani 302 (320)
+|.|.+. ..+|.+.+|+++|++.++.|-....
T Consensus 3 ~i~i~~~~~~~~~g~~a~IF~~La~~~InVDmI~q 37 (78)
T cd04933 3 MLDITSTRMLGQYGFLAKVFSIFETLGISVDVVAT 37 (78)
T ss_pred EEEEEcCCCCCccCHHHHHHHHHHHcCCcEEEEEe
Confidence 4555444 4589999999999999999988854
No 123
>cd04924 ACT_AK-Arch_2 ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). Included in this CD is the second of two ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). The first or N-terminal ACT domain of these proteins cluster with the ThrA-like ACT 1 domains (ACT_AKi-HSDH-ThrA-like_1) which includes the threonine-sensitive archaeal Methanococcus jannaschii aspartokinase ACT 1 domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=37.77 E-value=1.4e+02 Score=20.76 Aligned_cols=34 Identities=18% Similarity=0.400 Sum_probs=25.7
Q ss_pred EEEEEcC---CCCChHHHHHHHHHhCCceEEEEEEEe
Q 042904 271 LLKTVSP---RIPGQAVKIISALEDLAFEILHVNIST 304 (320)
Q Consensus 271 ~IkI~c~---rr~glL~~Im~aLE~L~LdV~~anist 304 (320)
.|.|.+. ..++.+.+++++|.+.++.|.-.+.+.
T Consensus 3 ~isivg~~~~~~~~~~~~i~~~L~~~~I~v~~i~q~~ 39 (66)
T cd04924 3 VVAVVGSGMRGTPGVAGRVFGALGKAGINVIMISQGS 39 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 4455554 457899999999999999997666543
No 124
>cd04921 ACT_AKi-HSDH-ThrA-like_1 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the first 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 pat
Probab=36.53 E-value=1.5e+02 Score=21.75 Aligned_cols=33 Identities=24% Similarity=0.456 Sum_probs=25.3
Q ss_pred EEEEEc---CCCCChHHHHHHHHHhCCceEEEEEEE
Q 042904 271 LLKTVS---PRIPGQAVKIISALEDLAFEILHVNIS 303 (320)
Q Consensus 271 ~IkI~c---~rr~glL~~Im~aLE~L~LdV~~anis 303 (320)
.|.|.. ...++.+.+++++|.+.++.|.-.+-+
T Consensus 3 ~I~vvg~~~~~~~~~~~~i~~~L~~~~I~v~~i~~~ 38 (80)
T cd04921 3 LINIEGTGMVGVPGIAARIFSALARAGINVILISQA 38 (80)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHCCCcEEEEEec
Confidence 455533 346789999999999999999777655
No 125
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=36.07 E-value=1.6e+02 Score=24.02 Aligned_cols=39 Identities=15% Similarity=0.261 Sum_probs=32.7
Q ss_pred CeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC
Q 042904 268 PNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD 306 (320)
Q Consensus 268 ~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~ 306 (320)
+...|.+.-..+||+|.+|...|-.-|..|.+.++....
T Consensus 7 ~~~tisvlv~N~pGVL~RIaglFsRRgyNIeSLtvg~te 45 (96)
T PRK08178 7 DNVILELTVRNHPGVMSHVCGLFARRAFNVEGILCLPIQ 45 (96)
T ss_pred CCEEEEEEEECCcCHHHHHHHHHhcCCcCeeeEEEeecC
Confidence 446788889999999999999999888888887776554
No 126
>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=34.89 E-value=2.1e+02 Score=21.91 Aligned_cols=31 Identities=26% Similarity=0.313 Sum_probs=23.9
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEE
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNI 302 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~ani 302 (320)
.++.|.=+.+||.|.+++++|- +-+|....-
T Consensus 2 ~vl~v~ipD~PG~L~~ll~~l~--~anI~~~~y 32 (85)
T cd04906 2 ALLAVTIPERPGSFKKFCELIG--PRNITEFNY 32 (85)
T ss_pred eEEEEecCCCCcHHHHHHHHhC--CCceeEEEE
Confidence 4678888999999999999998 445554443
No 127
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=34.65 E-value=1.3e+02 Score=25.80 Aligned_cols=38 Identities=13% Similarity=0.273 Sum_probs=34.2
Q ss_pred EEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCe
Q 042904 271 LLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDET 308 (320)
Q Consensus 271 ~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~ 308 (320)
.|.+.-+.+||.|..++.+|.+.|+.+--.+|.-.+++
T Consensus 5 QISvFlENk~GRL~~~~~~L~eagINiRA~tiAdt~dF 42 (142)
T COG4747 5 QISVFLENKPGRLASVANKLKEAGINIRAFTIADTGDF 42 (142)
T ss_pred EEEEEecCCcchHHHHHHHHHHcCCceEEEEeccccCc
Confidence 57888899999999999999999999999988876665
No 128
>cd04934 ACT_AK-Hom3_1 CT 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. This CD includes the first 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 hydro
Probab=34.60 E-value=1.9e+02 Score=21.80 Aligned_cols=32 Identities=13% Similarity=0.254 Sum_probs=24.8
Q ss_pred EEEEEcCC---CCChHHHHHHHHHhCCceEEEEEE
Q 042904 271 LLKTVSPR---IPGQAVKIISALEDLAFEILHVNI 302 (320)
Q Consensus 271 ~IkI~c~r---r~glL~~Im~aLE~L~LdV~~ani 302 (320)
.|.|.+.+ .+|.+.+|+++|++.++.|-....
T Consensus 3 ~I~i~~~~m~~~~g~~~~If~~la~~~I~vd~I~~ 37 (73)
T cd04934 3 VINIHSNKKSLSHGFLARIFAILDKYRLSVDLIST 37 (73)
T ss_pred EEEEEcccCccccCHHHHHHHHHHHcCCcEEEEEe
Confidence 34444443 589999999999999999988864
No 129
>PRK11899 prephenate dehydratase; Provisional
Probab=33.83 E-value=1.8e+02 Score=27.88 Aligned_cols=50 Identities=10% Similarity=0.107 Sum_probs=39.2
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEEEecC
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTIKVTK 319 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~vKv~~ 319 (320)
..|-+..+.+||.|.+|+.+|...++......+-... ..--|.|.+.+++
T Consensus 195 tsl~~~~~~~pGaL~~vL~~Fa~~gINLtkIeSRP~~~~~~~Y~F~id~eg 245 (279)
T PRK11899 195 TTFVFRVRNIPAALYKALGGFATNGVNMTKLESYMVGGSFTATQFYADIEG 245 (279)
T ss_pred EEEEEEeCCCCChHHHHHHHHHHcCCCeeeEEeeecCCCCceEEEEEEEEC
Confidence 3444444789999999999999999999999998764 4456788887754
No 130
>cd04918 ACT_AK1-AT_2 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the second 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 (SAM). This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. In its inactive state, Arabidopsis AK1 binds the effectors lysine and SAM (two molecules each) at the interface of two ACT1 domain subunits. The second ACT domain (ACT2), this CD, does not interact with an effector. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.50 E-value=1.3e+02 Score=21.75 Aligned_cols=31 Identities=6% Similarity=-0.010 Sum_probs=24.3
Q ss_pred CCCChHHHHHHHHHhCCceEEEEEEEeeCCe
Q 042904 278 RIPGQAVKIISALEDLAFEILHVNISTVDET 308 (320)
Q Consensus 278 rr~glL~~Im~aLE~L~LdV~~anist~~~~ 308 (320)
+.+|++.+++.+|.+.++.|.-.+.++.+-.
T Consensus 12 ~~~~~~~~i~~aL~~~~I~v~~i~~g~s~~s 42 (65)
T cd04918 12 RSSLILERAFHVLYTKGVNVQMISQGASKVN 42 (65)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEecCccce
Confidence 3578999999999999999976665554433
No 131
>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=30.76 E-value=47 Score=29.14 Aligned_cols=25 Identities=28% Similarity=0.286 Sum_probs=20.3
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHhc
Q 042904 103 RMSHITVERNRRKQMNENLSVLRSL 127 (320)
Q Consensus 103 r~~h~~~ER~RR~~in~~~~~Lrsl 127 (320)
|.+....||+||.--...|.-||..
T Consensus 12 rEnnk~RERrRRAIaakIfaGLR~~ 36 (150)
T PF05687_consen 12 RENNKRRERRRRAIAAKIFAGLRAH 36 (150)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6688889999997777777778775
No 132
>COG3978 Acetolactate synthase (isozyme II), small (regulatory) subunit [Function unknown]
Probab=30.54 E-value=1.8e+02 Score=23.24 Aligned_cols=47 Identities=11% Similarity=0.204 Sum_probs=37.8
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEee--CCeEEEEEEEE
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTV--DETMHNSFTIK 316 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~--~~~vl~tf~vK 316 (320)
+.+.+.-..+|+.|.+|+.+.+.-|+.|...|.++. .+..---|+|+
T Consensus 4 yqldl~ar~~pe~leRVLrvtrhRGF~vcamnmt~~~da~~~nie~tV~ 52 (86)
T COG3978 4 YQLDLSARFNPETLERVLRVTRHRGFRVCAMNMTAAVDAGNANIELTVD 52 (86)
T ss_pred EEEeeeccCChHHHHHHHHHhhhcCeEEEEeecccccccccceEEEEEc
Confidence 456777788999999999999999999999999976 45544445554
No 133
>COG4710 Predicted DNA-binding protein with an HTH domain [General function prediction only]
Probab=29.90 E-value=1.1e+02 Score=23.83 Aligned_cols=33 Identities=21% Similarity=0.405 Sum_probs=22.7
Q ss_pred HHHHHHHHHHhcCCCCCCCCCChhhhHHHHHH-HHHHHHH
Q 042904 116 QMNENLSVLRSLMPCFYVKRGDQASIIGGVVD-YINELQQ 154 (320)
Q Consensus 116 ~in~~~~~LrslvP~~~~~k~dKasIL~~AI~-YIk~Lq~ 154 (320)
.|.+++..|.+-. ...|+.+|.+||+ ||.+++.
T Consensus 15 E~~eRL~~Ls~~t------grtkayyvrEaIE~~ieemED 48 (80)
T COG4710 15 ELKERLDNLSKNT------GRTKAYYVREAIEAYIEEMED 48 (80)
T ss_pred HHHHHHHHHHHhc------CCchhHHHHHHHHHHHHHHHH
Confidence 4566677776543 2459999999996 6766554
No 134
>PRK08526 threonine dehydratase; Provisional
Probab=28.57 E-value=2.6e+02 Score=28.11 Aligned_cols=38 Identities=13% Similarity=0.233 Sum_probs=34.2
Q ss_pred CCeEEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEe
Q 042904 267 GPNLLLKTVSPRIPGQAVKIISALEDLAFEILHVNIST 304 (320)
Q Consensus 267 g~~v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist 304 (320)
|..+.+.+.=+.+||.|.+++..|-+.+.+|+++.-..
T Consensus 324 ~r~~~~~~~~~d~pg~l~~~~~~~~~~~~~i~~~~~~r 361 (403)
T PRK08526 324 YRKMKLHVTLVDKPGALMGLTDILKEANANIVKIDYDR 361 (403)
T ss_pred CCEEEEEEEcCCCCCHHHHHHHHHccCCCcEEEEEEEe
Confidence 56688999999999999999999999999999888854
No 135
>PRK15385 magnesium transport protein MgtC; Provisional
Probab=28.22 E-value=2.4e+02 Score=26.43 Aligned_cols=40 Identities=8% Similarity=0.089 Sum_probs=33.3
Q ss_pred CCeEEEEEEcCCCCC--hHHHHHHHHHhCCceEEEEEEEeeC
Q 042904 267 GPNLLLKTVSPRIPG--QAVKIISALEDLAFEILHVNISTVD 306 (320)
Q Consensus 267 g~~v~IkI~c~rr~g--lL~~Im~aLE~L~LdV~~anist~~ 306 (320)
+..+.++|.|...+. +...+++.|++.++.+.+.++...+
T Consensus 140 ~~~~~~~v~~~~~~~~~vr~~L~~~l~~~~~~~~~l~~~~~~ 181 (225)
T PRK15385 140 EKRYILKVTCNKEDESAVRQWLLNIVKEAAICLQGLGSVPAQ 181 (225)
T ss_pred ceEEEEEEEEcCcchhHHHHHHHHHHHhCCCceEEeEeeecC
Confidence 346789999988764 5788999999999999999997653
No 136
>cd04935 ACT_AKiii-DAPDC_1 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. This CD includes the first of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.13 E-value=1.7e+02 Score=22.10 Aligned_cols=25 Identities=8% Similarity=0.138 Sum_probs=21.6
Q ss_pred CCCChHHHHHHHHHhCCceEEEEEE
Q 042904 278 RIPGQAVKIISALEDLAFEILHVNI 302 (320)
Q Consensus 278 rr~glL~~Im~aLE~L~LdV~~ani 302 (320)
..+|.+.+|+++|++.++.|-....
T Consensus 13 ~~~g~~~~IF~~La~~~I~vDmI~~ 37 (75)
T cd04935 13 QQVGFLADVFAPFKKHGVSVDLVST 37 (75)
T ss_pred CccCHHHHHHHHHHHcCCcEEEEEe
Confidence 4588999999999999999988854
No 137
>PRK06635 aspartate kinase; Reviewed
Probab=27.88 E-value=2.4e+02 Score=27.91 Aligned_cols=51 Identities=20% Similarity=0.320 Sum_probs=36.1
Q ss_pred EeCCeEEEEEEcCC-CCChHHHHHHHHHhCCceEEEEEEEeeCC-eEEEEEEE
Q 042904 265 FSGPNLLLKTVSPR-IPGQAVKIISALEDLAFEILHVNISTVDE-TMHNSFTI 315 (320)
Q Consensus 265 ~~g~~v~IkI~c~r-r~glL~~Im~aLE~L~LdV~~anist~~~-~vl~tf~v 315 (320)
...+.+.|.+.+-. ++|.+.+|+++|.+.++.|...+.+...+ .+-.+|.+
T Consensus 258 ~~~~v~~Isv~g~~~~~g~l~~i~~~L~~~~I~i~~is~s~~~~~~~~is~~v 310 (404)
T PRK06635 258 FDKDEAKVTVVGVPDKPGIAAQIFGALAEANINVDMIVQNVSEDGKTDITFTV 310 (404)
T ss_pred ecCCeEEEEECCCCCCccHHHHHHHHHHHcCCeEEEEEecCCCCCceeEEEEE
Confidence 34566778877633 48999999999999999999876653332 33445544
No 138
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=27.49 E-value=18 Score=39.01 Aligned_cols=63 Identities=21% Similarity=0.237 Sum_probs=51.3
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhcCCCC---CCCCCChhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 042904 99 DGQQRMSHITVERNRRKQMNENLSVLRSLMPCF---YVKRGDQASIIGGVVDYINELQQVLQSLEAKKQ 164 (320)
Q Consensus 99 ~~~~r~~h~~~ER~RR~~in~~~~~LrslvP~~---~~~k~dKasIL~~AI~YIk~Lq~~v~~L~~~~~ 164 (320)
.+..+..|+..+|+||-.+.++|..|-.|.|.. ...+..+++||. +.|+.+++.-+.+.+...
T Consensus 784 n~~v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~~ 849 (856)
T KOG3582|consen 784 NGMVSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKIE 849 (856)
T ss_pred cceeecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhhh
Confidence 345577899999999999999999999999963 224568999999 888999888777776554
No 139
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.43 E-value=1.1e+02 Score=23.79 Aligned_cols=25 Identities=24% Similarity=0.333 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 042904 142 IGGVVDYINELQQVLQSLEAKKQRK 166 (320)
Q Consensus 142 L~~AI~YIk~Lq~~v~~L~~~~~~~ 166 (320)
+..||+-|.-||-++++|+.+...+
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l 37 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSL 37 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHh
Confidence 6789999999999999999877654
No 140
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=27.15 E-value=1.8e+02 Score=27.55 Aligned_cols=50 Identities=20% Similarity=0.161 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHhcCCCCCCC------------------CCChhhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 042904 114 RKQMNENLSVLRSLMPCFYVK------------------RGDQASIIGGVVDYINELQQVLQSLEAKKQR 165 (320)
Q Consensus 114 R~~in~~~~~LrslvP~~~~~------------------k~dKasIL~~AI~YIk~Lq~~v~~L~~~~~~ 165 (320)
|..|...|..|+..=...+.. .|-++.||.++ =||.|+.+|++||.++.+
T Consensus 6 ~qLI~~lf~RL~~ae~~prD~eAe~lI~~~~~~qP~A~Y~laQ~vlvQE~--AL~~a~~ri~eLe~ql~q 73 (247)
T PF09849_consen 6 RQLIDDLFSRLKQAEAQPRDPEAEALIAQALARQPDAPYYLAQTVLVQEQ--ALKQAQARIQELEAQLQQ 73 (247)
T ss_pred HHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHhCCchHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHh
Confidence 567888899998876551110 12233333332 278899999999999855
No 141
>PRK06291 aspartate kinase; Provisional
Probab=26.69 E-value=2.6e+02 Score=28.51 Aligned_cols=40 Identities=20% Similarity=0.365 Sum_probs=31.7
Q ss_pred eCCeEEEEEEcC---CCCChHHHHHHHHHhCCceEEEEEEEee
Q 042904 266 SGPNLLLKTVSP---RIPGQAVKIISALEDLAFEILHVNISTV 305 (320)
Q Consensus 266 ~g~~v~IkI~c~---rr~glL~~Im~aLE~L~LdV~~anist~ 305 (320)
..+-+.|.|.+. ..+|.+.+|+++|.+.++.|...+-++.
T Consensus 318 ~~~valIsI~g~~m~~~~g~~arvf~~L~~~gI~V~mIsq~ss 360 (465)
T PRK06291 318 IKNVALINISGAGMVGVPGTAARIFSALAEEGVNVIMISQGSS 360 (465)
T ss_pred eCCEEEEEEeCCCCCCCccHHHHHHHHHHHCCCcEEEEEecCC
Confidence 356678898876 3589999999999999999987764433
No 142
>PRK11898 prephenate dehydratase; Provisional
Probab=26.33 E-value=2e+02 Score=27.53 Aligned_cols=49 Identities=18% Similarity=0.207 Sum_probs=36.9
Q ss_pred EEEEEEcCC-CCChHHHHHHHHHhCCceEEEEEEEeeCC-eEEEEEEEEec
Q 042904 270 LLLKTVSPR-IPGQAVKIISALEDLAFEILHVNISTVDE-TMHNSFTIKVT 318 (320)
Q Consensus 270 v~IkI~c~r-r~glL~~Im~aLE~L~LdV~~anist~~~-~vl~tf~vKv~ 318 (320)
..|-+..+. ++|.|.+++..|...++.+.+...-...+ .--|.|.|.++
T Consensus 197 tslif~l~~~~pGsL~~~L~~F~~~~INLt~IeSRP~~~~~~~y~F~vd~e 247 (283)
T PRK11898 197 TSLVLTLPNNLPGALYKALSEFAWRGINLTRIESRPTKTGLGTYFFFIDVE 247 (283)
T ss_pred EEEEEEeCCCCccHHHHHHHHHHHCCCCeeeEecccCCCCCccEEEEEEEE
Confidence 344455555 59999999999999999999999987643 23467777664
No 143
>cd04923 ACT_AK-LysC-DapG-like_2 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-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, as well as, the second and fourth, of four, ACT domains present in cyanobacteria AK. Also included are the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase isoenzyme AKI found in Bacilli (B. subtilis strain 168), Clostridia, and Actinobacteria bacterial species. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.58 E-value=2.2e+02 Score=19.33 Aligned_cols=26 Identities=31% Similarity=0.455 Sum_probs=22.0
Q ss_pred CCCChHHHHHHHHHhCCceEEEEEEE
Q 042904 278 RIPGQAVKIISALEDLAFEILHVNIS 303 (320)
Q Consensus 278 rr~glL~~Im~aLE~L~LdV~~anis 303 (320)
..++.+.+|+++|.+.++.|.-.+.+
T Consensus 12 ~~~~~~~~i~~~L~~~~i~v~~i~~s 37 (63)
T cd04923 12 SHPGVAAKMFKALAEAGINIEMISTS 37 (63)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEcc
Confidence 45899999999999999999877643
No 144
>cd04891 ACT_AK-LysC-DapG-like_1 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII 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, as well as, the first and third, of four, ACT domains present in cyanobacteria AK. Also included are the N-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase isoenzyme AKI found in Bacilli (Bacillus subtilis strain 168), Clostridia, and Actinobacteria bacterial species. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.39 E-value=2.1e+02 Score=18.99 Aligned_cols=27 Identities=37% Similarity=0.496 Sum_probs=22.9
Q ss_pred CCCCChHHHHHHHHHhCCceEEEEEEE
Q 042904 277 PRIPGQAVKIISALEDLAFEILHVNIS 303 (320)
Q Consensus 277 ~rr~glL~~Im~aLE~L~LdV~~anis 303 (320)
+..+|.+.+|+++|.+.++.|...+.+
T Consensus 9 ~~~~~~~~~i~~~L~~~~i~i~~i~~~ 35 (61)
T cd04891 9 PDKPGVAAKIFSALAEAGINVDMIVQS 35 (61)
T ss_pred CCCCcHHHHHHHHHHHcCCcEEEEEEc
Confidence 456899999999999999999776654
No 145
>TIGR00656 asp_kin_monofn aspartate kinase, monofunctional class. The Lys-sensitive enzyme of Bacillus subtilis resembles the E. coli form but is an alpha 2/beta 2 heterotetramer, where the beta subunit is translated from an in-phase alternative initiator at Met-246. The protein slr0657 from Synechocystis PCC6803 is extended by a duplication of the C-terminal region corresponding to the beta chain. Incorporation of a second copy of the C-terminal domain may be quite common in this subgroup of aspartokinases.
Probab=25.25 E-value=2.8e+02 Score=27.41 Aligned_cols=40 Identities=10% Similarity=0.054 Sum_probs=32.5
Q ss_pred EEeCCeEEEEEE---cCCCCChHHHHHHHHHhCCceEEEEEEE
Q 042904 264 KFSGPNLLLKTV---SPRIPGQAVKIISALEDLAFEILHVNIS 303 (320)
Q Consensus 264 ~~~g~~v~IkI~---c~rr~glL~~Im~aLE~L~LdV~~anis 303 (320)
....+-..|.|. -...+|.+.+|+.+|.+.++.|...+.+
T Consensus 255 ~~~~~va~vsv~g~~~~~~~g~~~~if~~L~~~~I~i~~i~~~ 297 (401)
T TIGR00656 255 ALRKNVTRVTVHGLGMLGKRGFLARIFGALAERNINVDLISQT 297 (401)
T ss_pred EEECCEEEEEEecCCCCCCccHHHHHHHHHHHcCCcEEEEEcC
Confidence 445677889988 4457899999999999999999877654
No 146
>cd04936 ACT_AKii-LysC-BS-like_2 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, and related sequences. In B. subtilis strain 168, the regulation of the diaminopimelate (Dap)-lysine biosynthetic pathway involves dual control by Dap and lysine, effected through separate Dap- and lysine-sensitive AK isoenzymes. The B. subtilis strain 168 AKII is induced by methionine and repressed and inhibited by lysine. Although C. glutamicum is known to contain a single AK, 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 feedback regu
Probab=24.87 E-value=2.3e+02 Score=19.25 Aligned_cols=26 Identities=31% Similarity=0.456 Sum_probs=22.1
Q ss_pred CCCChHHHHHHHHHhCCceEEEEEEE
Q 042904 278 RIPGQAVKIISALEDLAFEILHVNIS 303 (320)
Q Consensus 278 rr~glL~~Im~aLE~L~LdV~~anis 303 (320)
..++.+.+|+.+|.+.++.|.-.+.+
T Consensus 12 ~~~~~~~~i~~~L~~~~i~v~~i~~s 37 (63)
T cd04936 12 SHPGVAAKMFEALAEAGINIEMISTS 37 (63)
T ss_pred CCccHHHHHHHHHHHCCCcEEEEEcc
Confidence 45899999999999999999777643
No 147
>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=24.64 E-value=1.4e+02 Score=23.00 Aligned_cols=24 Identities=29% Similarity=0.282 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 042904 142 IGGVVDYINELQQVLQSLEAKKQR 165 (320)
Q Consensus 142 L~~AI~YIk~Lq~~v~~L~~~~~~ 165 (320)
+..||+-|.-||.++++|+.+...
T Consensus 13 i~~aveti~~Lq~e~eeLke~n~~ 36 (72)
T PF06005_consen 13 IQQAVETIALLQMENEELKEKNNE 36 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 678999999999999999987443
No 148
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=24.19 E-value=2e+02 Score=20.99 Aligned_cols=27 Identities=22% Similarity=0.304 Sum_probs=22.5
Q ss_pred CCChHHHHHHHHHhCCceEEEEEEEee
Q 042904 279 IPGQAVKIISALEDLAFEILHVNISTV 305 (320)
Q Consensus 279 r~glL~~Im~aLE~L~LdV~~anist~ 305 (320)
.+|++.+++++|.+.+++|+-.+.++-
T Consensus 14 ~~gv~~ki~~~L~~~~I~v~~i~~~~s 40 (66)
T cd04915 14 TPGVLARGLAALAEAGIEPIAAHQSMR 40 (66)
T ss_pred cchHHHHHHHHHHHCCCCEEEEEecCC
Confidence 578999999999999999976666543
No 149
>TIGR01270 Trp_5_monoox tryptophan 5-monooxygenase, tetrameric. This model describes tryptophan 5-monooxygenase, a member of the family of tetrameric, biopterin-dependent aromatic amino acid hydroxylases found in metazoans. It is closely related to tetrameric phenylalanine-4-hydroxylase and tyrosine 3-monooxygenase, and more distantly related to the monomeric phenylalanine-4-hydroxylase found in some Gram-negative bacteria.
Probab=23.44 E-value=1.9e+02 Score=30.10 Aligned_cols=49 Identities=18% Similarity=0.258 Sum_probs=36.9
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeCCe-EE-EEEEEEec
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVDET-MH-NSFTIKVT 318 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~~~-vl-~tf~vKv~ 318 (320)
+.|-+.-+.++|.|.+|+..|+..++.+.+...-..... -- |.|.|.++
T Consensus 32 tSLIFsL~d~pGaL~~vL~vFa~~gINLThIESRPsk~~~~e~Y~FfVD~E 82 (464)
T TIGR01270 32 LSIIFSLSNVVGDLSKAIAIFQDRHINILHLESRDSKDGTSKTMDVLVDVE 82 (464)
T ss_pred EEEEEECCCCchHHHHHHHHHHHCCCCEEEEECCcCCCCCCccEEEEEEEE
Confidence 344444467899999999999999999999998766433 22 66777664
No 150
>PF14992 TMCO5: TMCO5 family
Probab=22.51 E-value=1.2e+02 Score=29.42 Aligned_cols=27 Identities=19% Similarity=0.308 Sum_probs=23.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042904 140 SIIGGVVDYINELQQVLQSLEAKKQRK 166 (320)
Q Consensus 140 sIL~~AI~YIk~Lq~~v~~L~~~~~~~ 166 (320)
.+..+++.||++||+.++.++.+++..
T Consensus 144 ~l~eDq~~~i~klkE~L~rmE~ekE~~ 170 (280)
T PF14992_consen 144 QLCEDQANEIKKLKEKLRRMEEEKEML 170 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 458899999999999999999988764
No 151
>PRK08210 aspartate kinase I; Reviewed
Probab=22.41 E-value=3.3e+02 Score=26.99 Aligned_cols=38 Identities=13% Similarity=0.104 Sum_probs=32.3
Q ss_pred eCCeEEEEEEcCCC-CChHHHHHHHHHhCCceEEEEEEE
Q 042904 266 SGPNLLLKTVSPRI-PGQAVKIISALEDLAFEILHVNIS 303 (320)
Q Consensus 266 ~g~~v~IkI~c~rr-~glL~~Im~aLE~L~LdV~~anis 303 (320)
..+.+.|.|..... +|.+.+|+.+|.+.++.|...+.+
T Consensus 268 ~~~i~~isv~~~~~~~g~la~If~~L~~~~I~i~~i~~~ 306 (403)
T PRK08210 268 VSNVTQIKVKAKENAYDLQQEVFKALAEAGISVDFINIF 306 (403)
T ss_pred cCCcEEEEEecCCCcchHHHHHHHHHHHcCCeEEEEEec
Confidence 45678888887775 999999999999999999988555
No 152
>TIGR01268 Phe4hydrox_tetr phenylalanine-4-hydroxylase, tetrameric form. The member of this family from Drosophila has been described as having both phenylalanine-4-hydroxylase and tryptophan 5-monoxygenase activity (PubMed:1371286). However, a Drosophila member of the tryptophan 5-monoxygenase clade has subsequently been discovered.
Probab=21.58 E-value=2.8e+02 Score=28.64 Aligned_cols=49 Identities=8% Similarity=0.104 Sum_probs=36.4
Q ss_pred EEEEEEcCCCCChHHHHHHHHHhCCceEEEEEEEeeC-CeEEEEEEEEec
Q 042904 270 LLLKTVSPRIPGQAVKIISALEDLAFEILHVNISTVD-ETMHNSFTIKVT 318 (320)
Q Consensus 270 v~IkI~c~rr~glL~~Im~aLE~L~LdV~~anist~~-~~vl~tf~vKv~ 318 (320)
..|-+.-+.++|.|.+|+..|+..++.+.+...-... ..--|.|.|.++
T Consensus 17 TSLiFsL~d~pGaL~~vL~vFa~~gINLthIESRPsk~~~~eY~FFVD~e 66 (436)
T TIGR01268 17 TSLIFSLKEEAGALAETLKLFQAHDVNLTHIESRPSKTHPGEYEFFVEFD 66 (436)
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHCCCCeeEEecccCCCCCccEEEEEEEe
Confidence 3344444778999999999999999999999987653 223466777664
No 153
>cd04920 ACT_AKiii-DAPDC_2 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC). This CD includes the second of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.66 E-value=1.8e+02 Score=20.97 Aligned_cols=24 Identities=0% Similarity=0.011 Sum_probs=19.6
Q ss_pred CCCChHHHHHHHHHhCCceEEEEE
Q 042904 278 RIPGQAVKIISALEDLAFEILHVN 301 (320)
Q Consensus 278 rr~glL~~Im~aLE~L~LdV~~an 301 (320)
..+|++.+++++|.+.++.++...
T Consensus 12 ~~~gv~~~~~~~L~~~~i~~i~~~ 35 (63)
T cd04920 12 SLLHKLGPALEVFGKKPVHLVSQA 35 (63)
T ss_pred cCccHHHHHHHHHhcCCceEEEEe
Confidence 568999999999999887775543
No 154
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=20.15 E-value=3.5e+02 Score=19.73 Aligned_cols=41 Identities=27% Similarity=0.388 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCCChhhhHHHHHHHHHHHHHHHHHH
Q 042904 110 ERNRRKQMNENLSVLRSLMPCFYVKRGDQASIIGGVVDYINELQQVLQSL 159 (320)
Q Consensus 110 ER~RR~~in~~~~~LrslvP~~~~~k~dKasIL~~AI~YIk~Lq~~v~~L 159 (320)
=|.-|=.+.+.+..+..++-- ++ .++|.+||+++-..++.+
T Consensus 16 lR~~RHD~~NhLqvI~gllql---g~------~~~a~eYi~~~~~~~~~~ 56 (62)
T PF14689_consen 16 LRAQRHDFLNHLQVIYGLLQL---GK------YEEAKEYIKELSKDLQQE 56 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT---T-------HHHHHHHHHHHHHHHHHH
T ss_pred HHHHhHHHHHHHHHHHHHHHC---CC------HHHHHHHHHHHHHHHHHH
Confidence 366677788899999999864 33 457889999999888776
Done!