Query 030331
Match_columns 179
No_of_seqs 163 out of 1159
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 12:06:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030331.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030331hhsearch_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 99.5 3.6E-14 7.8E-19 92.3 6.8 53 25-77 1-55 (55)
2 cd00083 HLH Helix-loop-helix d 99.5 7.9E-14 1.7E-18 91.5 7.0 57 24-80 3-59 (60)
3 smart00353 HLH helix loop heli 99.4 4.5E-13 9.8E-18 86.1 6.7 52 30-81 1-52 (53)
4 KOG1318 Helix loop helix trans 99.0 1.5E-09 3.1E-14 96.1 7.6 59 24-82 232-291 (411)
5 KOG2483 Upstream transcription 98.9 9E-09 2E-13 85.3 9.1 70 21-90 55-124 (232)
6 KOG1319 bHLHZip transcription 98.8 8.8E-09 1.9E-13 82.2 7.0 67 25-91 62-132 (229)
7 KOG4304 Transcriptional repres 98.4 1.1E-07 2.4E-12 79.7 2.6 58 23-80 30-92 (250)
8 KOG4029 Transcription factor H 98.3 1.4E-06 3E-11 71.9 5.9 62 23-84 107-169 (228)
9 KOG0561 bHLH transcription fac 98.3 6.2E-07 1.4E-11 76.3 3.7 59 24-83 59-117 (373)
10 PLN03217 transcription factor 98.3 2.4E-06 5.2E-11 60.0 6.0 55 38-92 20-77 (93)
11 KOG3561 Aryl-hydrocarbon recep 98.3 8.7E-07 1.9E-11 84.3 4.9 53 24-79 19-75 (803)
12 cd04895 ACT_ACR_1 ACT domain-c 97.7 0.00036 7.7E-09 47.9 7.7 45 130-175 4-48 (72)
13 cd04927 ACT_ACR-like_2 Second 97.6 0.00055 1.2E-08 47.1 8.0 46 129-175 2-48 (76)
14 cd04900 ACT_UUR-like_1 ACT dom 97.5 0.00073 1.6E-08 45.7 8.0 46 129-175 3-49 (73)
15 KOG3960 Myogenic helix-loop-he 97.5 0.00042 9.2E-09 57.9 7.9 68 22-90 115-182 (284)
16 cd04897 ACT_ACR_3 ACT domain-c 97.5 0.00082 1.8E-08 46.5 7.5 45 130-175 4-48 (75)
17 cd04926 ACT_ACR_4 C-terminal 97.3 0.0025 5.4E-08 43.1 7.9 46 129-175 3-48 (72)
18 cd04896 ACT_ACR-like_3 ACT dom 97.2 0.0019 4.2E-08 44.7 7.1 43 131-174 4-48 (75)
19 KOG2588 Predicted DNA-binding 97.2 0.00021 4.5E-09 68.9 2.8 67 23-91 274-340 (953)
20 cd04928 ACT_TyrKc Uncharacteri 97.2 0.0032 6.9E-08 42.8 7.8 46 129-175 3-49 (68)
21 cd04925 ACT_ACR_2 ACT domain-c 97.2 0.0037 8E-08 42.5 7.9 44 131-175 4-47 (74)
22 KOG3898 Transcription factor N 97.0 0.00054 1.2E-08 57.7 3.2 57 23-79 70-126 (254)
23 KOG4447 Transcription factor T 97.0 0.0011 2.3E-08 51.7 4.1 55 24-79 77-131 (173)
24 cd04899 ACT_ACR-UUR-like_2 C-t 96.8 0.012 2.5E-07 38.8 8.0 44 131-175 4-47 (70)
25 KOG3910 Helix loop helix trans 96.2 0.0041 9E-08 56.6 3.5 62 23-84 524-586 (632)
26 PRK00275 glnD PII uridylyl-tra 96.2 0.036 7.7E-07 54.3 10.0 60 115-175 800-861 (895)
27 PF13740 ACT_6: ACT domain; PD 96.2 0.057 1.2E-06 36.7 8.2 48 128-176 3-50 (76)
28 KOG4395 Transcription factor A 96.2 0.0099 2.2E-07 49.9 5.1 57 24-80 173-229 (285)
29 cd04873 ACT_UUR-ACR-like ACT d 96.1 0.06 1.3E-06 34.9 8.0 45 130-175 3-47 (70)
30 PRK04374 PII uridylyl-transfer 96.1 0.046 9.9E-07 53.4 9.9 60 115-175 782-843 (869)
31 PRK05007 PII uridylyl-transfer 96.0 0.034 7.3E-07 54.4 8.6 59 116-175 795-855 (884)
32 cd04893 ACT_GcvR_1 ACT domains 95.7 0.095 2.1E-06 35.7 7.6 47 129-176 3-49 (77)
33 PF01842 ACT: ACT domain; Int 95.6 0.15 3.2E-06 32.6 8.1 36 130-166 3-38 (66)
34 PRK03059 PII uridylyl-transfer 95.5 0.1 2.2E-06 51.0 9.9 58 116-174 773-832 (856)
35 PRK05092 PII uridylyl-transfer 95.4 0.11 2.3E-06 51.2 9.9 59 116-175 830-890 (931)
36 PF13291 ACT_4: ACT domain; PD 95.3 0.19 4.2E-06 34.0 8.1 48 128-176 7-56 (80)
37 PRK03381 PII uridylyl-transfer 95.2 0.15 3.2E-06 49.3 9.9 58 117-175 695-754 (774)
38 PRK03381 PII uridylyl-transfer 95.2 0.14 3.1E-06 49.4 9.7 59 116-175 587-646 (774)
39 PRK01759 glnD PII uridylyl-tra 94.9 0.11 2.3E-06 50.8 8.0 59 116-175 770-830 (854)
40 PRK01759 glnD PII uridylyl-tra 94.5 0.3 6.4E-06 47.8 9.9 59 116-175 664-725 (854)
41 cd04875 ACT_F4HF-DF N-terminal 94.4 0.28 6E-06 32.8 6.9 46 131-177 3-48 (74)
42 PRK05007 PII uridylyl-transfer 94.3 0.32 7E-06 47.7 9.8 60 115-175 687-749 (884)
43 TIGR01693 UTase_glnD [Protein- 94.0 0.36 7.7E-06 47.1 9.4 59 116-175 655-716 (850)
44 COG2844 GlnD UTP:GlnB (protein 94.0 0.15 3.3E-06 49.3 6.6 60 115-175 777-838 (867)
45 TIGR01693 UTase_glnD [Protein- 93.9 0.3 6.6E-06 47.6 8.7 59 116-175 766-826 (850)
46 PRK00194 hypothetical protein; 93.9 0.2 4.2E-06 34.8 5.5 47 128-175 4-50 (90)
47 cd04872 ACT_1ZPV ACT domain pr 93.7 0.2 4.4E-06 34.8 5.3 46 129-175 3-48 (88)
48 cd04869 ACT_GcvR_2 ACT domains 93.7 0.52 1.1E-05 31.7 7.3 35 130-165 2-36 (81)
49 PRK03059 PII uridylyl-transfer 93.7 0.31 6.8E-06 47.6 8.3 59 116-175 665-726 (856)
50 PRK05092 PII uridylyl-transfer 93.6 0.57 1.2E-05 46.2 10.1 59 116-175 719-780 (931)
51 cd04887 ACT_MalLac-Enz ACT_Mal 93.2 0.93 2E-05 29.8 7.9 40 137-176 8-48 (74)
52 cd04886 ACT_ThrD-II-like C-ter 93.1 0.71 1.5E-05 29.5 7.0 39 137-175 7-50 (73)
53 PRK00275 glnD PII uridylyl-tra 93.0 0.69 1.5E-05 45.5 9.5 49 126-175 703-752 (895)
54 PRK04374 PII uridylyl-transfer 92.6 0.86 1.9E-05 44.7 9.6 49 126-175 689-738 (869)
55 cd04870 ACT_PSP_1 CT domains f 91.9 0.86 1.9E-05 30.6 6.4 39 134-172 5-43 (75)
56 cd04874 ACT_Af1403 N-terminal 91.4 1.7 3.6E-05 27.8 7.2 34 130-164 3-36 (72)
57 cd04877 ACT_TyrR N-terminal AC 91.2 1.2 2.6E-05 29.7 6.4 42 130-173 3-44 (74)
58 cd04880 ACT_AAAH-PDT-like ACT 91.0 1.5 3.3E-05 29.1 6.9 40 137-176 8-48 (75)
59 cd04888 ACT_PheB-BS C-terminal 90.5 1.7 3.6E-05 28.6 6.7 44 130-174 3-47 (76)
60 cd04876 ACT_RelA-SpoT ACT dom 90.4 2.3 5E-05 26.0 6.9 42 132-174 3-45 (71)
61 KOG3558 Hypoxia-inducible fact 89.9 0.27 5.8E-06 46.8 2.9 47 25-74 46-96 (768)
62 cd04905 ACT_CM-PDT C-terminal 89.0 2.6 5.6E-05 28.5 6.7 41 137-177 10-51 (80)
63 cd02116 ACT ACT domains are co 88.9 3 6.5E-05 24.0 6.4 32 132-164 3-34 (60)
64 KOG3559 Transcriptional regula 88.2 0.49 1.1E-05 42.7 3.2 43 30-75 6-52 (598)
65 PRK04435 hypothetical protein; 88.1 3.9 8.5E-05 31.4 8.0 51 125-176 67-118 (147)
66 cd04879 ACT_3PGDH-like ACT_3PG 87.8 3.3 7.1E-05 26.0 6.4 38 137-174 8-47 (71)
67 COG2844 GlnD UTP:GlnB (protein 87.3 1.8 3.9E-05 42.1 6.7 55 120-175 677-732 (867)
68 cd04889 ACT_PDH-BS-like C-term 86.9 3.6 7.7E-05 25.6 6.0 38 137-174 7-45 (56)
69 cd04882 ACT_Bt0572_2 C-termina 86.3 3 6.5E-05 26.3 5.5 38 137-174 8-47 (65)
70 KOG3560 Aryl-hydrocarbon recep 86.1 0.78 1.7E-05 42.7 3.4 39 33-74 33-75 (712)
71 cd04908 ACT_Bt0572_1 N-termina 84.6 6.9 0.00015 25.3 6.7 31 137-167 10-40 (66)
72 cd04903 ACT_LSD C-terminal ACT 84.4 6.6 0.00014 24.7 6.5 38 136-173 7-46 (71)
73 cd04881 ACT_HSDH-Hom ACT_HSDH_ 84.3 6.1 0.00013 25.4 6.4 34 130-164 3-36 (79)
74 PRK08577 hypothetical protein; 84.1 9.2 0.0002 28.7 8.1 38 127-165 56-93 (136)
75 cd04904 ACT_AAAH ACT domain of 84.0 4.8 0.00011 27.0 5.9 41 137-177 9-50 (74)
76 KOG4447 Transcription factor T 83.9 0.92 2E-05 35.6 2.5 53 24-77 20-73 (173)
77 cd04902 ACT_3PGDH-xct C-termin 83.3 3.6 7.8E-05 26.6 4.9 40 136-175 7-48 (73)
78 cd04884 ACT_CBS C-terminal ACT 82.8 10 0.00022 24.8 7.1 28 137-164 8-35 (72)
79 cd04878 ACT_AHAS N-terminal AC 82.1 10 0.00022 23.8 7.4 39 137-175 9-49 (72)
80 cd04883 ACT_AcuB C-terminal AC 81.3 12 0.00026 24.1 7.3 46 129-175 3-50 (72)
81 cd04931 ACT_PAH ACT domain of 81.1 8.5 0.00018 27.2 6.5 47 130-177 17-64 (90)
82 cd04929 ACT_TPH ACT domain of 81.1 9.1 0.0002 26.0 6.4 42 136-177 8-50 (74)
83 PRK07334 threonine dehydratase 78.7 12 0.00026 33.3 8.1 48 128-176 327-379 (403)
84 PF14689 SPOB_a: Sensor_kinase 77.7 7.8 0.00017 25.4 5.0 45 30-84 13-57 (62)
85 cd04901 ACT_3PGDH C-terminal A 76.8 1.7 3.6E-05 28.0 1.6 40 134-173 5-44 (69)
86 PF13710 ACT_5: ACT domain; PD 75.1 16 0.00034 23.9 6.0 38 138-175 2-41 (63)
87 PF05687 DUF822: Plant protein 74.8 4.7 0.0001 31.3 3.8 27 24-50 10-36 (150)
88 cd04909 ACT_PDH-BS C-terminal 74.6 20 0.00043 23.0 6.6 34 130-164 4-37 (69)
89 cd04894 ACT_ACR-like_1 ACT dom 74.3 12 0.00027 25.1 5.2 38 129-167 2-39 (69)
90 cd04868 ACT_AK-like ACT domain 73.7 16 0.00035 21.7 5.8 35 138-172 13-47 (60)
91 PF02120 Flg_hook: Flagellar h 71.3 19 0.00042 24.2 6.0 46 118-163 28-78 (85)
92 KOG3582 Mlx interactors and re 71.3 0.97 2.1E-05 43.2 -0.9 68 23-90 649-718 (856)
93 cd04930 ACT_TH ACT domain of t 70.0 18 0.00039 26.8 5.9 42 136-177 49-91 (115)
94 cd04922 ACT_AKi-HSDH-ThrA_2 AC 68.9 26 0.00056 21.9 6.0 36 137-172 13-48 (66)
95 COG3074 Uncharacterized protei 68.3 11 0.00023 25.9 3.9 27 66-92 13-39 (79)
96 TIGR00691 spoT_relA (p)ppGpp s 63.2 37 0.0008 32.7 8.0 46 130-176 613-659 (683)
97 PRK13010 purU formyltetrahydro 62.9 22 0.00048 30.5 5.9 43 128-171 10-54 (289)
98 cd04919 ACT_AK-Hom3_2 ACT doma 61.2 38 0.00083 21.2 6.2 35 138-172 14-48 (66)
99 PRK10872 relA (p)ppGpp synthet 60.5 46 0.001 32.4 8.1 49 128-176 665-716 (743)
100 PLN02705 beta-amylase 59.1 16 0.00035 34.7 4.7 29 22-50 81-109 (681)
101 PRK11092 bifunctional (p)ppGpp 58.8 49 0.0011 32.0 8.0 46 130-176 629-675 (702)
102 PF06005 DUF904: Protein of un 58.2 24 0.00052 24.0 4.3 26 66-91 13-38 (72)
103 PF09789 DUF2353: Uncharacteri 58.2 45 0.00097 29.2 7.0 35 58-92 66-100 (319)
104 cd04892 ACT_AK-like_2 ACT doma 57.0 41 0.0009 20.3 6.1 27 137-163 12-38 (65)
105 PF02344 Myc-LZ: Myc leucine z 56.8 14 0.0003 21.3 2.4 19 31-49 11-29 (32)
106 cd04890 ACT_AK-like_1 ACT doma 56.8 34 0.00074 21.4 4.7 34 138-173 13-46 (62)
107 cd04885 ACT_ThrD-I Tandem C-te 56.7 30 0.00065 22.4 4.5 27 137-164 7-33 (68)
108 PRK15422 septal ring assembly 55.3 26 0.00055 24.5 4.0 27 66-92 13-39 (79)
109 cd04891 ACT_AK-LysC-DapG-like_ 52.5 49 0.0011 19.7 5.9 26 137-162 10-35 (61)
110 PRK11589 gcvR glycine cleavage 52.2 56 0.0012 26.3 6.2 45 134-178 101-149 (190)
111 cd04918 ACT_AK1-AT_2 ACT domai 52.1 51 0.0011 21.1 5.0 35 138-172 13-47 (65)
112 cd04912 ACT_AKiii-LysC-EC-like 50.8 70 0.0015 21.1 6.5 35 137-173 13-47 (75)
113 PRK11898 prephenate dehydratas 50.3 56 0.0012 27.8 6.3 41 137-177 206-247 (283)
114 PRK00227 glnD PII uridylyl-tra 48.7 1E+02 0.0022 29.8 8.3 48 126-174 545-592 (693)
115 COG3830 ACT domain-containing 48.6 19 0.00042 25.7 2.6 38 133-170 8-45 (90)
116 cd04923 ACT_AK-LysC-DapG-like_ 47.1 64 0.0014 19.6 6.4 33 138-172 13-45 (63)
117 PF14992 TMCO5: TMCO5 family 46.9 31 0.00068 29.6 4.2 33 58-90 138-170 (280)
118 cd04916 ACT_AKiii-YclM-BS_2 AC 46.0 71 0.0015 19.8 6.2 35 138-172 14-48 (66)
119 cd04937 ACT_AKi-DapG-BS_2 ACT 45.8 70 0.0015 20.3 4.9 24 137-160 13-36 (64)
120 COG4492 PheB ACT domain-contai 45.8 91 0.002 24.1 6.1 38 137-174 81-119 (150)
121 cd04932 ACT_AKiii-LysC-EC_1 AC 44.8 94 0.002 20.8 5.9 35 137-173 13-47 (75)
122 smart00338 BRLZ basic region l 44.6 35 0.00075 22.1 3.3 23 70-92 25-47 (65)
123 cd04935 ACT_AKiii-DAPDC_1 ACT 44.1 74 0.0016 21.3 5.0 34 138-173 14-47 (75)
124 PLN02905 beta-amylase 43.5 35 0.00075 32.7 4.2 28 24-51 85-112 (702)
125 PF00170 bZIP_1: bZIP transcri 43.3 39 0.00085 21.9 3.4 22 70-91 25-46 (64)
126 COG0317 SpoT Guanosine polypho 43.2 90 0.0019 30.3 7.0 40 128-167 626-666 (701)
127 PRK11152 ilvM acetolactate syn 43.0 1.1E+02 0.0023 21.0 7.1 38 137-174 12-51 (76)
128 cd04921 ACT_AKi-HSDH-ThrA-like 42.1 81 0.0018 20.6 5.0 34 138-171 14-47 (80)
129 KOG3582 Mlx interactors and re 41.4 7 0.00015 37.6 -0.7 62 24-88 786-849 (856)
130 cd04915 ACT_AK-Ectoine_2 ACT d 41.3 76 0.0017 20.5 4.6 31 138-168 14-44 (66)
131 cd04913 ACT_AKii-LysC-BS-like_ 41.1 89 0.0019 19.5 6.1 24 137-160 11-34 (75)
132 TIGR01834 PHA_synth_III_E poly 40.5 76 0.0017 27.8 5.6 27 66-92 291-317 (320)
133 cd04924 ACT_AK-Arch_2 ACT doma 40.1 90 0.0019 19.2 5.9 35 138-172 14-48 (66)
134 cd04936 ACT_AKii-LysC-BS-like_ 39.3 89 0.0019 18.9 6.2 25 138-162 13-37 (63)
135 PF10393 Matrilin_ccoil: Trime 39.1 85 0.0018 19.7 4.2 30 62-91 14-43 (47)
136 PF08826 DMPK_coil: DMPK coile 38.0 83 0.0018 20.8 4.3 53 31-91 7-59 (61)
137 PRK11899 prephenate dehydratas 37.3 1.3E+02 0.0029 25.6 6.6 42 136-177 202-244 (279)
138 cd04934 ACT_AK-Hom3_1 CT domai 37.2 1.3E+02 0.0027 20.1 5.9 34 138-173 14-47 (73)
139 PRK08198 threonine dehydratase 35.1 2.7E+02 0.0059 24.5 8.5 35 128-163 328-362 (404)
140 PF07544 Med9: RNA polymerase 33.3 1.6E+02 0.0035 20.2 5.9 47 39-90 32-78 (83)
141 PF04508 Pox_A_type_inc: Viral 32.2 78 0.0017 16.9 2.7 17 73-89 3-19 (23)
142 PRK12729 fliE flagellar hook-b 32.0 1.4E+02 0.0031 22.6 5.3 31 57-87 53-83 (127)
143 PF13840 ACT_7: ACT domain ; P 30.9 72 0.0016 20.7 3.1 24 137-160 19-42 (65)
144 PRK06737 acetolactate synthase 30.8 1.8E+02 0.0039 19.9 6.5 38 137-174 11-50 (76)
145 PF07106 TBPIP: Tat binding pr 30.0 2.6E+02 0.0056 21.5 7.4 27 66-92 111-137 (169)
146 TIGR01270 Trp_5_monoox tryptop 29.3 1.2E+02 0.0026 28.0 5.2 42 136-177 39-82 (464)
147 COG4747 ACT domain-containing 29.2 2.5E+02 0.0053 21.4 6.0 37 130-167 6-42 (142)
148 TIGR01268 Phe4hydrox_tetr phen 29.2 1.5E+02 0.0033 27.1 5.8 41 136-176 24-65 (436)
149 cd04933 ACT_AK1-AT_1 ACT domai 29.1 1.9E+02 0.0041 19.7 6.5 35 137-173 13-47 (78)
150 PRK10622 pheA bifunctional cho 28.0 2.2E+02 0.0047 25.5 6.6 42 136-177 305-347 (386)
151 cd04906 ACT_ThrD-I_1 First of 27.5 1.5E+02 0.0033 20.0 4.5 36 137-174 10-48 (85)
152 TIGR01127 ilvA_1Cterm threonin 27.4 3.7E+02 0.0079 23.4 7.9 33 129-162 307-339 (380)
153 PF09849 DUF2076: Uncharacteri 26.8 2.7E+02 0.0058 23.5 6.6 51 37-90 6-74 (247)
154 PF14197 Cep57_CLD_2: Centroso 26.3 1.7E+02 0.0036 19.6 4.3 29 62-90 38-66 (69)
155 PF09006 Surfac_D-trimer: Lung 25.7 1.1E+02 0.0024 19.1 3.1 20 73-92 1-20 (46)
156 PTZ00324 glutamate dehydrogena 25.1 3.5E+02 0.0076 27.6 7.9 61 115-175 215-281 (1002)
157 PRK06382 threonine dehydratase 25.0 3.3E+02 0.0071 24.2 7.2 40 137-176 339-383 (406)
158 PF13399 LytR_C: LytR cell env 25.0 2E+02 0.0043 19.4 4.7 34 127-160 3-36 (90)
159 PF14193 DUF4315: Domain of un 25.0 1.6E+02 0.0034 20.6 4.2 27 66-92 10-36 (83)
160 PF05088 Bac_GDH: Bacterial NA 24.9 3E+02 0.0065 29.4 7.7 36 127-163 489-524 (1528)
161 PRK06635 aspartate kinase; Rev 24.3 3.2E+02 0.0069 24.0 7.0 36 128-163 263-298 (404)
162 PRK05771 V-type ATP synthase s 23.7 3.7E+02 0.0081 25.4 7.7 21 34-54 49-69 (646)
163 PLN02317 arogenate dehydratase 23.6 3.1E+02 0.0067 24.6 6.7 30 137-166 292-321 (382)
164 PF06305 DUF1049: Protein of u 23.5 89 0.0019 20.1 2.6 17 73-89 50-66 (68)
165 KOG3852 Uncharacterized conser 23.3 1E+02 0.0022 27.3 3.5 32 43-77 144-175 (426)
166 PRK13562 acetolactate synthase 23.0 2.8E+02 0.006 19.5 5.5 39 137-175 11-51 (84)
167 PRK12821 aspartyl/glutamyl-tRN 22.8 1.2E+02 0.0027 27.9 4.0 53 36-91 362-421 (477)
168 cd04898 ACT_ACR-like_4 ACT dom 22.7 40 0.00087 23.4 0.7 31 133-163 5-35 (77)
169 COG0077 PheA Prephenate dehydr 22.4 3.2E+02 0.007 23.4 6.4 40 137-176 203-243 (279)
170 PF12180 EABR: TSG101 and ALIX 22.3 99 0.0022 18.2 2.2 13 71-83 23-35 (35)
171 PRK06291 aspartate kinase; Pro 22.0 4.4E+02 0.0096 23.8 7.6 36 137-172 333-368 (465)
172 PRK11020 hypothetical protein; 21.6 1.7E+02 0.0038 21.8 4.0 52 33-87 3-54 (118)
173 PF08946 Osmo_CC: Osmosensory 21.2 1.5E+02 0.0033 18.5 3.0 27 65-91 9-39 (46)
174 PF07716 bZIP_2: Basic region 21.0 1.7E+02 0.0036 18.2 3.4 19 72-90 26-44 (54)
175 PF01709 Transcrip_reg: Transc 20.6 1.5E+02 0.0033 24.5 3.9 30 130-162 167-196 (234)
176 PF07334 IFP_35_N: Interferon- 20.5 2E+02 0.0043 19.9 3.8 27 66-92 2-28 (76)
177 KOG3896 Dynactin, subunit p62 20.1 1.2E+02 0.0026 27.1 3.3 28 64-91 139-166 (449)
178 TIGR00657 asp_kinases aspartat 20.1 5.9E+02 0.013 22.7 7.9 45 128-172 303-348 (441)
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=99.52 E-value=3.6e-14 Score=92.26 Aligned_cols=53 Identities=32% Similarity=0.572 Sum_probs=48.3
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHhcCCCC--CCCCCCChhHHHHHHHHHHHHHH
Q 030331 25 TKIERKTIEKNRRDQMKNLYSTLKSLLPNQ--PSKEELSLPDQVDEAINYIKMLE 77 (179)
Q Consensus 25 ~r~~h~~~ER~RR~~mn~~~~~LrsllP~~--~~~~k~S~~~~l~~Ai~YIk~L~ 77 (179)
+|..|+..||+||..||+.|..|+.+||.. ....|.+.++||..||+||++||
T Consensus 1 rR~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 1 RRQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 578999999999999999999999999996 25567888999999999999997
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=99.50 E-value=7.9e-14 Score=91.46 Aligned_cols=57 Identities=30% Similarity=0.577 Sum_probs=50.6
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHH
Q 030331 24 PTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKL 80 (179)
Q Consensus 24 ~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v 80 (179)
.++..|+..||+||.+||..|..|+++||......|.+.++||..|++||+.|++.+
T Consensus 3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~ 59 (60)
T cd00083 3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59 (60)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 478899999999999999999999999999854456666777999999999999875
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.43 E-value=4.5e-13 Score=86.06 Aligned_cols=52 Identities=35% Similarity=0.622 Sum_probs=45.0
Q ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHHH
Q 030331 30 KTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKLK 81 (179)
Q Consensus 30 ~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v~ 81 (179)
+..||+||.+||+.|..|+++||......|.+.++||..|++||+.|+++++
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 4689999999999999999999976544566666779999999999999875
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=98.97 E-value=1.5e-09 Score=96.08 Aligned_cols=59 Identities=19% Similarity=0.368 Sum_probs=50.9
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCC-CCCChhHHHHHHHHHHHHHHHHHHH
Q 030331 24 PTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSK-EELSLPDQVDEAINYIKMLETKLKE 82 (179)
Q Consensus 24 ~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~-~k~S~~~~l~~Ai~YIk~L~~~v~~ 82 (179)
.+|..||++||+||.+||+++..|..|||..... .|+.+..||..+++||+.||+..++
T Consensus 232 ~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~ 291 (411)
T KOG1318|consen 232 RKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQR 291 (411)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHH
Confidence 5789999999999999999999999999988432 3566667799999999999887663
No 5
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.89 E-value=9e-09 Score=85.25 Aligned_cols=70 Identities=24% Similarity=0.383 Sum_probs=57.4
Q ss_pred CCCchhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030331 21 SSSPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKLKECKKRKESL 90 (179)
Q Consensus 21 ~~~~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~ 90 (179)
...+.|..||+.||+||.+++++|..|+.+||......+-....||+.|..||+.|+.+.......++++
T Consensus 55 ~~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~e~l 124 (232)
T KOG2483|consen 55 SAASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQDIEDL 124 (232)
T ss_pred CCCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHHHHHH
Confidence 4568999999999999999999999999999987544322267789999999999988776666555544
No 6
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.84 E-value=8.8e-09 Score=82.21 Aligned_cols=67 Identities=25% Similarity=0.458 Sum_probs=58.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCC----CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030331 25 TKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKE----ELSLPDQVDEAINYIKMLETKLKECKKRKESLQ 91 (179)
Q Consensus 25 ~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~----k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~~ 91 (179)
+|..|-.+||+||+.||..|+.|..|||.....+ |.|.+-||..+|+||..|.+++..-+++...|.
T Consensus 62 rr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~ 132 (229)
T KOG1319|consen 62 RRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLR 132 (229)
T ss_pred HHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4889999999999999999999999999987766 899999999999999999888777666555443
No 7
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.43 E-value=1.1e-07 Score=79.75 Aligned_cols=58 Identities=24% Similarity=0.425 Sum_probs=51.2
Q ss_pred CchhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCC-----CCCChhHHHHHHHHHHHHHHHHH
Q 030331 23 SPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSK-----EELSLPDQVDEAINYIKMLETKL 80 (179)
Q Consensus 23 ~~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~-----~k~S~~~~l~~Ai~YIk~L~~~v 80 (179)
..+|..|-..||+||.+||+.+..|+.|||...++ .|.-+++||.-+++|++.|+...
T Consensus 30 ~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~ 92 (250)
T KOG4304|consen 30 QYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQ 92 (250)
T ss_pred HHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccc
Confidence 46889999999999999999999999999987665 46777888999999999998754
No 8
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=98.29 E-value=1.4e-06 Score=71.94 Aligned_cols=62 Identities=26% Similarity=0.469 Sum_probs=55.4
Q ss_pred CchhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCC-CCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 030331 23 SPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPS-KEELSLPDQVDEAINYIKMLETKLKECK 84 (179)
Q Consensus 23 ~~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~-~~k~S~~~~l~~Ai~YIk~L~~~v~~L~ 84 (179)
...+..+|..||+|-+.+|..|..||.+||.... ..|.|+.++|..||.||+.|++-++.-.
T Consensus 107 ~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~ 169 (228)
T KOG4029|consen 107 SAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQE 169 (228)
T ss_pred hhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccc
Confidence 3577889999999999999999999999999887 7789999999999999999998765544
No 9
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=98.28 E-value=6.2e-07 Score=76.35 Aligned_cols=59 Identities=24% Similarity=0.370 Sum_probs=50.0
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 030331 24 PTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKLKEC 83 (179)
Q Consensus 24 ~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v~~L 83 (179)
-+|..-|--||+|-+-||..|..||+|||... ..|.|++.||..+.+||.+|+..--+|
T Consensus 59 mRReIANsNERRRMQSINAGFqsLr~LlPr~e-GEKLSKAAILQQTa~yI~~Le~~Kt~l 117 (373)
T KOG0561|consen 59 MRREIANSNERRRMQSINAGFQSLRALLPRKE-GEKLSKAAILQQTADYIHQLEGHKTEL 117 (373)
T ss_pred HHHHhhcchHHHHHHhhhHHHHHHHHhcCccc-chhhHHHHHHHHHHHHHHHHHhccccc
Confidence 46677888999999999999999999999743 458888999999999999997754433
No 10
>PLN03217 transcription factor ATBS1; Provisional
Probab=98.28 E-value=2.4e-06 Score=60.04 Aligned_cols=55 Identities=25% Similarity=0.468 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHhcCCCCCC---CCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030331 38 DQMKNLYSTLKSLLPNQPS---KEELSLPDQVDEAINYIKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 38 ~~mn~~~~~LrsllP~~~~---~~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~~~ 92 (179)
++|+++...|+.|||.... .+|+|-+.+|.++.+||+.|+.++.+|.++..+|..
T Consensus 20 dqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL~ 77 (93)
T PLN03217 20 DQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELLA 77 (93)
T ss_pred HHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6899999999999998643 479999999999999999999999999999998875
No 11
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.27 E-value=8.7e-07 Score=84.27 Aligned_cols=53 Identities=25% Similarity=0.540 Sum_probs=46.6
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhcCCCCC----CCCCCChhHHHHHHHHHHHHHHHH
Q 030331 24 PTKIERKTIEKNRRDQMKNLYSTLKSLLPNQP----SKEELSLPDQVDEAINYIKMLETK 79 (179)
Q Consensus 24 ~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~----~~~k~S~~~~l~~Ai~YIk~L~~~ 79 (179)
..|..|+.+||+||++||..+..|.+|||... |+||..| |..||.+|+.+++.
T Consensus 19 ~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tV---Lr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 19 KKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTV---LRMAVDHLRLIKEQ 75 (803)
T ss_pred hccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHH---HHHHHHHHHHHhhh
Confidence 35899999999999999999999999999875 5566555 99999999999884
No 12
>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=97.65 E-value=0.00036 Score=47.94 Aligned_cols=45 Identities=24% Similarity=0.257 Sum_probs=38.4
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
|.|.+. +++|+|.+|.++|.++||+|..|.|++.|+++.-+|.+.
T Consensus 4 iev~a~-DRpGLL~~i~~~l~~~gl~I~~AkIsT~Gerv~DvFyV~ 48 (72)
T cd04895 4 VKVDSA-RKPGILLEAVQVLTDLDLCITKAYISSDGGWFMDVFHVT 48 (72)
T ss_pred EEEEEC-CcCCHHHHHHHHHHHCCcEEEEEEEeecCCeEEEEEEEE
Confidence 344454 689999999999999999999999999999977777653
No 13
>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=97.59 E-value=0.00055 Score=47.07 Aligned_cols=46 Identities=15% Similarity=0.160 Sum_probs=39.0
Q ss_pred EEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEE-eCCEEEEEEEEE
Q 030331 129 EVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSV-VGNTIFHVIHAE 175 (179)
Q Consensus 129 ~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~-~~~~v~~ti~~k 175 (179)
.+.+.|. +++|+|+++..+|..+|++|++|.+++ .+++++-+|.+.
T Consensus 2 ~~ei~~~-Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V~ 48 (76)
T cd04927 2 LLKLFCS-DRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFIT 48 (76)
T ss_pred EEEEEEC-CCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEEe
Confidence 3445564 689999999999999999999999986 889988888764
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=97.55 E-value=0.00073 Score=45.74 Aligned_cols=46 Identities=22% Similarity=0.260 Sum_probs=38.0
Q ss_pred EEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe-CCEEEEEEEEE
Q 030331 129 EVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVV-GNTIFHVIHAE 175 (179)
Q Consensus 129 ~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~-~~~v~~ti~~k 175 (179)
+|.+.|. +++|+|+++..+|..+|++|++|.+.+. ++.++-+|.+.
T Consensus 3 ~i~v~~~-Dr~gLl~~i~~~l~~~~l~I~~A~i~T~~~~~v~D~F~v~ 49 (73)
T cd04900 3 EVFIYTP-DRPGLFARIAGALDQLGLNILDARIFTTRDGYALDTFVVL 49 (73)
T ss_pred EEEEEec-CCCCHHHHHHHHHHHCCCCeEEeEEEEeCCCeEEEEEEEE
Confidence 4555554 7899999999999999999999999877 68877777663
No 15
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.54 E-value=0.00042 Score=57.92 Aligned_cols=68 Identities=22% Similarity=0.331 Sum_probs=53.2
Q ss_pred CCchhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030331 22 SSPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKLKECKKRKESL 90 (179)
Q Consensus 22 ~~~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~ 90 (179)
+..+|..--+.||+|=.++|+.|.+|..-.-.. +..+..+.+||..||.||..||.-++++.+....+
T Consensus 115 svDRRKAATMRERRRLkKVNEAFE~LKRrT~~N-PNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~ 182 (284)
T KOG3960|consen 115 SVDRRKAATMRERRRLKKVNEAFETLKRRTSSN-PNQRLPKVEILRSAIRYIERLQALLQEQDQAEKGL 182 (284)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC-ccccccHHHHHHHHHHHHHHHHHHHHHhhccchhh
Confidence 346777888999999999999999997765222 22356667889999999999999988887654433
No 16
>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=97.47 E-value=0.00082 Score=46.52 Aligned_cols=45 Identities=13% Similarity=0.222 Sum_probs=38.3
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
|.+.|. ++||+|.+|..+|-++|++|.+|.|++.|+++.-+|.+.
T Consensus 4 veV~~~-DRpGLL~~i~~~l~~~~l~I~~A~I~T~gera~D~FyV~ 48 (75)
T cd04897 4 VTVQCR-DRPKLLFDVVCTLTDMDYVVFHATIDTDGDDAHQEYYIR 48 (75)
T ss_pred EEEEeC-CcCcHHHHHHHHHHhCCeEEEEEEEeecCceEEEEEEEE
Confidence 344564 789999999999999999999999999999977666653
No 17
>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=0.0025 Score=43.12 Aligned_cols=46 Identities=20% Similarity=0.349 Sum_probs=38.6
Q ss_pred EEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 129 EVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 129 ~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
.|.+.+. +++|+|.+|..+|.++|++|++|.+.+.++.++.+|++.
T Consensus 3 ri~V~~~-D~~Gll~~i~~~l~~~~lnI~sa~i~t~~~~~~d~f~v~ 48 (72)
T cd04926 3 RLELRTE-DRVGLLSDVTRVFRENGLTVTRAEISTQGDMAVNVFYVT 48 (72)
T ss_pred EEEEEEC-CccCHHHHHHHHHHHCCcEEEEEEEecCCCeEEEEEEEE
Confidence 4555554 689999999999999999999999988888877777764
No 18
>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=97.23 E-value=0.0019 Score=44.65 Aligned_cols=43 Identities=19% Similarity=0.314 Sum_probs=37.6
Q ss_pred EEEEcCCCCchHHHHHHHHHhCCcEEEEEEEE--EeCCEEEEEEEE
Q 030331 131 ILTSGVDDQFIFYEVIRILHQDGAEILNAKFS--VVGNTIFHVIHA 174 (179)
Q Consensus 131 ~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs--~~~~~v~~ti~~ 174 (179)
.|.|. +++|+|.+|.++|..+|++|.+|-|+ +.|+++.-+|.+
T Consensus 4 ev~a~-DRpGLL~~i~~~l~~~~l~i~~AkI~~~T~Gerv~D~Fyv 48 (75)
T cd04896 4 QIRCV-DQKGLLYDILRTSKDCNIQISYGRFSSKVKGYREVDLFIV 48 (75)
T ss_pred EEEeC-CcccHHHHHHHHHHHCCeEEEEEEEecCcccCEEEEEEEE
Confidence 44564 68999999999999999999999999 999997777665
No 19
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=97.21 E-value=0.00021 Score=68.88 Aligned_cols=67 Identities=25% Similarity=0.375 Sum_probs=55.7
Q ss_pred CchhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030331 23 SPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKLKECKKRKESLQ 91 (179)
Q Consensus 23 ~~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~~ 91 (179)
..+|..||.+|++=|..||+++..|+.++|.... |...+..|..||+||++|+...+.+......+.
T Consensus 274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~a--Kl~kSavLr~ai~~i~dl~~~nq~lk~~~~~l~ 340 (953)
T KOG2588|consen 274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEA--KLNKSAVLRKAIDYIEDLQGYNQKLKLENASLR 340 (953)
T ss_pred CcccchhhHHHHHhhcchhHHHHHHHHhcCccHh--hhhhhhhHHHHHHHHHHhhccccccchhhhhhh
Confidence 4789999999999999999999999999997643 344455699999999999988777776655544
No 20
>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=97.20 E-value=0.0032 Score=42.77 Aligned_cols=46 Identities=15% Similarity=0.231 Sum_probs=37.9
Q ss_pred EEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEE-eCCEEEEEEEEE
Q 030331 129 EVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSV-VGNTIFHVIHAE 175 (179)
Q Consensus 129 ~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~-~~~~v~~ti~~k 175 (179)
+|.|.|. +++++|+++..+|..+||+|++|.+.+ .+|.++-+|.+.
T Consensus 3 eI~V~~~-Dr~gLFa~iag~L~~~~LnI~~A~i~tt~dG~~LDtF~V~ 49 (68)
T cd04928 3 EITFAAG-DKPKLLSQLSSLLGDLGLNIAEAHAFSTDDGLALDIFVVT 49 (68)
T ss_pred EEEEEEC-CCcchHHHHHHHHHHCCCceEEEEEEEcCCCeEEEEEEEe
Confidence 4555554 689999999999999999999999964 577888887764
No 21
>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=97.15 E-value=0.0037 Score=42.54 Aligned_cols=44 Identities=20% Similarity=0.195 Sum_probs=38.2
Q ss_pred EEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 131 ILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 131 ~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
.+.+ .+++|+|.+|..+|..+|+.|++|.+.+.|+.++.+|.+.
T Consensus 4 ~v~~-~Dr~gLl~~i~~~l~~~~lnI~~A~i~t~~~~~~d~f~V~ 47 (74)
T cd04925 4 ELTG-TDRPGLLSEVFAVLADLHCNVVEARAWTHNGRLACVIYVR 47 (74)
T ss_pred EEEE-CCCCCHHHHHHHHHHHCCCcEEEEEEEEECCEEEEEEEEE
Confidence 3444 4789999999999999999999999999999988888764
No 22
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=97.01 E-value=0.00054 Score=57.71 Aligned_cols=57 Identities=19% Similarity=0.348 Sum_probs=50.5
Q ss_pred CchhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHH
Q 030331 23 SPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETK 79 (179)
Q Consensus 23 ~~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~ 79 (179)
..+|..-|..||+|-..+|+.|+.||.++|......|.++..+|.-|-+||..|++-
T Consensus 70 ~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~ 126 (254)
T KOG3898|consen 70 TLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEV 126 (254)
T ss_pred hhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhccc
Confidence 457788899999999999999999999999866666888888899999999999865
No 23
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=96.95 E-value=0.0011 Score=51.68 Aligned_cols=55 Identities=20% Similarity=0.434 Sum_probs=48.2
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHH
Q 030331 24 PTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETK 79 (179)
Q Consensus 24 ~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~ 79 (179)
.++.-||..||+|=..+|+.|..||.++|-.+ -||.|....|.-|.-||..|-+-
T Consensus 77 ~qrv~anvrerqRtqsLn~AF~~lr~iiptlP-sdklSkiqtLklA~ryidfl~~v 131 (173)
T KOG4447|consen 77 KQRVMANVRERQRTQSLNEAFAALRKIIPTLP-SDKLSKIQTLKLAARYIDFLYQV 131 (173)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCC-ccccccccchhhcccCCchhhhc
Confidence 57889999999999999999999999999754 46788888899999999888654
No 24
>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=96.84 E-value=0.012 Score=38.78 Aligned_cols=44 Identities=27% Similarity=0.354 Sum_probs=37.7
Q ss_pred EEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 131 ILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 131 ~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
.+.+ .+++|+|.+|+.+|.++++.|.++.+.+.++.++.+|+++
T Consensus 4 ~v~~-~d~~gll~~i~~~l~~~~~~I~~~~~~~~~~~~~~~f~i~ 47 (70)
T cd04899 4 ELTA-LDRPGLLADVTRVLAELGLNIHSAKIATLGERAEDVFYVT 47 (70)
T ss_pred EEEE-cCCccHHHHHHHHHHHCCCeEEEEEEEecCCEEEEEEEEE
Confidence 3444 4679999999999999999999999998888888888775
No 25
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=96.24 E-value=0.0041 Score=56.56 Aligned_cols=62 Identities=15% Similarity=0.230 Sum_probs=49.4
Q ss_pred CchhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCC-CChhHHHHHHHHHHHHHHHHHHHHH
Q 030331 23 SPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEE-LSLPDQVDEAINYIKMLETKLKECK 84 (179)
Q Consensus 23 ~~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~k-~S~~~~l~~Ai~YIk~L~~~v~~L~ 84 (179)
+.+|+.+|+.||-|-..||+.|..|-.+.-...+.+| .++.-||..|+.-|-.|+|+|.+-.
T Consensus 524 kERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN 586 (632)
T KOG3910|consen 524 KERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN 586 (632)
T ss_pred HHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence 3678999999999999999999999987644333322 3555669999999999999987643
No 26
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=96.20 E-value=0.036 Score=54.35 Aligned_cols=60 Identities=15% Similarity=0.146 Sum_probs=46.6
Q ss_pred CCCeEEEEEeCC-e-eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 115 KAPEIEIHEMGS-N-LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 115 ~~p~V~V~~~~~-~-v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
..|.|.+....+ + ..|. +++.+++|+|++|..+|..+||+|++|.|+|.|+++.-+|.+.
T Consensus 800 ~~~~V~i~~~~~~~~T~i~-V~a~DrpGLLa~I~~~L~~~~l~I~~AkI~T~g~~v~D~F~V~ 861 (895)
T PRK00275 800 FPTQVTISNDAQRPVTVLE-IIAPDRPGLLARIGRIFLEFDLSLQNAKIATLGERVEDVFFIT 861 (895)
T ss_pred CCCEEEEEECCCCCeEEEE-EEECCCCCHHHHHHHHHHHCCCEEEEeEEEecCCEEEEEEEEE
Confidence 345666655433 3 3444 4455789999999999999999999999999999988888764
No 27
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=96.16 E-value=0.057 Score=36.74 Aligned_cols=48 Identities=19% Similarity=0.320 Sum_probs=38.1
Q ss_pred eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEEE
Q 030331 128 LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAEV 176 (179)
Q Consensus 128 v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~kv 176 (179)
+.|++++ .+++|++..|..+|.++|..+++++.++.++.+..++.+.+
T Consensus 3 ~vItv~G-~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~ 50 (76)
T PF13740_consen 3 LVITVVG-PDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSI 50 (76)
T ss_dssp EEEEEEE-E--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEE
T ss_pred EEEEEEe-cCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEe
Confidence 4555555 46899999999999999999999999999999777776654
No 28
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=96.15 E-value=0.0099 Score=49.89 Aligned_cols=57 Identities=21% Similarity=0.366 Sum_probs=51.8
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHH
Q 030331 24 PTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKL 80 (179)
Q Consensus 24 ~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v 80 (179)
.+|..-|..||+|-..+|..|+.||..+|......|.|.-.+|..|-.||--|-..+
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 467778999999999999999999999999988889999999999999998887654
No 29
>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=96.13 E-value=0.06 Score=34.90 Aligned_cols=45 Identities=22% Similarity=0.333 Sum_probs=36.3
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
+.+.|. +++|+|.+++.+|.++++.|.++.+.+.++....+|++.
T Consensus 3 l~i~~~-d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~~~v~ 47 (70)
T cd04873 3 VEVYAP-DRPGLLADITRVLADLGLNIHDARISTTGERALDVFYVT 47 (70)
T ss_pred EEEEeC-CCCCHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEE
Confidence 445554 679999999999999999999999988777666666553
No 30
>PRK04374 PII uridylyl-transferase; Provisional
Probab=96.05 E-value=0.046 Score=53.45 Aligned_cols=60 Identities=17% Similarity=0.269 Sum_probs=46.6
Q ss_pred CCCeEEEEEeCC-e-eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 115 KAPEIEIHEMGS-N-LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 115 ~~p~V~V~~~~~-~-v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
.+|.|.+....+ + ..|.|++ .+++|+|++|..+|..+|++|++|.|+|.|+++.-+|.++
T Consensus 782 ~~~~V~~~~~~~~~~t~leI~a-~DrpGLLa~Ia~~l~~~~l~I~~AkI~T~g~~a~D~F~V~ 843 (869)
T PRK04374 782 FAPRVEFSESAGGRRTRISLVA-PDRPGLLADVAHVLRMQHLRVHDARIATFGERAEDQFQIT 843 (869)
T ss_pred CCCeEEEeecCCCCeEEEEEEe-CCcCcHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEE
Confidence 345666655333 3 3444444 5789999999999999999999999999999988887764
No 31
>PRK05007 PII uridylyl-transferase; Provisional
Probab=95.97 E-value=0.034 Score=54.43 Aligned_cols=59 Identities=14% Similarity=0.213 Sum_probs=44.2
Q ss_pred CCeEEEEEeCC--eeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 116 APEIEIHEMGS--NLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 116 ~p~V~V~~~~~--~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
+|.|.+....+ --.|.|++ .+++|+|++|.++|.++|++|.+|-|+|.|+++.-+|.+.
T Consensus 795 ~~~V~~d~~~s~~~TvlEV~a-~DRpGLL~~I~~~l~~~~l~I~~AkI~T~gera~DvFyV~ 855 (884)
T PRK05007 795 PTEVSFLPTHTDRRSYMELIA-LDQPGLLARVGKIFADLGISLHGARITTIGERVEDLFILA 855 (884)
T ss_pred CCEEEEccCCCCCeEEEEEEe-CCchHHHHHHHHHHHHCCcEEEEEEEeccCceEEEEEEEE
Confidence 44555543222 23344445 5789999999999999999999999999999977776653
No 32
>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=95.66 E-value=0.095 Score=35.75 Aligned_cols=47 Identities=19% Similarity=0.333 Sum_probs=40.0
Q ss_pred EEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEEE
Q 030331 129 EVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAEV 176 (179)
Q Consensus 129 ~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~kv 176 (179)
.|.++|. +++|+..+|-..|.++|..+++++....++.+++.+.+.+
T Consensus 3 iltv~g~-Dr~GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~~~ 49 (77)
T cd04893 3 VISALGT-DRPGILNELTRAVSESGCNILDSRMAILGTEFALTMLVEG 49 (77)
T ss_pred EEEEEeC-CCChHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEEEe
Confidence 4555664 6899999999999999999999999998998888776654
No 33
>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=95.63 E-value=0.15 Score=32.61 Aligned_cols=36 Identities=25% Similarity=0.192 Sum_probs=31.4
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCC
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGN 166 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~ 166 (179)
|.+.|. +++|.|.++..+|.++|+.|.++...+.++
T Consensus 3 v~v~~~-drpG~l~~v~~~la~~~inI~~~~~~~~~~ 38 (66)
T PF01842_consen 3 VRVIVP-DRPGILADVTEILADHGINIDSISQSSDKD 38 (66)
T ss_dssp EEEEEE-TSTTHHHHHHHHHHHTTEEEEEEEEEEESS
T ss_pred EEEEcC-CCCCHHHHHHHHHHHcCCCHHHeEEEecCC
Confidence 455565 689999999999999999999999988776
No 34
>PRK03059 PII uridylyl-transferase; Provisional
Probab=95.52 E-value=0.1 Score=51.04 Aligned_cols=58 Identities=14% Similarity=0.311 Sum_probs=44.7
Q ss_pred CCeEEEEEeCC--eeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEE
Q 030331 116 APEIEIHEMGS--NLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHA 174 (179)
Q Consensus 116 ~p~V~V~~~~~--~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~ 174 (179)
+|.|.+....+ ...|.|++ .+++|+|++|..+|..+|++|++|.|+|.|+++.-+|.+
T Consensus 773 ~~~V~~~~~~~~~~T~i~V~a-~DrpGLLa~Ia~~L~~~~l~I~~AkI~T~~~~v~DvF~V 832 (856)
T PRK03059 773 TPRVDLRPDERGQYYILSVSA-NDRPGLLYAIARVLAEHRVSVHTAKINTLGERVEDTFLI 832 (856)
T ss_pred CceEEEEEcCCCCEEEEEEEe-CCcchHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEE
Confidence 34555544322 34444455 578999999999999999999999999999998888776
No 35
>PRK05092 PII uridylyl-transferase; Provisional
Probab=95.43 E-value=0.11 Score=51.18 Aligned_cols=59 Identities=19% Similarity=0.280 Sum_probs=45.8
Q ss_pred CCeEEEEEeCC--eeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 116 APEIEIHEMGS--NLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 116 ~p~V~V~~~~~--~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
.|.|.+....+ ...|.|.+ .+++|+|.+|..+|.++|++|.+|.+.|.++++.-+|.+.
T Consensus 830 ~~~V~~~~~~s~~~t~i~I~~-~DrpGLl~~I~~~l~~~gl~I~~A~I~T~~~~~~D~F~v~ 890 (931)
T PRK05092 830 PPRVTIDNEASNRFTVIEVNG-RDRPGLLYDLTRALSDLNLNIASAHIATYGERAVDVFYVT 890 (931)
T ss_pred CCEEEEeeCCCCCeEEEEEEE-CCcCcHHHHHHHHHHHCCceEEEEEEEEcCCEEEEEEEEe
Confidence 45666654333 34444455 5789999999999999999999999999999988777764
No 36
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=95.26 E-value=0.19 Score=34.00 Aligned_cols=48 Identities=13% Similarity=0.230 Sum_probs=35.9
Q ss_pred eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe--CCEEEEEEEEEE
Q 030331 128 LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVV--GNTIFHVIHAEV 176 (179)
Q Consensus 128 v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~--~~~v~~ti~~kv 176 (179)
+.+.+.+. +++|+|.+|..++.+.|+.|.++++... ++....+|.++|
T Consensus 7 ~~l~i~~~-dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V 56 (80)
T PF13291_consen 7 VRLRIEAE-DRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEV 56 (80)
T ss_dssp EEEEEEEE---TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEE
T ss_pred EEEEEEEE-cCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEE
Confidence 33444553 5799999999999999999999999874 566666777665
No 37
>PRK03381 PII uridylyl-transferase; Provisional
Probab=95.19 E-value=0.15 Score=49.28 Aligned_cols=58 Identities=16% Similarity=0.256 Sum_probs=44.4
Q ss_pred CeEEEEEeCC--eeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 117 PEIEIHEMGS--NLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 117 p~V~V~~~~~--~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
|.|.+....+ ...|.|.+ .+++|+|++|..+|..+|++|.+|.++|.|++++-+|.+.
T Consensus 695 ~~v~~~~~~~~~~t~i~V~a-~DrpGLla~Ia~~L~~~~lnI~~AkI~T~g~~a~D~F~V~ 754 (774)
T PRK03381 695 PRVLWLDGASPDATVLEVRA-ADRPGLLARLARALERAGVDVRWARVATLGADVVDVFYVT 754 (774)
T ss_pred cEEEEEECCCCCeEEEEEEe-CCchhHHHHHHHHHHHCCCeEEEEEEeecCCeEEEEEEEE
Confidence 3455544332 24444444 5789999999999999999999999999999988777764
No 38
>PRK03381 PII uridylyl-transferase; Provisional
Probab=95.18 E-value=0.14 Score=49.42 Aligned_cols=59 Identities=12% Similarity=0.093 Sum_probs=46.1
Q ss_pred CCeEEEEEe-CCeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 116 APEIEIHEM-GSNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 116 ~p~V~V~~~-~~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
.|.|.+... .+..+|.|+| .+++|+|++|..+|..+|++|++|.+.+.+|.++-+|.+.
T Consensus 587 ~~~v~~~~~~~~~~~V~V~~-~DrpGLfa~i~~vL~~~glnI~dA~i~t~dg~~ld~F~V~ 646 (774)
T PRK03381 587 GVHVEIAPADPHMVEVTVVA-PDRRGLLSKAAGVLALHRLRVRSASVRSHDGVAVLEFVVS 646 (774)
T ss_pred CCEEEEeeCCCCeEEEEEEe-cCCccHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEE
Confidence 345555432 3556776665 4789999999999999999999999998888888887764
No 39
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=94.89 E-value=0.11 Score=50.80 Aligned_cols=59 Identities=17% Similarity=0.243 Sum_probs=43.9
Q ss_pred CCeEEEEEeCC-e-eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 116 APEIEIHEMGS-N-LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 116 ~p~V~V~~~~~-~-v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
+|.|.+....+ . -.|.|.+ .+++|+|.+|.++|.++|++|.+|-|+|.|+++.-+|.+.
T Consensus 770 ~~~V~~dn~~s~~~T~iev~a-~DrpGLL~~I~~~l~~~~l~i~~AkI~T~gerv~D~Fyv~ 830 (854)
T PRK01759 770 KTEVRFLNEEKQEQTEMELFA-LDRAGLLAQVSQVFSELNLNLLNAKITTIGEKAEDFFILT 830 (854)
T ss_pred CCEEEEccCCCCCeEEEEEEe-CCchHHHHHHHHHHHHCCCEEEEEEEcccCceEEEEEEEE
Confidence 45555543222 2 3344445 4789999999999999999999999999999977666653
No 40
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=94.47 E-value=0.3 Score=47.77 Aligned_cols=59 Identities=12% Similarity=0.170 Sum_probs=45.6
Q ss_pred CCeEEEEEeC--CeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEE-eCCEEEEEEEEE
Q 030331 116 APEIEIHEMG--SNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSV-VGNTIFHVIHAE 175 (179)
Q Consensus 116 ~p~V~V~~~~--~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~-~~~~v~~ti~~k 175 (179)
.|.|.+.... +..+|.|.| .+++|+|++|..+|..+||+|++|.+.+ .+|.++-+|.+.
T Consensus 664 ~~~V~i~~~~~~~~t~V~V~~-~DrpGLfa~Ia~~L~~~~L~I~~A~I~T~~~g~alD~F~V~ 725 (854)
T PRK01759 664 DLLVKISNRFSRGGTEIFIYC-QDQANLFLKVVSTIGAKKLSIHDAQIITSQDGYVLDSFIVT 725 (854)
T ss_pred CCEEEEEecCCCCeEEEEEEe-cCCccHHHHHHHHHHHCCCeEEEEEEEEccCCEEEEEEEEe
Confidence 5666665433 345666555 4789999999999999999999999866 788988887764
No 41
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.35 E-value=0.28 Score=32.83 Aligned_cols=46 Identities=20% Similarity=0.152 Sum_probs=33.1
Q ss_pred EEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEEEe
Q 030331 131 ILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAEVC 177 (179)
Q Consensus 131 ~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~kv~ 177 (179)
.+.| .+++|++.+|...|-++|+.+++.+..+..+.-.+.+.++++
T Consensus 3 ~v~g-~D~~Giv~~it~~l~~~g~nI~~~~~~~~~~~~~f~~~~~~~ 48 (74)
T cd04875 3 TLSC-PDRPGIVAAVSGFLAEHGGNIVESDQFVDPDSGRFFMRVEFE 48 (74)
T ss_pred EEEc-CCCCCHHHHHHHHHHHcCCCEEeeeeeecCCCCeEEEEEEEE
Confidence 4455 468999999999999999999999887532222244444444
No 42
>PRK05007 PII uridylyl-transferase; Provisional
Probab=94.30 E-value=0.32 Score=47.71 Aligned_cols=60 Identities=13% Similarity=0.207 Sum_probs=44.4
Q ss_pred CCCeEEEEEeC--CeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeC-CEEEEEEEEE
Q 030331 115 KAPEIEIHEMG--SNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVG-NTIFHVIHAE 175 (179)
Q Consensus 115 ~~p~V~V~~~~--~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~-~~v~~ti~~k 175 (179)
..|.|.+.... +..+|.|.| .+++|+|++|..+|..+||+|++|.|.+.+ |.++-+|.+.
T Consensus 687 ~~p~V~i~~~~~~~~t~V~V~a-~DrpGLfa~Ia~~La~~~L~I~~A~I~T~~dg~alD~F~V~ 749 (884)
T PRK05007 687 DKPLVLLSKQATRGGTEIFIWS-PDRPYLFAAVCAELDRRNLSVHDAQIFTSRDGMAMDTFIVL 749 (884)
T ss_pred CCCeEEEEecCCCCeEEEEEEe-cCCcCHHHHHHHHHHHCCCEEEEEEEEEcCCCeEEEEEEEE
Confidence 35666665433 355666555 578999999999999999999999987654 5876666653
No 43
>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=94.00 E-value=0.36 Score=47.07 Aligned_cols=59 Identities=15% Similarity=0.170 Sum_probs=44.9
Q ss_pred CCeEEEEEe--CCeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEE-EeCCEEEEEEEEE
Q 030331 116 APEIEIHEM--GSNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFS-VVGNTIFHVIHAE 175 (179)
Q Consensus 116 ~p~V~V~~~--~~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs-~~~~~v~~ti~~k 175 (179)
.|.|.+... ....+|.|.+ .+++|+|++|..+|..+||+|++|.+. +.++.++-+|.++
T Consensus 655 ~~~v~~~~~~~~~~t~i~V~~-~DrpgLla~i~~~L~~~~l~I~~A~I~tt~~g~~lD~F~V~ 716 (850)
T TIGR01693 655 GPLALIDGTRPSGGTEVFIYA-PDQPGLFAKVAGALAMLSLSVHDAQVNTTKDGVALDTFVVQ 716 (850)
T ss_pred CCEEEEeccCCCCeEEEEEEe-CCCCcHHHHHHHHHHHCCCeEEEEEEEEecCCEEEEEEEEE
Confidence 455554321 2345566555 468999999999999999999999997 7788888887775
No 44
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=93.98 E-value=0.15 Score=49.26 Aligned_cols=60 Identities=15% Similarity=0.233 Sum_probs=45.5
Q ss_pred CCCeEEEEEeCC--eeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 115 KAPEIEIHEMGS--NLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 115 ~~p~V~V~~~~~--~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
..|.|.+....+ .-.+.+.+ .+++|+|..|-.+|..++|++.+|.|+|+|.++.-+|.+.
T Consensus 777 i~p~v~i~~t~~~~~t~lEv~a-lDRpGLLa~v~~v~~dl~l~i~~AkItT~GErveD~F~vt 838 (867)
T COG2844 777 IPPRVTILPTASNDKTVLEVRA-LDRPGLLAALAGVFADLGLSLHSAKITTFGERVEDVFIVT 838 (867)
T ss_pred cCCceeeccccCCCceEEEEEe-CCcccHHHHHHHHHHhcccceeeeeeccccccceeEEEEe
Confidence 456777655433 23444444 4789999999999999999999999999999966655543
No 45
>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=93.91 E-value=0.3 Score=47.55 Aligned_cols=59 Identities=22% Similarity=0.263 Sum_probs=44.5
Q ss_pred CCeEEEEEeCC-e-eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 116 APEIEIHEMGS-N-LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 116 ~p~V~V~~~~~-~-v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
+|.|.+....+ . -.|.|.| .++||+|.+|.++|..+|++|.+|.++|.++++.-+|.+.
T Consensus 766 ~~~V~~d~~~s~~~t~~~v~~-~DrpGll~~i~~~l~~~~~~i~~a~i~t~~~~~~d~F~v~ 826 (850)
T TIGR01693 766 PPRVTILNTASRKATIMEVRA-LDRPGLLARVGRTLEELGLSIQSAKITTFGEKAEDVFYVT 826 (850)
T ss_pred CCeEEEccCCCCCeEEEEEEE-CCccHHHHHHHHHHHHCCCeEEEEEEEecCccceeEEEEE
Confidence 44565544333 2 3344445 5789999999999999999999999999999877666664
No 46
>PRK00194 hypothetical protein; Validated
Probab=93.87 E-value=0.2 Score=34.84 Aligned_cols=47 Identities=13% Similarity=0.159 Sum_probs=37.2
Q ss_pred eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 128 LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 128 v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
+.|.+.|. +++|++.+|...|-++|+.|++.+..+.++.++..+.+.
T Consensus 4 ~~ltv~g~-DrpGiva~vt~~la~~g~nI~~~~~~~~~~~~~~~~~v~ 50 (90)
T PRK00194 4 AIITVIGK-DKVGIIAGVSTVLAELNVNILDISQTIMDGYFTMIMLVD 50 (90)
T ss_pred EEEEEEcC-CCCCHHHHHHHHHHHcCCCEEehhhHhhCCeeEEEEEEE
Confidence 45566665 689999999999999999999999887777655555443
No 47
>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=93.71 E-value=0.2 Score=34.78 Aligned_cols=46 Identities=13% Similarity=0.129 Sum_probs=37.2
Q ss_pred EEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEEE
Q 030331 129 EVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHAE 175 (179)
Q Consensus 129 ~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~k 175 (179)
.|.+.|. +++|+++.|.+.|-++|+.+++.+..+.++.++..+.+.
T Consensus 3 vl~i~g~-D~pGiva~vt~~la~~g~nI~~~~~~~~~~~f~~~~~v~ 48 (88)
T cd04872 3 VITVVGK-DRVGIVAGVSTKLAELNVNILDISQTIMDGYFTMIMIVD 48 (88)
T ss_pred EEEEEcC-CCCCHHHHHHHHHHHcCCCEEechhHhhCCccEEEEEEE
Confidence 4555665 689999999999999999999999888777666555544
No 48
>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=93.71 E-value=0.52 Score=31.72 Aligned_cols=35 Identities=23% Similarity=0.181 Sum_probs=30.2
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeC
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVG 165 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~ 165 (179)
|.+.|. +++|++.+|-+.|.++|+.|.+.+..+.+
T Consensus 2 l~v~g~-D~~Giv~~it~~l~~~~~nI~~~~~~~~~ 36 (81)
T cd04869 2 VEVVGN-DRPGIVHEVTQFLAQRNINIEDLSTETYS 36 (81)
T ss_pred EEEEeC-CCCCHHHHHHHHHHHcCCCeEEeEeeeec
Confidence 344564 68999999999999999999999998876
No 49
>PRK03059 PII uridylyl-transferase; Provisional
Probab=93.66 E-value=0.31 Score=47.64 Aligned_cols=59 Identities=17% Similarity=0.304 Sum_probs=45.4
Q ss_pred CCeEEEEEe--CCeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEE-EEeCCEEEEEEEEE
Q 030331 116 APEIEIHEM--GSNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKF-SVVGNTIFHVIHAE 175 (179)
Q Consensus 116 ~p~V~V~~~--~~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~v-s~~~~~v~~ti~~k 175 (179)
.|-|-++.. .+..+|.|.|. +++|+|+++..+|..+||+|++|.+ ++.+|.++-||.+.
T Consensus 665 ~~~v~~~~~~~~~~~~v~i~~~-d~~gLFa~i~g~l~~~~l~I~~A~i~t~~~g~~ld~f~V~ 726 (856)
T PRK03059 665 TPIVRARLSPAGEGLQVMVYTP-DQPDLFARICGYFDRAGFSILDARVHTTRHGYALDTFQVL 726 (856)
T ss_pred CCeEEEEecCCCCeEEEEEEec-CCCcHHHHHHHHHHHCCCceeeeEEEEcCCCeEEEEEEEe
Confidence 344445443 34677776664 6899999999999999999999999 45678888888764
No 50
>PRK05092 PII uridylyl-transferase; Provisional
Probab=93.64 E-value=0.57 Score=46.21 Aligned_cols=59 Identities=15% Similarity=0.199 Sum_probs=45.6
Q ss_pred CCeEEEEEeC--CeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEE-eCCEEEEEEEEE
Q 030331 116 APEIEIHEMG--SNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSV-VGNTIFHVIHAE 175 (179)
Q Consensus 116 ~p~V~V~~~~--~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~-~~~~v~~ti~~k 175 (179)
.+.|.++... +..+|.|+|. +++|+|.+|..+|..+|++|++|.+.+ .++.++-+|.++
T Consensus 719 ~~~v~~~~~~~~~~t~v~I~~~-Dr~GLfa~i~~~L~~~glnI~~A~I~t~~dg~alD~F~V~ 780 (931)
T PRK05092 719 PLATEVRPDPARGVTEVTVLAA-DHPGLFSRIAGACAAAGANIVDARIFTTTDGRALDTFWIQ 780 (931)
T ss_pred CcEEEEEecCCCCeEEEEEEeC-CCCcHHHHHHHHHHHCCCcEEEEEEEEecCCeEEEEEEEE
Confidence 4566665533 4677777665 689999999999999999999999876 577777777664
No 51
>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=93.25 E-value=0.93 Score=29.80 Aligned_cols=40 Identities=13% Similarity=0.161 Sum_probs=32.0
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeC-CEEEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVG-NTIFHVIHAEV 176 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~-~~v~~ti~~kv 176 (179)
+++|.|.+|+.++.+.|..|.+.++.... +.....|.+++
T Consensus 8 d~~g~L~~i~~~i~~~~~nI~~v~~~~~~~~~~~~~~~vev 48 (74)
T cd04887 8 NRPGMLGRVTTAIGEAGGDIGAIDLVEQGRDYTVRDITVDA 48 (74)
T ss_pred CCCchHHHHHHHHHHcCCcEEEEEEEEecCCEEEEEEEEEc
Confidence 57999999999999999999999987764 55555555544
No 52
>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=93.14 E-value=0.71 Score=29.52 Aligned_cols=39 Identities=13% Similarity=0.181 Sum_probs=30.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEe-----CCEEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVV-----GNTIFHVIHAE 175 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~-----~~~v~~ti~~k 175 (179)
+++|.|.+|+.+|.+.|++|.+.+.... .+...+.|.++
T Consensus 7 d~~G~L~~i~~~i~~~~~nI~~i~~~~~~~~~~~~~~~~~i~v~ 50 (73)
T cd04886 7 DRPGQLAKLLAVIAEAGANIIEVSHDRAFKTLPLGEVEVELTLE 50 (73)
T ss_pred CCCChHHHHHHHHHHcCCCEEEEEEEeccCCCCCceEEEEEEEE
Confidence 5799999999999999999999987654 24444444444
No 53
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=92.97 E-value=0.69 Score=45.52 Aligned_cols=49 Identities=10% Similarity=0.155 Sum_probs=40.1
Q ss_pred CeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEE-EEeCCEEEEEEEEE
Q 030331 126 SNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKF-SVVGNTIFHVIHAE 175 (179)
Q Consensus 126 ~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~v-s~~~~~v~~ti~~k 175 (179)
+..+|.|.|. +++|+|+++..+|..+|++|++|.+ ++.+|.++-+|.+.
T Consensus 703 ~~t~V~V~~~-DrpgLFa~i~g~L~~~~lnI~~A~I~Tt~dg~alD~F~V~ 752 (895)
T PRK00275 703 GGTQIFIYAP-DQHDFFAATVAAMDQLNLNIHDARIITSSSQFTLDTYIVL 752 (895)
T ss_pred CeEEEEEEeC-CCCcHHHHHHHHHHHCCCeEEEEEEEEcCCCeEEEEEEEe
Confidence 4567776664 6899999999999999999999998 55567777777664
No 54
>PRK04374 PII uridylyl-transferase; Provisional
Probab=92.64 E-value=0.86 Score=44.74 Aligned_cols=49 Identities=27% Similarity=0.349 Sum_probs=41.3
Q ss_pred CeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEE-eCCEEEEEEEEE
Q 030331 126 SNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSV-VGNTIFHVIHAE 175 (179)
Q Consensus 126 ~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~-~~~~v~~ti~~k 175 (179)
+..+|.|.|. +++|+|++|..+|..+|++|++|.+.+ .+|.++-+|.+.
T Consensus 689 ~~~~v~v~~~-d~~gLFa~i~g~l~~~~lnI~~A~i~t~~~g~~ld~f~V~ 738 (869)
T PRK04374 689 DALEVFVYSP-DRDGLFAAIVATLDRKGYGIHRARVLDAPHDAIFDVFEVL 738 (869)
T ss_pred CeEEEEEEeC-CCccHHHHHHHHHHHCCCeEEEEEEEEcCCCEEEEEEEEe
Confidence 4677776664 689999999999999999999999965 678888888764
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=91.93 E-value=0.86 Score=30.60 Aligned_cols=39 Identities=21% Similarity=0.267 Sum_probs=32.7
Q ss_pred EcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 134 SGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 134 c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
.+.+++|+..++.++|-++|+.+.+.+.++.++.+...+
T Consensus 5 ~G~DrpGiv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~ 43 (75)
T cd04870 5 TGPDRPGLTSALTEVLAAHGVRILDVGQAVIHGRLSLGI 43 (75)
T ss_pred EcCCCCCHHHHHHHHHHHCCCCEEecccEEEcCeeEEEE
Confidence 356789999999999999999999999888887644443
No 56
>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=91.44 E-value=1.7 Score=27.77 Aligned_cols=34 Identities=9% Similarity=0.226 Sum_probs=28.2
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVV 164 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~ 164 (179)
+.+.+. +++|.|.+++..|.++++.|.+.+..+.
T Consensus 3 l~i~~~-d~~g~l~~i~~~l~~~~~~i~~~~~~~~ 36 (72)
T cd04874 3 LSIIAE-DKPGVLRDLTGVIAEHGGNITYTQQFIE 36 (72)
T ss_pred EEEEeC-CCCChHHHHHHHHHhCCCCEEEEEEecc
Confidence 444554 5789999999999999999999887765
No 57
>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=91.18 E-value=1.2 Score=29.73 Aligned_cols=42 Identities=17% Similarity=0.197 Sum_probs=31.7
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEE
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIH 173 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~ 173 (179)
+.+.+. +++|+|.+|+.++.+++..+.+.++.+. +.+.+++.
T Consensus 3 l~I~~~-dr~Gll~dI~~~i~~~~~nI~~~~~~~~-~~i~l~i~ 44 (74)
T cd04877 3 LEITCE-DRLGITQEVLDLLVEHNIDLRGIEIDPK-GRIYLNFP 44 (74)
T ss_pred EEEEEE-ccchHHHHHHHHHHHCCCceEEEEEecC-CeEEEEeE
Confidence 344454 5789999999999999999999998764 44444443
No 58
>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=91.03 E-value=1.5 Score=29.14 Aligned_cols=40 Identities=3% Similarity=0.043 Sum_probs=31.2
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCC-EEEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGN-TIFHVIHAEV 176 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~-~v~~ti~~kv 176 (179)
+++|.|.+++..|.++|+.+++..+.+..+ .--|.|.+.+
T Consensus 8 d~pG~L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~f~id~ 48 (75)
T cd04880 8 NKPGALAKALKVFAERGINLTKIESRPSRKGLWEYEFFVDF 48 (75)
T ss_pred CcCCHHHHHHHHHHHCCCCEEEEEeeecCCCCceEEEEEEE
Confidence 579999999999999999999998877654 3345544443
No 59
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=90.52 E-value=1.7 Score=28.57 Aligned_cols=44 Identities=11% Similarity=0.079 Sum_probs=31.4
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe-CCEEEEEEEE
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVV-GNTIFHVIHA 174 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~-~~~v~~ti~~ 174 (179)
+.+.+. +++|.+.+|+..|.++|+.|...+.+.. ++.....|.+
T Consensus 3 l~i~~~-d~~g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~~~v 47 (76)
T cd04888 3 LSLLLE-HRPGVLSKVLNTIAQVRGNVLTINQNIPIHGRANVTISI 47 (76)
T ss_pred EEEEec-CCCchHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEEEEE
Confidence 344443 4689999999999999999999987543 3443344443
No 60
>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=90.37 E-value=2.3 Score=25.96 Aligned_cols=42 Identities=7% Similarity=0.091 Sum_probs=30.9
Q ss_pred EEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeC-CEEEEEEEE
Q 030331 132 LTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVG-NTIFHVIHA 174 (179)
Q Consensus 132 i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~-~~v~~ti~~ 174 (179)
+.+. ++++.+.+++..|.++++++.+..+...+ +...+.|..
T Consensus 3 v~~~-~~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~ 45 (71)
T cd04876 3 VEAI-DRPGLLADITTVIAEEKINILSVNTRTDDDGLATIRLTL 45 (71)
T ss_pred EEEe-ccCcHHHHHHHHHHhCCCCEEEEEeEECCCCEEEEEEEE
Confidence 3443 46899999999999999999999887655 433333433
No 61
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=89.88 E-value=0.27 Score=46.76 Aligned_cols=47 Identities=21% Similarity=0.408 Sum_probs=40.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHhcCCCCC----CCCCCChhHHHHHHHHHHH
Q 030331 25 TKIERKTIEKNRRDQMKNLYSTLKSLLPNQP----SKEELSLPDQVDEAINYIK 74 (179)
Q Consensus 25 ~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~----~~~k~S~~~~l~~Ai~YIk 74 (179)
+|++-..+-|-||.+-|+-|+.|.-+||... ..||+|| +.-||.|++
T Consensus 46 rkEkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSi---mRLtISyLR 96 (768)
T KOG3558|consen 46 RKEKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASI---MRLTISYLR 96 (768)
T ss_pred HhhhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHH---HHHHHHHHH
Confidence 4677778889999999999999999999653 3589888 999999987
No 62
>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=89.01 E-value=2.6 Score=28.49 Aligned_cols=41 Identities=10% Similarity=0.139 Sum_probs=32.7
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCC-EEEEEEEEEEe
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGN-TIFHVIHAEVC 177 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~-~v~~ti~~kv~ 177 (179)
+++|.|.+++..|.++|+.+++..+.+..+ .-.|+|.++++
T Consensus 10 d~~G~L~~il~~f~~~~ini~~i~s~p~~~~~~~~~f~vd~~ 51 (80)
T cd04905 10 NKPGALYDVLGVFAERGINLTKIESRPSKGGLWEYVFFIDFE 51 (80)
T ss_pred CCCCHHHHHHHHHHHCCcCEEEEEEEEcCCCCceEEEEEEEE
Confidence 579999999999999999999998776543 45566666554
No 63
>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=88.91 E-value=3 Score=23.95 Aligned_cols=32 Identities=16% Similarity=0.267 Sum_probs=26.8
Q ss_pred EEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe
Q 030331 132 LTSGVDDQFIFYEVIRILHQDGAEILNAKFSVV 164 (179)
Q Consensus 132 i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~ 164 (179)
+.|. +.++.+.+++..|...++.+...+....
T Consensus 3 i~~~-~~~~~l~~i~~~l~~~~~~i~~~~~~~~ 34 (60)
T cd02116 3 VSGP-DRPGLLAKVLSVLAEAGINITSIEQRTS 34 (60)
T ss_pred EEec-CCCchHHHHHHHHHHCCCcEEEEEeEEc
Confidence 4454 4679999999999999999999988664
No 64
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=88.16 E-value=0.49 Score=42.67 Aligned_cols=43 Identities=26% Similarity=0.456 Sum_probs=36.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCC----CCCCCChhHHHHHHHHHHHH
Q 030331 30 KTIEKNRRDQMKNLYSTLKSLLPNQP----SKEELSLPDQVDEAINYIKM 75 (179)
Q Consensus 30 ~~~ER~RR~~mn~~~~~LrsllP~~~----~~~k~S~~~~l~~Ai~YIk~ 75 (179)
+.+-|.||++-|--|..|..+||... ..||+|+ +.-|..|||-
T Consensus 6 KnaA~tRRekEN~EF~eLAklLPLa~AItsQlDKasi---iRLtTsYlKm 52 (598)
T KOG3559|consen 6 KNAARTRREKENYEFYELAKLLPLASAITSQLDKASI---IRLTTSYLKM 52 (598)
T ss_pred hhHHHHHHHhhcchHHHHHhhccchhhhhhccchhhh---hhHHHHHHHH
Confidence 44679999999999999999999763 3578887 9999999974
No 65
>PRK04435 hypothetical protein; Provisional
Probab=88.10 E-value=3.9 Score=31.44 Aligned_cols=51 Identities=18% Similarity=0.260 Sum_probs=37.4
Q ss_pred CCeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEE-eCCEEEEEEEEEE
Q 030331 125 GSNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSV-VGNTIFHVIHAEV 176 (179)
Q Consensus 125 ~~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~-~~~~v~~ti~~kv 176 (179)
+..+.+.+.+. +++|.|++|+..|.+.|+.|+..+.+. .++....+|.+.+
T Consensus 67 ~r~vtL~i~l~-Dr~GlLs~Il~~IA~~~aNIltI~q~i~~~g~a~vs~tVev 118 (147)
T PRK04435 67 GKIITLSLLLE-DRSGTLSKVLNVIAEAGGNILTINQSIPLQGRANVTISIDT 118 (147)
T ss_pred CcEEEEEEEEe-cCCCHHHHHHHHHHHcCCCeEEEEEEcCCCCEEEEEEEEEe
Confidence 44566666554 468999999999999999999998754 3565555555543
No 66
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=87.85 E-value=3.3 Score=26.05 Aligned_cols=38 Identities=18% Similarity=0.183 Sum_probs=30.5
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeC--CEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVG--NTIFHVIHA 174 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~--~~v~~ti~~ 174 (179)
+++|.+.+++..|.+.|+.|.+..+...+ +...++|.+
T Consensus 8 d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v 47 (71)
T cd04879 8 DVPGVIGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDV 47 (71)
T ss_pred CCCCHHHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEc
Confidence 56899999999999999999999987654 555555544
No 67
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=87.25 E-value=1.8 Score=42.14 Aligned_cols=55 Identities=16% Similarity=0.222 Sum_probs=45.3
Q ss_pred EEEEeCCeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEE-EEeCCEEEEEEEEE
Q 030331 120 EIHEMGSNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKF-SVVGNTIFHVIHAE 175 (179)
Q Consensus 120 ~V~~~~~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~v-s~~~~~v~~ti~~k 175 (179)
.++...++.+|.|.|. +++.+|+.+..++...|++|++|.+ ++-+|..+-||.+.
T Consensus 677 ~~r~~~~~teV~V~a~-d~p~Lfa~v~~~~~~~g~~i~dAqi~tt~dG~alDtfiv~ 732 (867)
T COG2844 677 SVRPHSGGTEVFVYAP-DRPRLFAVVCAALSRRGLSIVDAQIFTTRDGYALDTFIVL 732 (867)
T ss_pred eecccCCceEEEEEcC-CCccHHHHHHHHHccCCCceeeeEEEEccCCceeeeEEEe
Confidence 3444557899998886 5799999999999999999999998 56678888887654
No 68
>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=86.88 E-value=3.6 Score=25.59 Aligned_cols=38 Identities=16% Similarity=0.059 Sum_probs=30.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeC-CEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVG-NTIFHVIHA 174 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~-~~v~~ti~~ 174 (179)
+++|.|.+++..|.+.|+.|.+..+...+ +..+..|..
T Consensus 7 d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v 45 (56)
T cd04889 7 NKPGRLAEVTEILAEAGINIKAISIAETRGEFGILRLIF 45 (56)
T ss_pred CCCChHHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEE
Confidence 57999999999999999999888876654 555554443
No 69
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=86.27 E-value=3 Score=26.30 Aligned_cols=38 Identities=18% Similarity=0.198 Sum_probs=29.0
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeC--CEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVG--NTIFHVIHA 174 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~--~~v~~ti~~ 174 (179)
+++|.|.+++..|.++|+.|.+....... +...+.|..
T Consensus 8 d~pG~L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~v 47 (65)
T cd04882 8 DKPGGLHEILQILSEEGINIEYMYAFVEKKGGKALLIFRT 47 (65)
T ss_pred CCCcHHHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEe
Confidence 57999999999999999999888765443 444455544
No 70
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=86.14 E-value=0.78 Score=42.72 Aligned_cols=39 Identities=28% Similarity=0.526 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHhcCCCC----CCCCCCChhHHHHHHHHHHH
Q 030331 33 EKNRRDQMKNLYSTLKSLLPNQ----PSKEELSLPDQVDEAINYIK 74 (179)
Q Consensus 33 ER~RR~~mn~~~~~LrsllP~~----~~~~k~S~~~~l~~Ai~YIk 74 (179)
-++-|+++|.-++.|.+|||.. .|.||.|+ |.-++.|++
T Consensus 33 SKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSV---LRLSVSyLr 75 (712)
T KOG3560|consen 33 SKRHRDRLNAELDHLASLLPFPQDIISKLDKLSV---LRLSVSYLR 75 (712)
T ss_pred chhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhh---hhhhHHHHH
Confidence 4566899999999999999975 46788888 999999975
No 71
>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=84.64 E-value=6.9 Score=25.28 Aligned_cols=31 Identities=16% Similarity=0.136 Sum_probs=26.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCCE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGNT 167 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~ 167 (179)
+++|.|.+|++.|.+.|+.|.+..+...++.
T Consensus 10 d~pG~La~v~~~l~~~~inI~~i~~~~~~~~ 40 (66)
T cd04908 10 NKPGRLAAVTEILSEAGINIRALSIADTSEF 40 (66)
T ss_pred CCCChHHHHHHHHHHCCCCEEEEEEEecCCC
Confidence 5799999999999999999999987665554
No 72
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=84.42 E-value=6.6 Score=24.71 Aligned_cols=38 Identities=21% Similarity=0.209 Sum_probs=28.8
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEEEe--CCEEEEEEE
Q 030331 136 VDDQFIFYEVIRILHQDGAEILNAKFSVV--GNTIFHVIH 173 (179)
Q Consensus 136 ~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~--~~~v~~ti~ 173 (179)
.+++|.+.+++..|.++++.+.+...... ++.....|.
T Consensus 7 ~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~i~i~ 46 (71)
T cd04903 7 KDKPGAIAKVTSVLADHEINIAFMRVSRKEKGDQALMVIE 46 (71)
T ss_pred CCCCChHHHHHHHHHHcCcCeeeeEEEeccCCCeEEEEEE
Confidence 35789999999999999999999887652 344443443
No 73
>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=84.29 E-value=6.1 Score=25.39 Aligned_cols=34 Identities=21% Similarity=0.201 Sum_probs=27.9
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVV 164 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~ 164 (179)
+.+.+. +++|.+.+++..|.+.++.+.+.+....
T Consensus 3 l~i~~~-d~~g~l~~i~~~l~~~~i~I~~~~~~~~ 36 (79)
T cd04881 3 LRLTVK-DKPGVLAKITGILAEHGISIESVIQKEA 36 (79)
T ss_pred EEEEeC-CCCcHHHHHHHHHHHcCCCeEEEEEccc
Confidence 455554 5789999999999999999999987654
No 74
>PRK08577 hypothetical protein; Provisional
Probab=84.07 E-value=9.2 Score=28.70 Aligned_cols=38 Identities=18% Similarity=0.307 Sum_probs=30.9
Q ss_pred eeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeC
Q 030331 127 NLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVG 165 (179)
Q Consensus 127 ~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~ 165 (179)
.+.+.+.+. +++|.|.+++..|.++++.+.+.+..+..
T Consensus 56 ~~~I~V~~~-Dr~GvLa~I~~~l~~~~inI~~i~~~~~~ 93 (136)
T PRK08577 56 LVEIELVVE-DRPGVLAKITGLLAEHGVDILATECEELK 93 (136)
T ss_pred EEEEEEEEc-CCCCHHHHHHHHHHHCCCCEEEEEEEEec
Confidence 455666664 57899999999999999999999876653
No 75
>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=83.95 E-value=4.8 Score=26.97 Aligned_cols=41 Identities=2% Similarity=0.016 Sum_probs=32.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EEEEEEEEEe
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IFHVIHAEVC 177 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~~ti~~kv~ 177 (179)
+++|.|.++|..|...|+.+.+..+-+..+. --|.|.+.++
T Consensus 9 ~~pG~L~~vL~~f~~~~iNlt~IeSRP~~~~~~~y~Ffvd~~ 50 (74)
T cd04904 9 EEVGALARALKLFEEFGVNLTHIESRPSRRNGSEYEFFVDCE 50 (74)
T ss_pred CCCcHHHHHHHHHHHCCCcEEEEECCCCCCCCceEEEEEEEE
Confidence 4799999999999999999999998776554 3466655554
No 76
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=83.92 E-value=0.92 Score=35.58 Aligned_cols=53 Identities=15% Similarity=0.266 Sum_probs=36.2
Q ss_pred chhhhhhH-HHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHH
Q 030331 24 PTKIERKT-IEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLE 77 (179)
Q Consensus 24 ~~r~~h~~-~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~ 77 (179)
+.+..-+. .||.|-.++++.|.-|+.|+|..+...|.-+ ..|.-+.+||..|.
T Consensus 20 ~~~~~~r~~~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~-ktlr~~~~~~~~~d 73 (173)
T KOG4447|consen 20 SEEECDRQRKERGRKRRLSDASTLLGKLEPGSPADGKRGK-KTLRIGTDSIQSLD 73 (173)
T ss_pred hhhhhhhhHHHHhHHhhhhhhhhhccccCCCCCCcccccc-cccccCCCchhhHH
Confidence 34444343 5999999999999999999998865433222 22666666666554
No 77
>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=83.27 E-value=3.6 Score=26.58 Aligned_cols=40 Identities=20% Similarity=0.252 Sum_probs=31.6
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEEE--eCCEEEEEEEEE
Q 030331 136 VDDQFIFYEVIRILHQDGAEILNAKFSV--VGNTIFHVIHAE 175 (179)
Q Consensus 136 ~~~~~~l~~vl~~Le~~gL~Vv~a~vs~--~~~~v~~ti~~k 175 (179)
.+++|.+.++...|.++|+.+.+..+.. .++...+.|.++
T Consensus 7 ~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~i~v~ 48 (73)
T cd04902 7 TDRPGVIGKVGTILGEAGINIAGMQVGRDEPGGEALMVLSVD 48 (73)
T ss_pred CCCCCHHHHHHHHHHHcCcChhheEeeccCCCCEEEEEEEeC
Confidence 4679999999999999999998887654 346666666654
No 78
>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=82.77 E-value=10 Score=24.77 Aligned_cols=28 Identities=18% Similarity=0.134 Sum_probs=25.2
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEe
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVV 164 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~ 164 (179)
+++|.|.+++..|.++|+.|++......
T Consensus 8 d~pG~L~~l~~~i~~~g~nI~~i~~~~~ 35 (72)
T cd04884 8 DKPGTLKPVVDTLREFNARIISILTAFE 35 (72)
T ss_pred CCCccHHHHHHHHHHCCCeEEEEEeccc
Confidence 5799999999999999999999987654
No 79
>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=82.13 E-value=10 Score=23.82 Aligned_cols=39 Identities=10% Similarity=0.094 Sum_probs=30.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEe--CCEEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVV--GNTIFHVIHAE 175 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~--~~~v~~ti~~k 175 (179)
+++|.|.+++..|.++++.+.+.+..+. ++...+.|...
T Consensus 9 d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~ 49 (72)
T cd04878 9 NEPGVLNRISGLFARRGFNIESLTVGPTEDPGISRITIVVE 49 (72)
T ss_pred CCCcHHHHHHHHHHhCCCCEEEEEeeecCCCCeEEEEEEEE
Confidence 5689999999999999999999988664 34444444443
No 80
>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=81.29 E-value=12 Score=24.12 Aligned_cols=46 Identities=11% Similarity=0.169 Sum_probs=32.4
Q ss_pred EEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe--CCEEEEEEEEE
Q 030331 129 EVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVV--GNTIFHVIHAE 175 (179)
Q Consensus 129 ~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~--~~~v~~ti~~k 175 (179)
.+.+... +++|.|.+++..|.++|+.+.+...... ++...+.|+..
T Consensus 3 ~~~v~~~-d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~ 50 (72)
T cd04883 3 QIEVRVP-DRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQ 50 (72)
T ss_pred EEEEEEC-CCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEe
Confidence 3444443 5689999999999999999998865433 34555556554
No 81
>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=81.14 E-value=8.5 Score=27.21 Aligned_cols=47 Identities=6% Similarity=0.034 Sum_probs=34.5
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EEEEEEEEEe
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IFHVIHAEVC 177 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~~ti~~kv~ 177 (179)
+.+.. .+++|.|.++|..|...|+.+.+..+-+..+. --|.|.+.++
T Consensus 17 lif~l-~~~pGsL~~vL~~Fa~~~INLt~IeSRP~~~~~~~Y~FfVDie 64 (90)
T cd04931 17 LIFSL-KEEVGALAKVLRLFEEKDINLTHIESRPSRLNKDEYEFFINLD 64 (90)
T ss_pred EEEEc-CCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEE
Confidence 33334 35799999999999999999999998776443 3455555544
No 82
>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=81.06 E-value=9.1 Score=25.95 Aligned_cols=42 Identities=5% Similarity=0.040 Sum_probs=32.4
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EEEEEEEEEe
Q 030331 136 VDDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IFHVIHAEVC 177 (179)
Q Consensus 136 ~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~~ti~~kv~ 177 (179)
.+++|.|.++|..|+..|+.+.+..+-+..+. --|.|.+.++
T Consensus 8 ~~~~g~L~~iL~~f~~~~inl~~IeSRP~~~~~~~y~F~id~e 50 (74)
T cd04929 8 KNEVGGLAKALKLFQELGINVVHIESRKSKRRSSEFEIFVDCE 50 (74)
T ss_pred CCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEE
Confidence 35699999999999999999999998775433 4455555544
No 83
>PRK07334 threonine dehydratase; Provisional
Probab=78.70 E-value=12 Score=33.26 Aligned_cols=48 Identities=13% Similarity=0.119 Sum_probs=35.6
Q ss_pred eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe-----CCEEEEEEEEEE
Q 030331 128 LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVV-----GNTIFHVIHAEV 176 (179)
Q Consensus 128 v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~-----~~~v~~ti~~kv 176 (179)
+.|.|.+. +++|+|.+|+.+|.+.++.|.+.++.+. ++.....|..+|
T Consensus 327 v~l~I~~~-dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V 379 (403)
T PRK07334 327 ARLRVDIR-DRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIET 379 (403)
T ss_pred EEEEEEeC-CCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEe
Confidence 55555554 6799999999999999999999998754 455444454444
No 84
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=77.74 E-value=7.8 Score=25.37 Aligned_cols=45 Identities=24% Similarity=0.269 Sum_probs=36.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 030331 30 KTIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKLKECK 84 (179)
Q Consensus 30 ~~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v~~L~ 84 (179)
+..=|.-|..+.+.++.+..++-.. . .++|.+||+++-+.++.+.
T Consensus 13 ~~~lR~~RHD~~NhLqvI~gllqlg-------~---~~~a~eYi~~~~~~~~~~s 57 (62)
T PF14689_consen 13 IDSLRAQRHDFLNHLQVIYGLLQLG-------K---YEEAKEYIKELSKDLQQES 57 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTT-----------HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHCC-------C---HHHHHHHHHHHHHHHHHHH
Confidence 3344888999999999999998431 2 8999999999999887763
No 85
>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=76.78 E-value=1.7 Score=28.02 Aligned_cols=40 Identities=15% Similarity=0.130 Sum_probs=29.4
Q ss_pred EcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEE
Q 030331 134 SGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIH 173 (179)
Q Consensus 134 c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~ 173 (179)
...+++|.+.+++..|.+.|+.+...+....++..+..+.
T Consensus 5 ~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~a~~~~~ 44 (69)
T cd04901 5 IHKNVPGVLGQINTILAEHNINIAAQYLQTRGEIGYVVID 44 (69)
T ss_pred EecCCCcHHHHHHHHHHHcCCCHHHHhccCCCCEEEEEEE
Confidence 3346799999999999999999977766544455444443
No 86
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=75.07 E-value=16 Score=23.90 Aligned_cols=38 Identities=8% Similarity=0.031 Sum_probs=30.4
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEE--eCCEEEEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSV--VGNTIFHVIHAE 175 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~--~~~~v~~ti~~k 175 (179)
++|.|.+|+.+|..-|+.+-+.++.. .++..-++|.+.
T Consensus 2 ~~GvL~Ri~~vf~rRg~nI~sl~v~~~~~~~~~riti~v~ 41 (63)
T PF13710_consen 2 QPGVLNRITGVFRRRGFNIESLSVGPTEDPGISRITIVVS 41 (63)
T ss_dssp STTHHHHHHHHHHTTT-EECEEEEEE-SSTTEEEEEEEEE
T ss_pred CcHHHHHHHHHHhcCCeEEeeEEeeecCCCCEEEEEEEEe
Confidence 58999999999999999999999987 455566666554
No 87
>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=74.78 E-value=4.7 Score=31.33 Aligned_cols=27 Identities=19% Similarity=0.352 Sum_probs=23.6
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhc
Q 030331 24 PTKIERKTIEKNRRDQMKNLYSTLKSL 50 (179)
Q Consensus 24 ~~r~~h~~~ER~RR~~mn~~~~~Lrsl 50 (179)
..|++.+..||+||.--...|.-||..
T Consensus 10 kErEnnk~RERrRRAIaakIfaGLR~~ 36 (150)
T PF05687_consen 10 KERENNKRRERRRRAIAAKIFAGLRAH 36 (150)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 378888999999998888889999985
No 88
>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=74.59 E-value=20 Score=22.99 Aligned_cols=34 Identities=24% Similarity=0.310 Sum_probs=27.0
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVV 164 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~ 164 (179)
+.+.+. +++|.|.+++..|.++|+.+.+......
T Consensus 4 ~~v~~~-d~~G~L~~l~~~l~~~~i~i~~~~~~~~ 37 (69)
T cd04909 4 LYVDVP-DEPGVIAEVTQILGDAGISIKNIEILEI 37 (69)
T ss_pred EEEEcC-CCCCHHHHHHHHHHHcCCCceeeEeEEe
Confidence 344443 5799999999999999999998876554
No 89
>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=74.35 E-value=12 Score=25.11 Aligned_cols=38 Identities=18% Similarity=0.162 Sum_probs=32.1
Q ss_pred EEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE
Q 030331 129 EVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNT 167 (179)
Q Consensus 129 ~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~ 167 (179)
.|++.|. ++.|+=.++...+-+.||.|....+++.|..
T Consensus 2 vitvnCP-DktGLgcdlcr~il~fGl~i~rgd~sTDGkW 39 (69)
T cd04894 2 VITINCP-DKTGLGCDLCRIILEFGLNITRGDDSTDGRW 39 (69)
T ss_pred EEEEeCC-CccCcccHHHHHHHHhceEEEecccccCCcE
Confidence 3566775 5789999999999999999999999996654
No 90
>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=73.72 E-value=16 Score=21.66 Aligned_cols=35 Identities=11% Similarity=0.035 Sum_probs=25.4
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
.++.+.+++++|.+.++.|...+.+..+..+.+++
T Consensus 13 ~~~~~~~i~~~l~~~~i~i~~i~~~~~~~~~s~~v 47 (60)
T cd04868 13 TPGVAAKIFSALAEAGINVDMISQSESEVNISFTV 47 (60)
T ss_pred CCCHHHHHHHHHHHCCCcEEEEEcCCCcEEEEEEE
Confidence 46899999999999999998776553333444443
No 91
>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=71.33 E-value=19 Score=24.22 Aligned_cols=46 Identities=26% Similarity=0.351 Sum_probs=33.0
Q ss_pred eEEEEEeCCeeEEEEEEcCCC-----CchHHHHHHHHHhCCcEEEEEEEEE
Q 030331 118 EIEIHEMGSNLEVILTSGVDD-----QFIFYEVIRILHQDGAEILNAKFSV 163 (179)
Q Consensus 118 ~V~V~~~~~~v~I~i~c~~~~-----~~~l~~vl~~Le~~gL~Vv~a~vs~ 163 (179)
.|.++..++.+.|.+.+.... ..-+..+-+.|...|+.+.+.++..
T Consensus 28 ~v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~~~~~~v~~ 78 (85)
T PF02120_consen 28 EVKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGLEVVNLSVSQ 78 (85)
T ss_dssp EEEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-EEEEEEEES
T ss_pred EEEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEEEE
Confidence 566667788899998876431 1257789999999999999988864
No 92
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=71.29 E-value=0.97 Score=43.18 Aligned_cols=68 Identities=21% Similarity=0.303 Sum_probs=52.8
Q ss_pred CchhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCC--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030331 23 SPTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSK--EELSLPDQVDEAINYIKMLETKLKECKKRKESL 90 (179)
Q Consensus 23 ~~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~--~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~ 90 (179)
.++.+.|+.+|.+||..++-.|..|.++.-+.... -|.+.+..+...++||..++++...++++-..+
T Consensus 649 k~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~~l 718 (856)
T KOG3582|consen 649 KNRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAHSL 718 (856)
T ss_pred cCCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhhhh
Confidence 47889999999999999999999999998665432 244555558899999998887776666554433
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=69.99 E-value=18 Score=26.76 Aligned_cols=42 Identities=5% Similarity=-0.077 Sum_probs=32.4
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EEEEEEEEEe
Q 030331 136 VDDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IFHVIHAEVC 177 (179)
Q Consensus 136 ~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~~ti~~kv~ 177 (179)
.+++|.|.++|..|..+|+.+.+..+-+..+. --|.|.+.++
T Consensus 49 ~~~pGsL~~iL~~Fa~~gINLt~IESRP~~~~~~eY~FfIdie 91 (115)
T cd04930 49 KEGFSSLSRILKVFETFEAKIHHLESRPSRKEGGDLEVLVRCE 91 (115)
T ss_pred CCCCcHHHHHHHHHHHCCCCEEEEECCcCCCCCceEEEEEEEE
Confidence 35799999999999999999999998776443 3355555544
No 94
>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=68.86 E-value=26 Score=21.93 Aligned_cols=36 Identities=14% Similarity=0.030 Sum_probs=25.6
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
..++.+.+++++|.+.|+.|.-.+.+.-+..+.+++
T Consensus 13 ~~~~~~~~i~~~l~~~~I~v~~i~~~~s~~~is~~v 48 (66)
T cd04922 13 GTPGVAATFFSALAKANVNIRAIAQGSSERNISAVI 48 (66)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEE
Confidence 357899999999999999996665433334444443
No 95
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=68.29 E-value=11 Score=25.86 Aligned_cols=27 Identities=33% Similarity=0.571 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030331 66 VDEAINYIKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 66 l~~Ai~YIk~L~~~v~~L~~~~~~~~~ 92 (179)
+..||+-|.-||-+|++|+++...+..
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~~ 39 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLSQ 39 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhHH
Confidence 789999999999999999998876653
No 96
>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=63.17 E-value=37 Score=32.66 Aligned_cols=46 Identities=13% Similarity=0.285 Sum_probs=34.5
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeC-CEEEEEEEEEE
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVG-NTIFHVIHAEV 176 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~-~~v~~ti~~kv 176 (179)
|.|.+ .+++|+|.+|+.+|-+.+..|.+.++.+.. +.....|.++|
T Consensus 613 I~I~~-~dr~GlLadI~~~ia~~~~nI~~v~~~~~~~~~~~~~~~ieV 659 (683)
T TIGR00691 613 INIEA-VDRKGVLSDLTTAISENDSNIVSISTKTYGKREAILNITVEI 659 (683)
T ss_pred EEEEE-ecCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCEEEEEEEEEE
Confidence 33344 467999999999999999999999997763 54444555554
No 97
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=62.92 E-value=22 Score=30.45 Aligned_cols=43 Identities=16% Similarity=0.089 Sum_probs=33.2
Q ss_pred eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEE--EeCCEEEEE
Q 030331 128 LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFS--VVGNTIFHV 171 (179)
Q Consensus 128 v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs--~~~~~v~~t 171 (179)
+.|+++|. +++|+..+|-..|-++|+.+++++-. +..+.+|-.
T Consensus 10 ~iitv~G~-Dr~GIVA~Vs~~Lae~g~NI~disq~~d~~~~~ffm~ 54 (289)
T PRK13010 10 YVLTLACP-SAPGIVAAVSGFLAEKGCYIVELTQFDDDESGRFFMR 54 (289)
T ss_pred EEEEEECC-CCCCcHHHHHHHHHHCCCCEEecccccccccCcEEEE
Confidence 44566775 68999999999999999999999985 334444433
No 98
>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=61.16 E-value=38 Score=21.24 Aligned_cols=35 Identities=17% Similarity=-0.066 Sum_probs=25.5
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
.++.+.+++++|.+.|++|.-.+.+..+..+.+++
T Consensus 14 ~~~~~~~if~~L~~~~I~v~~i~q~~s~~~isf~v 48 (66)
T cd04919 14 MIGIAGRMFTTLADHRINIEMISQGASEINISCVI 48 (66)
T ss_pred CcCHHHHHHHHHHHCCCCEEEEEecCccceEEEEE
Confidence 57899999999999999996665443344444444
No 99
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=60.50 E-value=46 Score=32.43 Aligned_cols=49 Identities=10% Similarity=0.160 Sum_probs=35.8
Q ss_pred eEEEE-EEcCCCCchHHHHHHHHHhCCcEEEEEEEEEe--CCEEEEEEEEEE
Q 030331 128 LEVIL-TSGVDDQFIFYEVIRILHQDGAEILNAKFSVV--GNTIFHVIHAEV 176 (179)
Q Consensus 128 v~I~i-~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~--~~~v~~ti~~kv 176 (179)
+.+.| +.+.+++|+|.+|..+|-+.++.|.++++.+. ++....+|.++|
T Consensus 665 ~~v~I~I~~~Dr~GlL~dIt~~is~~~~nI~~v~~~~~~~~~~~~~~~~ieV 716 (743)
T PRK10872 665 YSLVVRVTANDRSGLLRDITTILANEKVNVLGVASRSDTKQQLATIDMTIEI 716 (743)
T ss_pred eEEEEEEEEcCCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCCEEEEEEEEEE
Confidence 44444 33456899999999999999999999998765 344444555554
No 100
>PLN02705 beta-amylase
Probab=59.13 E-value=16 Score=34.72 Aligned_cols=29 Identities=21% Similarity=0.274 Sum_probs=24.3
Q ss_pred CCchhhhhhHHHHHHHHHHHHHHHHHHhc
Q 030331 22 SSPTKIERKTIEKNRRDQMKNLYSTLKSL 50 (179)
Q Consensus 22 ~~~~r~~h~~~ER~RR~~mn~~~~~Lrsl 50 (179)
....|+..+..||+||.--...|.-||..
T Consensus 81 ~~~e~e~~~~rer~rrai~~ki~aglr~~ 109 (681)
T PLN02705 81 REKEKERTKLRERHRRAITSRMLAGLRQY 109 (681)
T ss_pred chhhhhhhHHHHHHHHHHHHHHHHHHHhc
Confidence 45688999999999999888888888875
No 101
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=58.79 E-value=49 Score=32.01 Aligned_cols=46 Identities=9% Similarity=0.081 Sum_probs=34.2
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCC-EEEEEEEEEE
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGN-TIFHVIHAEV 176 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~-~v~~ti~~kv 176 (179)
|.+.+ .+++|+|.+|..++-+.++.|.++++.+.++ .....|..+|
T Consensus 629 i~I~~-~dr~GlL~dI~~~i~~~~~nI~~v~~~~~~~~~~~~~~~ieV 675 (702)
T PRK11092 629 IKVEM-FNHQGALANLTAAINTTGSNIQSLNTEEKDGRVYSAFIRLTA 675 (702)
T ss_pred EEEEE-eCCCCHHHHHHHHHHHCCCCeEEEEEEEcCCCEEEEEEEEEE
Confidence 33344 4678999999999999999999999876543 4444555554
No 102
>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=58.20 E-value=24 Score=24.04 Aligned_cols=26 Identities=23% Similarity=0.484 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030331 66 VDEAINYIKMLETKLKECKKRKESLQ 91 (179)
Q Consensus 66 l~~Ai~YIk~L~~~v~~L~~~~~~~~ 91 (179)
+..||+-|..|+.++++|+.+...+.
T Consensus 13 i~~aveti~~Lq~e~eeLke~n~~L~ 38 (72)
T PF06005_consen 13 IQQAVETIALLQMENEELKEKNNELK 38 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 88999999999999999999755543
No 103
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=58.18 E-value=45 Score=29.20 Aligned_cols=35 Identities=23% Similarity=0.336 Sum_probs=31.7
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030331 58 EELSLPDQVDEAINYIKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 58 ~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~~~ 92 (179)
.+.+.+.+|.++-+-.+.|+.++++|..+..++.+
T Consensus 66 ~~~~La~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qG 100 (319)
T PF09789_consen 66 ENKNLAQLLSESREQNKKLKEEVEELRQKLNEAQG 100 (319)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 57789999999999999999999999999887765
No 104
>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=56.96 E-value=41 Score=20.27 Aligned_cols=27 Identities=11% Similarity=0.111 Sum_probs=22.5
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSV 163 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~ 163 (179)
..++.+.+++++|.+.++.|...+.+.
T Consensus 12 ~~~~~~~~i~~~l~~~~i~v~~i~~~~ 38 (65)
T cd04892 12 GTPGVAARIFSALAEAGINIIMISQGS 38 (65)
T ss_pred CCccHHHHHHHHHHHCCCcEEEEEcCC
Confidence 346899999999999999998887643
No 105
>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=56.84 E-value=14 Score=21.28 Aligned_cols=19 Identities=26% Similarity=0.455 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 030331 31 TIEKNRRDQMKNLYSTLKS 49 (179)
Q Consensus 31 ~~ER~RR~~mn~~~~~Lrs 49 (179)
..=|+||++++..+..||.
T Consensus 11 eqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 11 EQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3448999999999999985
No 106
>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=56.76 E-value=34 Score=21.39 Aligned_cols=34 Identities=15% Similarity=0.193 Sum_probs=26.4
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIH 173 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~ 173 (179)
.++...+|+++|++.|+.|.....+ .+.+-+++.
T Consensus 13 ~~~~~~~if~~l~~~~i~v~~i~t~--~~~is~~v~ 46 (62)
T cd04890 13 EVGFLRKIFEILEKHGISVDLIPTS--ENSVTLYLD 46 (62)
T ss_pred ccCHHHHHHHHHHHcCCeEEEEecC--CCEEEEEEe
Confidence 4789999999999999999988542 355555554
No 107
>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=56.75 E-value=30 Score=22.44 Aligned_cols=27 Identities=7% Similarity=0.096 Sum_probs=23.6
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEe
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVV 164 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~ 164 (179)
++||.|.+++++|.+ |.+|+..+....
T Consensus 7 dkPG~l~~~~~~i~~-~~nI~~~~~~~~ 33 (68)
T cd04885 7 ERPGALKKFLELLGP-PRNITEFHYRNQ 33 (68)
T ss_pred CCCCHHHHHHHHhCC-CCcEEEEEEEcC
Confidence 579999999999999 999998887653
No 108
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=55.30 E-value=26 Score=24.47 Aligned_cols=27 Identities=33% Similarity=0.571 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030331 66 VDEAINYIKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 66 l~~Ai~YIk~L~~~v~~L~~~~~~~~~ 92 (179)
|..||+-|.-||-+|++|+.+...+..
T Consensus 13 IqqAvdtI~LLqmEieELKekn~~L~~ 39 (79)
T PRK15422 13 VQQAIDTITLLQMEIEELKEKNNSLSQ 39 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 889999999999999999998776654
No 109
>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=52.48 E-value=49 Score=19.75 Aligned_cols=26 Identities=15% Similarity=0.105 Sum_probs=22.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFS 162 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs 162 (179)
+.++.+.+++++|.+.|+.|...+.+
T Consensus 10 ~~~~~~~~i~~~L~~~~i~i~~i~~~ 35 (61)
T cd04891 10 DKPGVAAKIFSALAEAGINVDMIVQS 35 (61)
T ss_pred CCCcHHHHHHHHHHHcCCcEEEEEEc
Confidence 45789999999999999999776654
No 110
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=52.21 E-value=56 Score=26.27 Aligned_cols=45 Identities=7% Similarity=-0.028 Sum_probs=36.4
Q ss_pred EcCCCCchHHHHHHHHHhCCcEEEEEEEEEeC----CEEEEEEEEEEee
Q 030331 134 SGVDDQFIFYEVIRILHQDGAEILNAKFSVVG----NTIFHVIHAEVCY 178 (179)
Q Consensus 134 c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~----~~v~~ti~~kv~~ 178 (179)
.+.++||++.+|-++|-++|+.|.+.+.-+.+ +.-+|..++++.+
T Consensus 101 ~G~DrPGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v~l 149 (190)
T PRK11589 101 EVADSPHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITAHS 149 (190)
T ss_pred EECCCCCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEEEc
Confidence 45578999999999999999999999887654 4467777777664
No 111
>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=52.09 E-value=51 Score=21.14 Aligned_cols=35 Identities=11% Similarity=0.186 Sum_probs=25.7
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
.++.+.+++.+|.+.|+.|.-.+.++-+..+.+.+
T Consensus 13 ~~~~~~~i~~aL~~~~I~v~~i~~g~s~~sis~~v 47 (65)
T cd04918 13 SSLILERAFHVLYTKGVNVQMISQGASKVNISLIV 47 (65)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCccceEEEEE
Confidence 46899999999999999997666554444444433
No 112
>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=50.79 E-value=70 Score=21.09 Aligned_cols=35 Identities=9% Similarity=0.075 Sum_probs=26.7
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIH 173 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~ 173 (179)
..++.+.+++++|.+.|+.|..... .+..+.+++.
T Consensus 13 ~~~g~~~~if~~L~~~~I~v~~i~~--s~~~is~~v~ 47 (75)
T cd04912 13 GAHGFLAKVFEIFAKHGLSVDLIST--SEVSVSLTLD 47 (75)
T ss_pred CCccHHHHHHHHHHHcCCeEEEEEc--CCcEEEEEEE
Confidence 3578999999999999999987753 3455555554
No 113
>PRK11898 prephenate dehydratase; Provisional
Probab=50.28 E-value=56 Score=27.80 Aligned_cols=41 Identities=7% Similarity=-0.014 Sum_probs=31.7
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EEEEEEEEEe
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IFHVIHAEVC 177 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~~ti~~kv~ 177 (179)
+++|.|.++|..|...|+.+.+..+-+..++ --|.|.+.++
T Consensus 206 ~~pGsL~~~L~~F~~~~INLt~IeSRP~~~~~~~y~F~vd~e 247 (283)
T PRK11898 206 NLPGALYKALSEFAWRGINLTRIESRPTKTGLGTYFFFIDVE 247 (283)
T ss_pred CCccHHHHHHHHHHHCCCCeeeEecccCCCCCccEEEEEEEE
Confidence 3589999999999999999999998876544 3355555443
No 114
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=48.70 E-value=1e+02 Score=29.84 Aligned_cols=48 Identities=13% Similarity=0.060 Sum_probs=36.1
Q ss_pred CeeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEEE
Q 030331 126 SNLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIHA 174 (179)
Q Consensus 126 ~~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~~ 174 (179)
.+..++++-..+++|.|+++.-+|--+|+.|.+|++.+ +|...-.|.+
T Consensus 545 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~a~~~~-~~~~~~~~~v 592 (693)
T PRK00227 545 EDGFFTVIWHGDYPRELVRVLALIAAKGWNILSARMVA-NGPWSAEFDV 592 (693)
T ss_pred cCCeEEEEecCCcccHHHHHHHHHHhcCceeeEeEEec-CCceEEEEEE
Confidence 34556655533578999999999999999999999998 6664444433
No 115
>COG3830 ACT domain-containing protein [Signal transduction mechanisms]
Probab=48.60 E-value=19 Score=25.72 Aligned_cols=38 Identities=26% Similarity=0.302 Sum_probs=31.8
Q ss_pred EEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEE
Q 030331 133 TSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFH 170 (179)
Q Consensus 133 ~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ 170 (179)
+.+.+++|+...+..+|-++|+.+++.+=+...+.+-.
T Consensus 8 V~GkDr~GIva~is~vLAe~~vNIldisQtvm~~~ftm 45 (90)
T COG3830 8 VIGKDRVGIVAAVSRVLAEHGVNILDISQTVMDGFFTM 45 (90)
T ss_pred EEcCCCCchhHHHHHHHHHcCCcEEEHHHHHHhhhcee
Confidence 45778999999999999999999999887777765433
No 116
>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=47.15 E-value=64 Score=19.61 Aligned_cols=33 Identities=15% Similarity=0.105 Sum_probs=24.6
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
.++.+.+++.+|.+.++.|...+.+ +..+.++|
T Consensus 13 ~~~~~~~i~~~L~~~~i~v~~i~~s--~~~is~~v 45 (63)
T cd04923 13 HPGVAAKMFKALAEAGINIEMISTS--EIKISCLV 45 (63)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEcc--CCeEEEEE
Confidence 4689999999999999999877643 34443443
No 117
>PF14992 TMCO5: TMCO5 family
Probab=46.93 E-value=31 Score=29.61 Aligned_cols=33 Identities=27% Similarity=0.371 Sum_probs=27.6
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030331 58 EELSLPDQVDEAINYIKMLETKLKECKKRKESL 90 (179)
Q Consensus 58 ~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~ 90 (179)
|-.++..+..++++||+.|++.++.++.+++.+
T Consensus 138 d~~~v~~l~eDq~~~i~klkE~L~rmE~ekE~~ 170 (280)
T PF14992_consen 138 DYQQVHQLCEDQANEIKKLKEKLRRMEEEKEML 170 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667778999999999999999999988754
No 118
>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=45.99 E-value=71 Score=19.78 Aligned_cols=35 Identities=11% Similarity=-0.021 Sum_probs=24.5
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
.++.+.+++.+|.+.|+.|.-.+.+.-+..+.++|
T Consensus 14 ~~~~~~~i~~~L~~~~i~v~~i~~~~s~~~isf~v 48 (66)
T cd04916 14 TVGVSARATAALAKAGINIRMINQGSSEISIMIGV 48 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEE
Confidence 57899999999999999996665433233333433
No 119
>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=45.77 E-value=70 Score=20.32 Aligned_cols=24 Identities=21% Similarity=0.365 Sum_probs=20.4
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAK 160 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~ 160 (179)
..++.+.+++.+|.+.|+.|...+
T Consensus 13 ~~~gi~~~if~aL~~~~I~v~~~~ 36 (64)
T cd04937 13 GVPGVMAKIVGALSKEGIEILQTA 36 (64)
T ss_pred CCcCHHHHHHHHHHHCCCCEEEEE
Confidence 458999999999999999997443
No 120
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=45.76 E-value=91 Score=24.13 Aligned_cols=38 Identities=11% Similarity=0.181 Sum_probs=31.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEE-EeCCEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFS-VVGNTIFHVIHA 174 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs-~~~~~v~~ti~~ 174 (179)
++.|.|+++|+++-+.++.|++.+=+ +.+|+.-.||..
T Consensus 81 dr~G~LS~vLd~iA~~~~nvLTI~Q~ipl~g~Anvtlsi 119 (150)
T COG4492 81 DRVGILSDVLDVIAREEINVLTIHQTIPLQGRANVTLSI 119 (150)
T ss_pred hhhhhHHHHHHHHHHhCCcEEEEecccccCceeeEEEEE
Confidence 56899999999999999999998764 778886555543
No 121
>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=44.78 E-value=94 Score=20.81 Aligned_cols=35 Identities=14% Similarity=0.072 Sum_probs=26.3
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIH 173 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~ 173 (179)
..++.+.+|+++|.+.|+.|-....+ .+.+-+|+.
T Consensus 13 ~~~g~~~~IF~~La~~~I~VDmI~~s--~~~iSftv~ 47 (75)
T cd04932 13 HAQGFLAKVFGILAKHNISVDLITTS--EISVALTLD 47 (75)
T ss_pred CCcCHHHHHHHHHHHcCCcEEEEeec--CCEEEEEEe
Confidence 35789999999999999999888642 244555554
No 122
>smart00338 BRLZ basic region leucin zipper.
Probab=44.57 E-value=35 Score=22.14 Aligned_cols=23 Identities=26% Similarity=0.316 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 030331 70 INYIKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 70 i~YIk~L~~~v~~L~~~~~~~~~ 92 (179)
-.||..|+.+++.|+.+...|..
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~ 47 (65)
T smart00338 25 KAEIEELERKVEQLEAENERLKK 47 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45788888888888777766653
No 123
>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=44.08 E-value=74 Score=21.30 Aligned_cols=34 Identities=6% Similarity=0.048 Sum_probs=26.8
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIH 173 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~ 173 (179)
.++.+.+|+++|++.|+.|-.... ..+.+-+++.
T Consensus 14 ~~g~~~~IF~~La~~~I~vDmI~~--s~~~isftv~ 47 (75)
T cd04935 14 QVGFLADVFAPFKKHGVSVDLVST--SETNVTVSLD 47 (75)
T ss_pred ccCHHHHHHHHHHHcCCcEEEEEe--CCCEEEEEEe
Confidence 478999999999999999988864 2355666665
No 124
>PLN02905 beta-amylase
Probab=43.54 E-value=35 Score=32.73 Aligned_cols=28 Identities=21% Similarity=0.199 Sum_probs=24.3
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhcC
Q 030331 24 PTKIERKTIEKNRRDQMKNLYSTLKSLL 51 (179)
Q Consensus 24 ~~r~~h~~~ER~RR~~mn~~~~~Lrsll 51 (179)
..|++.+..||+||.--...|.-||..=
T Consensus 85 ~ere~~~~rer~rrai~~~i~~glr~~g 112 (702)
T PLN02905 85 EEKERTKLRERHRRAITARILAGLRRHG 112 (702)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHhhc
Confidence 4788899999999999999899998863
No 125
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=43.28 E-value=39 Score=21.85 Aligned_cols=22 Identities=36% Similarity=0.564 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 030331 70 INYIKMLETKLKECKKRKESLQ 91 (179)
Q Consensus 70 i~YIk~L~~~v~~L~~~~~~~~ 91 (179)
..||.+|+.++..|+.+...|.
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~ 46 (64)
T PF00170_consen 25 KQYIEELEEKVEELESENEELK 46 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHH
Confidence 3566666666666666555443
No 126
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=43.15 E-value=90 Score=30.32 Aligned_cols=40 Identities=13% Similarity=0.174 Sum_probs=31.7
Q ss_pred eEEEE-EEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE
Q 030331 128 LEVIL-TSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNT 167 (179)
Q Consensus 128 v~I~i-~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~ 167 (179)
+.+.| +...+++|+|.+|+++|-+.+..|.+.+..+.++.
T Consensus 626 f~~~i~v~~~~r~glL~~i~~~i~~~~~ni~~v~~~~~~~~ 666 (701)
T COG0317 626 YPVDIEIRAYDRSGLLRDVSQVLANEKINVLGVNTRSDKDQ 666 (701)
T ss_pred eEEEEEEEEccccchHHHHHHHHHhCCCceEEeeccccCCc
Confidence 44444 44456899999999999999999999999876433
No 127
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=43.01 E-value=1.1e+02 Score=20.96 Aligned_cols=38 Identities=11% Similarity=0.180 Sum_probs=29.6
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEe--CCEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVV--GNTIFHVIHA 174 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~--~~~v~~ti~~ 174 (179)
++||.|.+++.+|..-|+.|-+.++... ++..-.||.+
T Consensus 12 n~pGVL~Ri~~lf~rRGfnI~sl~v~~t~~~~~sriti~v 51 (76)
T PRK11152 12 FRPEVLERVLRVVRHRGFQVCSMNMTQNTDAQNINIELTV 51 (76)
T ss_pred CCccHHHHHHHHHhcCCeeeeeEEeeecCCCCEEEEEEEE
Confidence 5799999999999999999999999764 3433344443
No 128
>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=42.14 E-value=81 Score=20.56 Aligned_cols=34 Identities=15% Similarity=0.109 Sum_probs=24.5
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHV 171 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~t 171 (179)
.++.+.+++++|.+.++.|.-.+.+..+..+.++
T Consensus 14 ~~~~~~~i~~~L~~~~I~v~~i~~~~~~~~isf~ 47 (80)
T cd04921 14 VPGIAARIFSALARAGINVILISQASSEHSISFV 47 (80)
T ss_pred CccHHHHHHHHHHHCCCcEEEEEecCCcceEEEE
Confidence 4689999999999999999766654333333333
No 129
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=41.45 E-value=7 Score=37.62 Aligned_cols=62 Identities=18% Similarity=0.132 Sum_probs=48.2
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHhcCCCCCCC--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030331 24 PTKIERKTIEKNRRDQMKNLYSTLKSLLPNQPSK--EELSLPDQVDEAINYIKMLETKLKECKKRKE 88 (179)
Q Consensus 24 ~~r~~h~~~ER~RR~~mn~~~~~LrsllP~~~~~--~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~ 88 (179)
-.+..|+..||++|-...+.|.+|-+|.|...+. .+.|..+||. +.|+.+++.-+.+.++.+
T Consensus 786 ~v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~~ 849 (856)
T KOG3582|consen 786 MVSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKIE 849 (856)
T ss_pred eeecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhhh
Confidence 3567899999999999999999999999976432 3444445577 888999888777776543
No 130
>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=41.26 E-value=76 Score=20.51 Aligned_cols=31 Identities=16% Similarity=0.146 Sum_probs=23.6
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTI 168 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v 168 (179)
.++.+.+++.+|.+.|+.|.-.+.+..+-.+
T Consensus 14 ~~gv~~ki~~~L~~~~I~v~~i~~~~s~~~i 44 (66)
T cd04915 14 TPGVLARGLAALAEAGIEPIAAHQSMRNVDV 44 (66)
T ss_pred cchHHHHHHHHHHHCCCCEEEEEecCCeeEE
Confidence 4689999999999999999766655433333
No 131
>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=41.05 E-value=89 Score=19.49 Aligned_cols=24 Identities=8% Similarity=0.022 Sum_probs=20.5
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAK 160 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~ 160 (179)
+.++.+.+++++|.+.|+.|.-..
T Consensus 11 ~~~g~~~~i~~~L~~~~I~i~~i~ 34 (75)
T cd04913 11 DKPGVAAKIFGALAEANINVDMIV 34 (75)
T ss_pred CCCcHHHHHHHHHHHcCCeEEEEE
Confidence 457999999999999999996554
No 132
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=40.47 E-value=76 Score=27.81 Aligned_cols=27 Identities=37% Similarity=0.466 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030331 66 VDEAINYIKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 66 l~~Ai~YIk~L~~~v~~L~~~~~~~~~ 92 (179)
|+++-+-|.+|+.+++.|+++..++..
T Consensus 291 lDe~~krL~ELrR~vr~L~k~l~~l~~ 317 (320)
T TIGR01834 291 LDEAHQRIQQLRREVKSLKKRLGDLEA 317 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 999999999999999999999887763
No 133
>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=40.06 E-value=90 Score=19.24 Aligned_cols=35 Identities=14% Similarity=0.094 Sum_probs=24.2
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
.++.+.+++++|.+.|+.|.-.+.+..+..+.+++
T Consensus 14 ~~~~~~~i~~~L~~~~I~v~~i~q~~s~~~isf~i 48 (66)
T cd04924 14 TPGVAGRVFGALGKAGINVIMISQGSSEYNISFVV 48 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCccceEEEEE
Confidence 46899999999999999996655433233333333
No 134
>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=39.27 E-value=89 Score=18.95 Aligned_cols=25 Identities=16% Similarity=0.090 Sum_probs=21.4
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFS 162 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs 162 (179)
.++.+.+++.+|.+.++.|...+.+
T Consensus 13 ~~~~~~~i~~~L~~~~i~v~~i~~s 37 (63)
T cd04936 13 HPGVAAKMFEALAEAGINIEMISTS 37 (63)
T ss_pred CccHHHHHHHHHHHCCCcEEEEEcc
Confidence 4789999999999999999877643
No 135
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=39.10 E-value=85 Score=19.66 Aligned_cols=30 Identities=27% Similarity=0.337 Sum_probs=24.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030331 62 LPDQVDEAINYIKMLETKLKECKKRKESLQ 91 (179)
Q Consensus 62 ~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~~ 91 (179)
+..--..+-++|+.|.+++..+.++.+.++
T Consensus 14 lv~FQ~~v~~~lq~Lt~kL~~vs~RLe~LE 43 (47)
T PF10393_consen 14 LVAFQNKVTSALQSLTQKLDAVSKRLEALE 43 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334457788899999999999999888775
No 136
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=38.04 E-value=83 Score=20.76 Aligned_cols=53 Identities=23% Similarity=0.305 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030331 31 TIEKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKLKECKKRKESLQ 91 (179)
Q Consensus 31 ~~ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~~ 91 (179)
.+|=+-...+.+-+...++-- .....-|.+|=...+.|.++|+.|+.+.+++.
T Consensus 7 ~~EirakQ~~~eEL~kvk~~n--------~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r 59 (61)
T PF08826_consen 7 EAEIRAKQAIQEELTKVKSAN--------LAFESKLQEAEKRNRELEQEIERLKKEMEELR 59 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344455555555555544321 12233499999999999999999999988764
No 137
>PRK11899 prephenate dehydratase; Provisional
Probab=37.26 E-value=1.3e+02 Score=25.57 Aligned_cols=42 Identities=12% Similarity=0.181 Sum_probs=34.0
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EEEEEEEEEe
Q 030331 136 VDDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IFHVIHAEVC 177 (179)
Q Consensus 136 ~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~~ti~~kv~ 177 (179)
.+++|.|.++|.+|-..|+......+-+..+. --|.|.+.++
T Consensus 202 ~~~pGaL~~vL~~Fa~~gINLtkIeSRP~~~~~~~Y~F~id~e 244 (279)
T PRK11899 202 RNIPAALYKALGGFATNGVNMTKLESYMVGGSFTATQFYADIE 244 (279)
T ss_pred CCCCChHHHHHHHHHHcCCCeeeEEeeecCCCCceEEEEEEEE
Confidence 36799999999999999999999999887655 4466666554
No 138
>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=37.20 E-value=1.3e+02 Score=20.09 Aligned_cols=34 Identities=9% Similarity=0.033 Sum_probs=25.9
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEE
Q 030331 138 DQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIH 173 (179)
Q Consensus 138 ~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~ 173 (179)
.++.+.+|+++|++.|+.|-.... ..+.+-+++.
T Consensus 14 ~~g~~~~If~~la~~~I~vd~I~~--s~~~isftv~ 47 (73)
T cd04934 14 SHGFLARIFAILDKYRLSVDLIST--SEVHVSMALH 47 (73)
T ss_pred ccCHHHHHHHHHHHcCCcEEEEEe--CCCEEEEEEe
Confidence 478999999999999999988864 2355555554
No 139
>PRK08198 threonine dehydratase; Provisional
Probab=35.08 E-value=2.7e+02 Score=24.50 Aligned_cols=35 Identities=14% Similarity=0.246 Sum_probs=27.8
Q ss_pred eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEE
Q 030331 128 LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSV 163 (179)
Q Consensus 128 v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~ 163 (179)
+.+.+.-. ++||.|.+++..+-+.|..|++.+...
T Consensus 328 ~~l~v~l~-D~PG~L~~ll~~i~~~g~NI~~i~~~~ 362 (404)
T PRK08198 328 LKLRVRLP-DRPGQLAKLLSIIAELGANVIDVDHDR 362 (404)
T ss_pred EEEEEEeC-CCCCHHHHHHHHHhhCCCceEEEEEEE
Confidence 34444333 579999999999999999999988764
No 140
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=33.31 E-value=1.6e+02 Score=20.22 Aligned_cols=47 Identities=17% Similarity=0.314 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030331 39 QMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKLKECKKRKESL 90 (179)
Q Consensus 39 ~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~ 90 (179)
.++.+|...|++|-..+..++ | +.+=-.+|+.|+++++...+-...+
T Consensus 32 ~lk~Klq~ar~~i~~lpgi~~-s----~eeq~~~i~~Le~~i~~k~~~L~~~ 78 (83)
T PF07544_consen 32 SLKHKLQKARAAIRELPGIDR-S----VEEQEEEIEELEEQIRKKREVLQKF 78 (83)
T ss_pred HHHHHHHHHHHHHHhCCCccC-C----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466667777776644443332 3 7777888888888887766655443
No 141
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=32.15 E-value=78 Score=16.90 Aligned_cols=17 Identities=6% Similarity=0.335 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 030331 73 IKMLETKLKECKKRKES 89 (179)
Q Consensus 73 Ik~L~~~v~~L~~~~~~ 89 (179)
|..|+.+|.+|+.+...
T Consensus 3 ~~rlr~rI~dLer~L~~ 19 (23)
T PF04508_consen 3 MNRLRNRISDLERQLSE 19 (23)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 56778888888877654
No 142
>PRK12729 fliE flagellar hook-basal body protein FliE; Provisional
Probab=32.04 E-value=1.4e+02 Score=22.62 Aligned_cols=31 Identities=13% Similarity=0.208 Sum_probs=26.0
Q ss_pred CCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 030331 57 KEELSLPDQVDEAINYIKMLETKLKECKKRK 87 (179)
Q Consensus 57 ~~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~ 87 (179)
..-.|..++|.+|++-|..+|.+-+.+....
T Consensus 53 ~~~~sF~d~Lk~Al~~VN~~Q~~Ad~~~~~~ 83 (127)
T PRK12729 53 YVAESFSEAMKNALTSVNDLQVEADELTQKM 83 (127)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467899999999999999999988876654
No 143
>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=30.93 E-value=72 Score=20.65 Aligned_cols=24 Identities=17% Similarity=0.192 Sum_probs=20.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAK 160 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~ 160 (179)
+.+|.+.+++.+|-+.|+.|...+
T Consensus 19 ~~~Gv~a~i~~~La~~~I~i~~is 42 (65)
T PF13840_consen 19 DVPGVAAKIFSALAEAGINIFMIS 42 (65)
T ss_dssp TSHHHHHHHHHHHHHTTS-ECEEE
T ss_pred CcccHHHHHHHHHHHCCCCEEEEE
Confidence 368999999999999999998877
No 144
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=30.79 E-value=1.8e+02 Score=19.90 Aligned_cols=38 Identities=13% Similarity=0.141 Sum_probs=29.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeC--CEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVG--NTIFHVIHA 174 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~--~~v~~ti~~ 174 (179)
+++|.|.++..+|..-|+.+-+.++.... +-.-.||.+
T Consensus 11 n~pGVL~Ri~~lf~rRgfNI~Sl~vg~te~~~~sriti~~ 50 (76)
T PRK06737 11 NDPSVLLRISGIFARRGYYISSLNLNERDTSGVSEMKLTA 50 (76)
T ss_pred cCCCHHHHHHHHHhccCcceEEEEecccCCCCeeEEEEEE
Confidence 57999999999999999999999987544 334455553
No 145
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=29.96 E-value=2.6e+02 Score=21.50 Aligned_cols=27 Identities=26% Similarity=0.363 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030331 66 VDEAINYIKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 66 l~~Ai~YIk~L~~~v~~L~~~~~~~~~ 92 (179)
..+....|.+|+++++.|+.+.+.+..
T Consensus 111 ~~el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 111 NEELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 788899999999999999999988875
No 146
>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=29.29 E-value=1.2e+02 Score=27.99 Aligned_cols=42 Identities=12% Similarity=-0.025 Sum_probs=31.9
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EE-EEEEEEEe
Q 030331 136 VDDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IF-HVIHAEVC 177 (179)
Q Consensus 136 ~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~-~ti~~kv~ 177 (179)
.+++|.|.++|..|+..|+.+.+..+-+..+. -- |.|.+.++
T Consensus 39 ~d~pGaL~~vL~vFa~~gINLThIESRPsk~~~~e~Y~FfVD~E 82 (464)
T TIGR01270 39 SNVVGDLSKAIAIFQDRHINILHLESRDSKDGTSKTMDVLVDVE 82 (464)
T ss_pred CCCchHHHHHHHHHHHCCCCEEEEECCcCCCCCCccEEEEEEEE
Confidence 35689999999999999999999998765433 22 55555544
No 147
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=29.22 E-value=2.5e+02 Score=21.43 Aligned_cols=37 Identities=14% Similarity=0.106 Sum_probs=29.3
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFSVVGNT 167 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~ 167 (179)
|.++-. +++|.|..+...|-+.|+.+-..++.-.++.
T Consensus 6 ISvFlE-Nk~GRL~~~~~~L~eagINiRA~tiAdt~dF 42 (142)
T COG4747 6 ISVFLE-NKPGRLASVANKLKEAGINIRAFTIADTGDF 42 (142)
T ss_pred EEEEec-CCcchHHHHHHHHHHcCCceEEEEeccccCc
Confidence 445554 4789999999999999999998888755553
No 148
>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=29.19 E-value=1.5e+02 Score=27.13 Aligned_cols=41 Identities=5% Similarity=0.021 Sum_probs=31.1
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EEEEEEEEE
Q 030331 136 VDDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IFHVIHAEV 176 (179)
Q Consensus 136 ~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~~ti~~kv 176 (179)
.+++|.|.++|.+|...|+.+.+..+-+.... --|.|.+.+
T Consensus 24 ~d~pGaL~~vL~vFa~~gINLthIESRPsk~~~~eY~FFVD~ 65 (436)
T TIGR01268 24 KEEAGALAETLKLFQAHDVNLTHIESRPSKTHPGEYEFFVEF 65 (436)
T ss_pred CCCCcHHHHHHHHHHHCCCCeeEEecccCCCCCccEEEEEEE
Confidence 35699999999999999999999998665332 335555444
No 149
>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=29.08 E-value=1.9e+02 Score=19.67 Aligned_cols=35 Identities=11% Similarity=0.032 Sum_probs=26.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVIH 173 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti~ 173 (179)
..++.+.+|+++|++.|+.|-.... ..+.+-+++.
T Consensus 13 ~~~g~~a~IF~~La~~~InVDmI~q--s~~sISftV~ 47 (78)
T cd04933 13 GQYGFLAKVFSIFETLGISVDVVAT--SEVSISLTLD 47 (78)
T ss_pred CccCHHHHHHHHHHHcCCcEEEEEe--cCCEEEEEEE
Confidence 3578999999999999999988864 2355556654
No 150
>PRK10622 pheA bifunctional chorismate mutase/prephenate dehydratase; Provisional
Probab=28.01 E-value=2.2e+02 Score=25.46 Aligned_cols=42 Identities=7% Similarity=0.004 Sum_probs=34.1
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EEEEEEEEEe
Q 030331 136 VDDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IFHVIHAEVC 177 (179)
Q Consensus 136 ~~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~~ti~~kv~ 177 (179)
.+++|.|.++|.+|-..|+......+-+..+. --|.|.+.++
T Consensus 305 ~~~pGaL~~~L~~Fa~~giNLtkIeSRP~~~~~~~Y~Ffid~e 347 (386)
T PRK10622 305 GQQAGALVEALLVLRNHNLIMTKLESRPIHGNPWEEMFYLDVQ 347 (386)
T ss_pred CCCCcHHHHHHHHHHHcCCCeeEEEeeecCCCCceEEEEEEEe
Confidence 36799999999999999999999998877665 4466666554
No 151
>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=27.48 E-value=1.5e+02 Score=20.05 Aligned_cols=36 Identities=11% Similarity=0.167 Sum_probs=24.3
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEe---CCEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVV---GNTIFHVIHA 174 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~---~~~v~~ti~~ 174 (179)
++||.|.+++++|- +..|........ .+.+..+|.+
T Consensus 10 D~PG~L~~ll~~l~--~anI~~~~y~~~~~~~~~v~i~ie~ 48 (85)
T cd04906 10 ERPGSFKKFCELIG--PRNITEFNYRYADEKDAHIFVGVSV 48 (85)
T ss_pred CCCcHHHHHHHHhC--CCceeEEEEEccCCCeeEEEEEEEe
Confidence 57999999999998 666666655443 2335555543
No 152
>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=27.37 E-value=3.7e+02 Score=23.41 Aligned_cols=33 Identities=12% Similarity=0.200 Sum_probs=26.5
Q ss_pred EEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEE
Q 030331 129 EVILTSGVDDQFIFYEVIRILHQDGAEILNAKFS 162 (179)
Q Consensus 129 ~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs 162 (179)
.+.+.- .+++|.|.++++.+.+.|..|++....
T Consensus 307 ~l~v~l-~D~pG~L~~v~~~i~~~~~NI~~i~~~ 339 (380)
T TIGR01127 307 RIETVL-PDRPGALYHLLESIAEARANIVKIDHD 339 (380)
T ss_pred EEEEEe-CCCCCHHHHHHHHHhcCCCcEEEEEee
Confidence 444433 257999999999999999999998765
No 153
>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=26.83 E-value=2.7e+02 Score=23.46 Aligned_cols=51 Identities=18% Similarity=0.344 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHH------------------HHHHHHHHHHHHHHHHHHh
Q 030331 37 RDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAIN------------------YIKMLETKLKECKKRKESL 90 (179)
Q Consensus 37 R~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~------------------YIk~L~~~v~~L~~~~~~~ 90 (179)
|.-|..+|..|+..=.. .+ | ..-...|.++|. =||.++++|++|+.+..+.
T Consensus 6 ~qLI~~lf~RL~~ae~~-pr-D-~eAe~lI~~~~~~qP~A~Y~laQ~vlvQE~AL~~a~~ri~eLe~ql~q~ 74 (247)
T PF09849_consen 6 RQLIDDLFSRLKQAEAQ-PR-D-PEAEALIAQALARQPDAPYYLAQTVLVQEQALKQAQARIQELEAQLQQA 74 (247)
T ss_pred HHHHHHHHHHHHhccCC-CC-C-HHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 56789999999986544 22 2 111111222221 2677888999999887653
No 154
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=26.26 E-value=1.7e+02 Score=19.63 Aligned_cols=29 Identities=21% Similarity=0.195 Sum_probs=24.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030331 62 LPDQVDEAINYIKMLETKLKECKKRKESL 90 (179)
Q Consensus 62 ~~~~l~~Ai~YIk~L~~~v~~L~~~~~~~ 90 (179)
....|++|..-+.+|+.+++.|.++.+..
T Consensus 38 ~~~~l~~a~~e~~~Lk~E~e~L~~el~~~ 66 (69)
T PF14197_consen 38 AERQLGDAYEENNKLKEENEALRKELEEL 66 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34459999999999999999999886654
No 155
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=25.74 E-value=1.1e+02 Score=19.12 Aligned_cols=20 Identities=20% Similarity=0.341 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHhhc
Q 030331 73 IKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 73 Ik~L~~~v~~L~~~~~~~~~ 92 (179)
|..|++++..|+.+...|+.
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~ 20 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQA 20 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHH
Confidence 45677777777777666654
No 156
>PTZ00324 glutamate dehydrogenase 2; Provisional
Probab=25.07 E-value=3.5e+02 Score=27.56 Aligned_cols=61 Identities=10% Similarity=0.123 Sum_probs=45.5
Q ss_pred CCCeEEEEEeC-CeeEEEEEEcC----CCCchHHHHHHHHHhCCcEEEEEEEEEe-CCEEEEEEEEE
Q 030331 115 KAPEIEIHEMG-SNLEVILTSGV----DDQFIFYEVIRILHQDGAEILNAKFSVV-GNTIFHVIHAE 175 (179)
Q Consensus 115 ~~p~V~V~~~~-~~v~I~i~c~~----~~~~~l~~vl~~Le~~gL~Vv~a~vs~~-~~~v~~ti~~k 175 (179)
.-|.+++...+ +.-++.+..+. ...+.|+.+.+++.-+||.+..+=+-+| +|-.+|++.++
T Consensus 215 ~g~~i~~~~~~~~~~~~r~~~a~~r~~~~~~~~s~~~~~~~~~~l~~~R~Y~e~fsngv~i~s~yv~ 281 (1002)
T PTZ00324 215 VGPVLHVNEVPRGGVSFTMAMAFRRRYYTASFFSRFGEIVTFHGAYSMSKYVEPFSNGVQVYTFFIR 281 (1002)
T ss_pred CCCeEEEEecCCCCcEEEEEEEEecCCcHhhHHHHHHHHHHhcCCccceEEEEEeeCCcEEEEEEEe
Confidence 35678888776 44555554422 1257899999999999999999999888 56688888765
No 157
>PRK06382 threonine dehydratase; Provisional
Probab=25.02 E-value=3.3e+02 Score=24.15 Aligned_cols=40 Identities=15% Similarity=0.194 Sum_probs=29.4
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEE----Ee-CCEEEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFS----VV-GNTIFHVIHAEV 176 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs----~~-~~~v~~ti~~kv 176 (179)
+++|.|.+|+..|.+++.+|++.... .. .+....+|.++.
T Consensus 339 D~pG~L~~l~~ii~~~~~nI~~v~~~~~~~~~~~~~~~v~i~vet 383 (406)
T PRK06382 339 DRPGNLYRIANAIASNGGNIYHAEVDNLRKETPPGFQSVTFTVNV 383 (406)
T ss_pred CCCCHHHHHHHHHhcCCCcEEEEEEeeccccCCCCcEEEEEEEEe
Confidence 57999999999999999999988764 22 234445555543
No 158
>PF13399 LytR_C: LytR cell envelope-related transcriptional attenuator
Probab=25.01 E-value=2e+02 Score=19.42 Aligned_cols=34 Identities=15% Similarity=0.193 Sum_probs=26.1
Q ss_pred eeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEE
Q 030331 127 NLEVILTSGVDDQFIFYEVIRILHQDGAEILNAK 160 (179)
Q Consensus 127 ~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~ 160 (179)
.+.|.+.-+...+|+-.++-..|++.|+.+.+..
T Consensus 3 ~v~V~VlNgt~~~GlA~~~a~~L~~~Gf~v~~~~ 36 (90)
T PF13399_consen 3 DVRVEVLNGTGVSGLAARVADALRNRGFTVVEVG 36 (90)
T ss_pred ceEEEEEECcCCcCHHHHHHHHHHHCCCceeecC
Confidence 3455555544568999999999999999998663
No 159
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=25.01 E-value=1.6e+02 Score=20.62 Aligned_cols=27 Identities=22% Similarity=0.380 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030331 66 VDEAINYIKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 66 l~~Ai~YIk~L~~~v~~L~~~~~~~~~ 92 (179)
|..+-+-|-++|.++++|+.++.++..
T Consensus 10 ieK~k~Kiae~Q~rlK~Le~qk~E~EN 36 (83)
T PF14193_consen 10 IEKTKEKIAELQARLKELEAQKTEAEN 36 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667778888999999999988876654
No 160
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase
Probab=24.89 E-value=3e+02 Score=29.37 Aligned_cols=36 Identities=14% Similarity=0.258 Sum_probs=28.3
Q ss_pred eeEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEE
Q 030331 127 NLEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSV 163 (179)
Q Consensus 127 ~v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~ 163 (179)
.+.+.|... ..+..|+++|-+||++||.|+...-..
T Consensus 489 ~~~lkiy~~-~~~~~Ls~vlPilenlGl~V~~e~~~~ 524 (1528)
T PF05088_consen 489 RLRLKIYHP-GEPLPLSDVLPILENLGLRVIDERPYE 524 (1528)
T ss_pred eEEEEEEcC-CCCcCHHHHHHHHHhCCCEEEEEecce
Confidence 456666543 357899999999999999999986543
No 161
>PRK06635 aspartate kinase; Reviewed
Probab=24.27 E-value=3.2e+02 Score=23.98 Aligned_cols=36 Identities=14% Similarity=0.043 Sum_probs=27.3
Q ss_pred eEEEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEEE
Q 030331 128 LEVILTSGVDDQFIFYEVIRILHQDGAEILNAKFSV 163 (179)
Q Consensus 128 v~I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~ 163 (179)
..|.+..-..++|.+.+++.+|.+.|+.|...+.+.
T Consensus 263 ~~Isv~g~~~~~g~l~~i~~~L~~~~I~i~~is~s~ 298 (404)
T PRK06635 263 AKVTVVGVPDKPGIAAQIFGALAEANINVDMIVQNV 298 (404)
T ss_pred EEEEECCCCCCccHHHHHHHHHHHcCCeEEEEEecC
Confidence 445554433568999999999999999999876553
No 162
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=23.71 E-value=3.7e+02 Score=25.40 Aligned_cols=21 Identities=19% Similarity=0.376 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHhcCCCC
Q 030331 34 KNRRDQMKNLYSTLKSLLPNQ 54 (179)
Q Consensus 34 R~RR~~mn~~~~~LrsllP~~ 54 (179)
.++..++++.+..|+...|..
T Consensus 49 ~~~~~~~~~~l~~L~~~~~~~ 69 (646)
T PRK05771 49 RSLLTKLSEALDKLRSYLPKL 69 (646)
T ss_pred HHHHHHHHHHHHHHHHhcccc
Confidence 456778999999999887764
No 163
>PLN02317 arogenate dehydratase
Probab=23.64 E-value=3.1e+02 Score=24.64 Aligned_cols=30 Identities=0% Similarity=0.112 Sum_probs=26.3
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCC
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGN 166 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~ 166 (179)
+++|.|.++|.+|...++.+....+-+..+
T Consensus 292 ~~pG~L~k~L~~Fa~~~INLtkIESRP~~~ 321 (382)
T PLN02317 292 EGPGVLFKALAVFALRDINLTKIESRPQRK 321 (382)
T ss_pred CCCchHHHHHHHHHHCCCCEEEEEeeecCC
Confidence 478999999999999999999999876543
No 164
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=23.48 E-value=89 Score=20.07 Aligned_cols=17 Identities=35% Similarity=0.473 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHH
Q 030331 73 IKMLETKLKECKKRKES 89 (179)
Q Consensus 73 Ik~L~~~v~~L~~~~~~ 89 (179)
++.+++++++++++.++
T Consensus 50 ~~~~~k~l~~le~e~~~ 66 (68)
T PF06305_consen 50 IRRLRKELKKLEKELEQ 66 (68)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 45566666666666554
No 165
>KOG3852 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.27 E-value=1e+02 Score=27.29 Aligned_cols=32 Identities=31% Similarity=0.562 Sum_probs=24.5
Q ss_pred HHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHH
Q 030331 43 LYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLE 77 (179)
Q Consensus 43 ~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~ 77 (179)
-|..|..++|..-++.|.| +.+|.+| ||+.|-
T Consensus 144 Vl~clldflP~~v~keKis-p~tlKda--YvqKlv 175 (426)
T KOG3852|consen 144 VLDCLLDFLPEGVNKEKIS-PLTLKDA--YVQKLV 175 (426)
T ss_pred HHHHHHHhCcccccccccC-hhHHHHH--HHHHHH
Confidence 4788999999988888888 4667776 766553
No 166
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=22.98 E-value=2.8e+02 Score=19.49 Aligned_cols=39 Identities=8% Similarity=-0.031 Sum_probs=30.5
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCC--EEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGN--TIFHVIHAE 175 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~--~v~~ti~~k 175 (179)
+++|.|.++-..|-.-|+.+-+.++....+ -.-+||.+.
T Consensus 11 N~~GVL~Rit~lFsRRg~NI~SLtvg~Te~~~iSRmtivv~ 51 (84)
T PRK13562 11 DQVSTLNRITSAFVRLQYNIDTLHVTHSEQPGISNMEIQVD 51 (84)
T ss_pred CCCCHHHHHHHHHhccCcCeeeEEecccCCCCceEEEEEEe
Confidence 579999999999999999999999876543 344555553
No 167
>PRK12821 aspartyl/glutamyl-tRNA amidotransferase subunit C-like protein; Provisional
Probab=22.83 E-value=1.2e+02 Score=27.93 Aligned_cols=53 Identities=17% Similarity=0.323 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhcC-CCCCCCCCCChhHHHHHHHHHHHHH------HHHHHHHHHHHHHhh
Q 030331 36 RRDQMKNLYSTLKSLL-PNQPSKEELSLPDQVDEAINYIKML------ETKLKECKKRKESLQ 91 (179)
Q Consensus 36 RR~~mn~~~~~Lrsll-P~~~~~~k~S~~~~l~~Ai~YIk~L------~~~v~~L~~~~~~~~ 91 (179)
.|+.++..|+.|.|++ |...+..|..+ =.+-++||-+| +++++.+.++.++..
T Consensus 362 ~~~~~~~~~s~l~s~~m~~~~~~~k~~I---tkEeVkKLAkLARLeLSEEElEkl~~dLn~IL 421 (477)
T PRK12821 362 QTKGIKKSFSDLQSPLFPKHWTSKKQQL---NKDELKKLARLVMFDLDDAELEKLQVEFKDIT 421 (477)
T ss_pred hhhhhhhhhhhhcChhhhhhhccccccC---CHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 4678999999999987 66555555554 66778888777 556666666555443
No 168
>cd04898 ACT_ACR-like_4 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 (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=22.68 E-value=40 Score=23.38 Aligned_cols=31 Identities=26% Similarity=0.400 Sum_probs=27.7
Q ss_pred EEcCCCCchHHHHHHHHHhCCcEEEEEEEEE
Q 030331 133 TSGVDDQFIFYEVIRILHQDGAEILNAKFSV 163 (179)
Q Consensus 133 ~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs~ 163 (179)
.|++.+|-.|.++-.||..++.-|-+|.|..
T Consensus 5 lsGkGRPrVfyDvTlALK~L~i~IFsaeIgR 35 (77)
T cd04898 5 LSGKGRPRVFYDITLALKKLGICIFSAEIGR 35 (77)
T ss_pred ccCCCCcceeeehHHHHHHhccEEEehhhhh
Confidence 5777789999999999999999999999863
No 169
>COG0077 PheA Prephenate dehydratase [Amino acid transport and metabolism]
Probab=22.44 E-value=3.2e+02 Score=23.44 Aligned_cols=40 Identities=5% Similarity=0.141 Sum_probs=31.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCCE-EEEEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGNT-IFHVIHAEV 176 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~-v~~ti~~kv 176 (179)
++||.|+++|.+|-..|++.....+-+.... --|.|.+.+
T Consensus 203 n~PGaL~~~L~~Fa~~gINlTkIESRP~k~~~~~Y~F~iD~ 243 (279)
T COG0077 203 NKPGALYKALGVFAKRGINLTKIESRPLKTGLGEYLFFIDI 243 (279)
T ss_pred CCCchHHHHHHHHHHcCcceeeEeecccCCCCeeEEEEEEE
Confidence 6799999999999999999999988766544 334554444
No 170
>PF12180 EABR: TSG101 and ALIX binding domain of CEP55; InterPro: IPR022008 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. This domain is the active domain of CEP55. CEP55 is a protein involved in cytokinesis, specifically in abscission of the plasma membrane at the midbody. To perform this function, CEP55 complexes with ESCRT-I (by a Proline rich sequence in its TSG101 domain) and ALIX. This is the domain on CEP55 which binds to both TSG101 and ALIX. It also acts as a hinge between the N and C termini. This domain is called EABR. ; PDB: 3E1R_A.
Probab=22.31 E-value=99 Score=18.21 Aligned_cols=13 Identities=38% Similarity=0.605 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHH
Q 030331 71 NYIKMLETKLKEC 83 (179)
Q Consensus 71 ~YIk~L~~~v~~L 83 (179)
+||+.|..++.+|
T Consensus 23 ~YV~~L~~rl~el 35 (35)
T PF12180_consen 23 AYVRGLLARLKEL 35 (35)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcC
Confidence 5888888777664
No 171
>PRK06291 aspartate kinase; Provisional
Probab=22.01 E-value=4.4e+02 Score=23.85 Aligned_cols=36 Identities=11% Similarity=0.100 Sum_probs=26.2
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 137 DDQFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 137 ~~~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
..++.+.+++++|.+.|+.|...+.++....+.++|
T Consensus 333 ~~~g~~arvf~~L~~~gI~V~mIsq~sse~sIsf~V 368 (465)
T PRK06291 333 GVPGTAARIFSALAEEGVNVIMISQGSSESNISLVV 368 (465)
T ss_pred CCccHHHHHHHHHHHCCCcEEEEEecCCCceEEEEE
Confidence 346899999999999999998776443344444444
No 172
>PRK11020 hypothetical protein; Provisional
Probab=21.58 E-value=1.7e+02 Score=21.81 Aligned_cols=52 Identities=13% Similarity=0.171 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 030331 33 EKNRRDQMKNLYSTLKSLLPNQPSKEELSLPDQVDEAINYIKMLETKLKECKKRK 87 (179)
Q Consensus 33 ER~RR~~mn~~~~~LrsllP~~~~~~k~S~~~~l~~Ai~YIk~L~~~v~~L~~~~ 87 (179)
|++-=++++++++.++.=++.....+...+ +.+--+-|..|..+|+.|....
T Consensus 3 ~K~Eiq~L~drLD~~~~Klaaa~~rgd~~~---i~qf~~E~~~l~k~I~~lk~~~ 54 (118)
T PRK11020 3 EKNEIKRLSDRLDAIRHKLAAASLRGDAEK---YAQFEKEKATLEAEIARLKEVQ 54 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 344456789999999887765544433333 6666666666666666666544
No 173
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=21.20 E-value=1.5e+02 Score=18.47 Aligned_cols=27 Identities=15% Similarity=0.345 Sum_probs=13.8
Q ss_pred HHHHHHHHHH----HHHHHHHHHHHHHHHhh
Q 030331 65 QVDEAINYIK----MLETKLKECKKRKESLQ 91 (179)
Q Consensus 65 ~l~~Ai~YIk----~L~~~v~~L~~~~~~~~ 91 (179)
+|.++-++|. .+-+++++|+++++.|.
T Consensus 9 lLqe~~d~IEqkiedid~qIaeLe~KR~~Lv 39 (46)
T PF08946_consen 9 LLQEHYDNIEQKIEDIDEQIAELEAKRQRLV 39 (46)
T ss_dssp ------THHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHhHHHHHHHHHHHHHHHHHHH
Confidence 3555555554 45667777777777664
No 174
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=21.01 E-value=1.7e+02 Score=18.24 Aligned_cols=19 Identities=26% Similarity=0.357 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 030331 72 YIKMLETKLKECKKRKESL 90 (179)
Q Consensus 72 YIk~L~~~v~~L~~~~~~~ 90 (179)
|+..|+.++..|+.+...|
T Consensus 26 ~~~~le~~~~~L~~en~~L 44 (54)
T PF07716_consen 26 REEELEQEVQELEEENEQL 44 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4445555555555444443
No 175
>PF01709 Transcrip_reg: Transcriptional regulator; InterPro: IPR002876 This entry represents the core region of several hypothetical proteins found in bacteria, plants, and yeast proteins. This core region can be subdivided into three domains: a 3-helical bundle domain, and two alpha+beta domains with different folds, where domain 3 (ferredoxin-like fold) is inserted within domain 2. This core region is found in the following hypothetical proteins: YebC from Escherichia coli, HP0162 from Helicobacter pylori (Campylobacter pylori) and aq1575 from Aquifex aeolicus []. The crystal structure of a conserved hypothetical protein, Aq1575, from Aquifex aeolicus has been determined. A structural homology search reveals that this protein has a new fold with no obvious similarity to those of other proteins of known three-dimensional structure. The protein reveals a monomer consisting of three domains arranged along a pseudo threefold symmetry axis. There is a large cleft with approximate dimensions of 10 A x 10 A x 20 A in the centre of the three domains along the symmetry axis. Two possible active sites are suggested based on the structure and multiple sequence alignment. There are several highly conserved residues in these putative active sites [].; PDB: 1LFP_A 1MW7_A 1KON_A.
Probab=20.61 E-value=1.5e+02 Score=24.53 Aligned_cols=30 Identities=20% Similarity=0.200 Sum_probs=23.1
Q ss_pred EEEEEcCCCCchHHHHHHHHHhCCcEEEEEEEE
Q 030331 130 VILTSGVDDQFIFYEVIRILHQDGAEILNAKFS 162 (179)
Q Consensus 130 I~i~c~~~~~~~l~~vl~~Le~~gL~Vv~a~vs 162 (179)
+.++|. +.-|..|-.+|++.|++|.++.+.
T Consensus 167 ~~~~c~---p~~~~~v~~~L~~~g~~i~~~e~~ 196 (234)
T PF01709_consen 167 FEFICD---PSDLSAVKKALEKKGYEIESAELE 196 (234)
T ss_dssp EEEEEE---GGGHHHHHHHHHHTT---SEEEEE
T ss_pred EEEEEC---HHHHHHHHHHHHHcCCCeeEEEEE
Confidence 666785 678999999999999999999875
No 176
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=20.53 E-value=2e+02 Score=19.89 Aligned_cols=27 Identities=7% Similarity=0.083 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 030331 66 VDEAINYIKMLETKLKECKKRKESLQG 92 (179)
Q Consensus 66 l~~Ai~YIk~L~~~v~~L~~~~~~~~~ 92 (179)
|.+-.+.-.+|+++++.|+++.+++.+
T Consensus 2 i~ei~eEn~~Lk~eiqkle~ELq~~~~ 28 (76)
T PF07334_consen 2 IHEIQEENARLKEEIQKLEAELQQNKR 28 (76)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455566777888888888777766554
No 177
>KOG3896 consensus Dynactin, subunit p62 [Cell motility]
Probab=20.09 E-value=1.2e+02 Score=27.07 Aligned_cols=28 Identities=18% Similarity=0.439 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030331 64 DQVDEAINYIKMLETKLKECKKRKESLQ 91 (179)
Q Consensus 64 ~~l~~Ai~YIk~L~~~v~~L~~~~~~~~ 91 (179)
..+.+-++|.+.|+++++.++..+....
T Consensus 139 ~r~n~l~eY~q~Laek~Ek~e~drkK~a 166 (449)
T KOG3896|consen 139 NRLNELTEYMQRLAEKIEKAEKDRKKGA 166 (449)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHhccc
Confidence 4589999999999999999988766543
No 178
>TIGR00657 asp_kinases aspartate kinase. 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. This may be a feature of a number of closely related forms, including a paralog from B. subtilis.
Probab=20.06 E-value=5.9e+02 Score=22.72 Aligned_cols=45 Identities=13% Similarity=0.029 Sum_probs=28.7
Q ss_pred eEEEEEEcCCC-CchHHHHHHHHHhCCcEEEEEEEEEeCCEEEEEE
Q 030331 128 LEVILTSGVDD-QFIFYEVIRILHQDGAEILNAKFSVVGNTIFHVI 172 (179)
Q Consensus 128 v~I~i~c~~~~-~~~l~~vl~~Le~~gL~Vv~a~vs~~~~~v~~ti 172 (179)
..|.+...... ++.+.+++++|.++|+.|...+-++....+.++|
T Consensus 303 ~~Isv~g~~~~~~g~la~if~~L~~~~I~I~~i~q~~se~sIs~~I 348 (441)
T TIGR00657 303 ARVTVSGLGMKGPGFLARVFGALAEAGINVDLITQSSSETSISFTV 348 (441)
T ss_pred EEEEEECCCCCCccHHHHHHHHHHHcCCeEEEEEecCCCceEEEEE
Confidence 34444332222 6899999999999999998776333233344443
Done!