Query 039361
Match_columns 253
No_of_seqs 122 out of 454
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 08:57:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039361.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039361hhsearch_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 99.3 1E-12 2.2E-17 92.3 4.5 53 83-135 1-55 (55)
2 cd00083 HLH Helix-loop-helix d 99.3 1.2E-12 2.6E-17 92.3 4.9 58 82-139 3-60 (60)
3 smart00353 HLH helix loop heli 99.3 2.6E-12 5.7E-17 89.0 5.4 52 88-139 1-52 (53)
4 KOG1318 Helix loop helix trans 98.2 1.9E-06 4.1E-11 83.1 6.2 63 79-141 229-292 (411)
5 KOG2483 Upstream transcription 97.9 2.5E-05 5.4E-10 70.5 7.0 66 79-145 55-121 (232)
6 KOG1319 bHLHZip transcription 97.8 3.7E-05 8.1E-10 67.3 5.6 65 81-145 60-128 (229)
7 KOG4029 Transcription factor H 97.6 5.6E-05 1.2E-09 67.4 3.5 64 80-143 106-170 (228)
8 KOG3561 Aryl-hydrocarbon recep 97.5 0.00012 2.5E-09 76.1 4.5 62 76-137 13-75 (803)
9 cd04895 ACT_ACR_1 ACT domain-c 97.4 0.0016 3.6E-08 48.7 9.3 62 182-248 3-68 (72)
10 PLN03217 transcription factor 97.4 0.00024 5.3E-09 54.9 4.8 56 96-151 20-78 (93)
11 cd04900 ACT_UUR-like_1 ACT dom 97.4 0.0019 4.1E-08 47.3 9.3 66 181-251 2-72 (73)
12 cd04897 ACT_ACR_3 ACT domain-c 97.4 0.0018 3.9E-08 48.8 9.1 66 182-252 3-72 (75)
13 KOG4304 Transcriptional repres 97.3 0.00011 2.5E-09 66.9 1.7 63 77-139 26-93 (250)
14 cd04927 ACT_ACR-like_2 Second 97.2 0.0046 1E-07 46.0 9.6 66 182-252 2-71 (76)
15 cd04896 ACT_ACR-like_3 ACT dom 97.1 0.0069 1.5E-07 45.7 9.3 66 182-252 2-72 (75)
16 cd04899 ACT_ACR-UUR-like_2 C-t 97.0 0.011 2.5E-07 41.9 9.7 65 183-252 3-70 (70)
17 cd04926 ACT_ACR_4 C-terminal 97.0 0.011 2.4E-07 43.3 9.4 64 181-250 2-65 (72)
18 cd04928 ACT_TyrKc Uncharacteri 96.8 0.017 3.6E-07 42.8 9.2 64 182-252 3-67 (68)
19 cd04925 ACT_ACR_2 ACT domain-c 96.7 0.023 4.9E-07 41.9 9.4 65 183-252 3-72 (74)
20 KOG0561 bHLH transcription fac 96.6 0.0014 3.1E-08 61.2 2.6 51 90-141 67-117 (373)
21 KOG3960 Myogenic helix-loop-he 96.0 0.015 3.3E-07 53.2 6.1 59 88-148 123-182 (284)
22 PRK05007 PII uridylyl-transfer 95.6 0.083 1.8E-06 56.0 10.5 79 169-252 795-878 (884)
23 PF01842 ACT: ACT domain; Int 95.6 0.2 4.4E-06 34.5 9.2 60 182-251 2-64 (66)
24 PRK03381 PII uridylyl-transfer 95.6 0.12 2.7E-06 53.9 11.4 78 170-252 588-666 (774)
25 cd04873 ACT_UUR-ACR-like ACT d 95.5 0.19 4.1E-06 35.1 9.0 45 182-228 2-46 (70)
26 PF13740 ACT_6: ACT domain; PD 95.3 0.18 3.8E-06 37.2 8.6 63 181-251 3-65 (76)
27 PRK00275 glnD PII uridylyl-tra 95.2 0.19 4.1E-06 53.5 11.5 79 169-252 801-885 (895)
28 PRK01759 glnD PII uridylyl-tra 94.6 0.24 5.2E-06 52.4 10.3 79 169-252 770-853 (854)
29 cd04893 ACT_GcvR_1 ACT domains 94.6 0.42 9.1E-06 35.3 8.8 63 181-251 2-64 (77)
30 PRK04374 PII uridylyl-transfer 94.5 0.37 7.9E-06 51.2 11.5 79 169-252 783-866 (869)
31 PRK00194 hypothetical protein; 94.4 0.24 5.2E-06 37.2 7.4 65 181-251 4-68 (90)
32 PRK05092 PII uridylyl-transfer 94.4 0.4 8.6E-06 51.1 11.4 79 169-252 830-914 (931)
33 PRK01759 glnD PII uridylyl-tra 94.0 0.59 1.3E-05 49.5 11.7 79 169-252 664-748 (854)
34 PRK03381 PII uridylyl-transfer 93.9 0.51 1.1E-05 49.5 10.9 74 170-248 695-772 (774)
35 PRK03059 PII uridylyl-transfer 93.9 0.51 1.1E-05 50.0 11.0 78 170-252 774-854 (856)
36 TIGR01693 UTase_glnD [Protein- 93.8 0.42 9E-06 50.4 10.1 78 170-252 656-740 (850)
37 cd04872 ACT_1ZPV ACT domain pr 93.7 0.39 8.5E-06 36.1 7.3 64 182-251 3-66 (88)
38 cd04875 ACT_F4HF-DF N-terminal 93.6 0.52 1.1E-05 34.1 7.7 64 183-251 2-66 (74)
39 cd04869 ACT_GcvR_2 ACT domains 93.6 0.75 1.6E-05 33.5 8.5 62 183-251 2-69 (81)
40 TIGR01693 UTase_glnD [Protein- 93.5 0.56 1.2E-05 49.4 10.5 78 170-252 767-849 (850)
41 PRK05007 PII uridylyl-transfer 93.5 0.85 1.9E-05 48.5 11.9 79 169-252 688-772 (884)
42 PRK00275 glnD PII uridylyl-tra 92.9 0.87 1.9E-05 48.5 10.9 69 179-252 703-777 (895)
43 PF13291 ACT_4: ACT domain; PD 92.8 0.87 1.9E-05 33.3 7.8 62 181-249 7-70 (80)
44 cd04870 ACT_PSP_1 CT domains f 92.6 1.2 2.7E-05 32.4 8.4 57 190-251 7-63 (75)
45 COG2844 GlnD UTP:GlnB (protein 92.6 0.53 1.1E-05 49.6 8.5 75 169-249 778-854 (867)
46 PRK03059 PII uridylyl-transfer 92.2 0.98 2.1E-05 47.9 10.2 77 170-252 666-749 (856)
47 KOG4447 Transcription factor T 91.9 0.065 1.4E-06 45.8 0.9 59 78-137 73-131 (173)
48 KOG2588 Predicted DNA-binding 91.5 0.098 2.1E-06 55.4 1.8 63 81-145 274-336 (953)
49 cd04888 ACT_PheB-BS C-terminal 91.2 1.6 3.5E-05 31.0 7.6 63 182-250 2-65 (76)
50 PRK04374 PII uridylyl-transfer 91.0 1.8 3.8E-05 46.2 10.6 70 178-252 688-759 (869)
51 PRK05092 PII uridylyl-transfer 90.8 2.4 5.1E-05 45.4 11.4 79 169-252 719-804 (931)
52 cd04887 ACT_MalLac-Enz ACT_Mal 90.1 3.2 7E-05 29.4 8.3 54 192-250 9-63 (74)
53 cd04886 ACT_ThrD-II-like C-ter 89.8 2.9 6.2E-05 28.7 7.6 55 191-250 7-66 (73)
54 PRK04435 hypothetical protein; 88.8 3.1 6.6E-05 34.9 8.3 68 177-250 66-134 (147)
55 cd04879 ACT_3PGDH-like ACT_3PG 88.6 3.9 8.4E-05 27.8 7.6 52 191-250 8-61 (71)
56 cd04874 ACT_Af1403 N-terminal 88.1 4.3 9.3E-05 27.9 7.6 60 182-250 2-62 (72)
57 KOG3910 Helix loop helix trans 88.0 0.3 6.5E-06 48.8 2.0 63 80-142 523-586 (632)
58 cd02116 ACT ACT domains are co 86.9 5.3 0.00012 24.5 7.3 37 192-228 8-46 (60)
59 cd04880 ACT_AAAH-PDT-like ACT 86.4 5.2 0.00011 28.8 7.4 38 191-228 8-46 (75)
60 cd04905 ACT_CM-PDT C-terminal 85.9 7.5 0.00016 28.4 8.2 38 191-228 10-48 (80)
61 cd04876 ACT_RelA-SpoT ACT dom 84.9 6.5 0.00014 25.7 6.9 55 191-250 7-62 (71)
62 PRK13011 formyltetrahydrofolat 84.4 5.7 0.00012 36.9 8.4 67 180-251 7-73 (286)
63 cd04882 ACT_Bt0572_2 C-termina 84.4 6.5 0.00014 26.8 6.8 50 191-250 8-59 (65)
64 cd04883 ACT_AcuB C-terminal AC 84.3 12 0.00025 26.2 8.6 58 183-250 4-63 (72)
65 cd04877 ACT_TyrR N-terminal AC 83.8 4.1 8.8E-05 29.5 5.8 58 183-250 3-60 (74)
66 cd04903 ACT_LSD C-terminal ACT 82.1 13 0.00029 25.2 7.8 52 191-250 8-61 (71)
67 COG2844 GlnD UTP:GlnB (protein 80.9 7.4 0.00016 41.4 8.4 77 171-252 675-755 (867)
68 cd04878 ACT_AHAS N-terminal AC 80.7 15 0.00033 24.9 7.6 54 191-250 9-64 (72)
69 cd04884 ACT_CBS C-terminal ACT 79.7 15 0.00032 26.2 7.5 55 191-250 8-65 (72)
70 cd04902 ACT_3PGDH-xct C-termin 79.7 9.6 0.00021 26.6 6.4 52 191-250 8-61 (73)
71 PRK06027 purU formyltetrahydro 79.5 14 0.0003 34.3 9.0 66 180-251 6-73 (286)
72 PRK08577 hypothetical protein; 78.5 15 0.00032 30.0 8.0 65 180-250 56-122 (136)
73 PRK13010 purU formyltetrahydro 78.5 11 0.00024 35.1 8.1 67 180-251 9-77 (289)
74 cd04894 ACT_ACR-like_1 ACT dom 77.4 18 0.00039 26.9 7.2 66 182-251 2-67 (69)
75 cd04909 ACT_PDH-BS C-terminal 77.4 17 0.00038 25.3 7.2 53 191-250 10-64 (69)
76 cd04901 ACT_3PGDH C-terminal A 76.2 4 8.8E-05 28.3 3.6 53 190-250 7-59 (69)
77 KOG3898 Transcription factor N 76.0 1.4 3.1E-05 40.3 1.5 55 83-137 72-126 (254)
78 PF05088 Bac_GDH: Bacterial NA 75.2 16 0.00035 41.5 9.5 68 180-252 489-561 (1528)
79 cd04908 ACT_Bt0572_1 N-termina 75.0 25 0.00055 24.6 7.5 50 191-250 10-59 (66)
80 COG3830 ACT domain-containing 74.1 7.1 0.00015 30.6 4.7 59 190-252 11-69 (90)
81 TIGR00655 PurU formyltetrahydr 72.7 26 0.00057 32.4 8.9 62 183-250 3-66 (280)
82 PRK07334 threonine dehydratase 69.4 28 0.00061 33.4 8.7 63 181-250 327-394 (403)
83 cd04889 ACT_PDH-BS-like C-term 69.3 26 0.00057 23.5 6.3 38 191-228 7-45 (56)
84 PF13710 ACT_5: ACT domain; PD 68.9 31 0.00066 24.6 6.8 55 192-252 2-58 (63)
85 cd04881 ACT_HSDH-Hom ACT_HSDH_ 68.7 35 0.00076 23.4 8.2 44 183-228 3-48 (79)
86 cd04904 ACT_AAAH ACT domain of 66.8 33 0.00071 24.9 6.7 38 191-228 9-47 (74)
87 KOG4395 Transcription factor A 65.7 8.8 0.00019 35.6 4.1 58 81-138 172-229 (285)
88 KOG3559 Transcriptional regula 65.6 5.6 0.00012 39.3 3.0 46 88-133 6-52 (598)
89 cd04912 ACT_AKiii-LysC-EC-like 63.7 53 0.0012 23.7 7.7 36 191-228 13-48 (75)
90 PRK00227 glnD PII uridylyl-tra 63.0 43 0.00094 35.1 9.1 66 182-252 548-613 (693)
91 KOG4447 Transcription factor T 61.9 7.8 0.00017 33.4 2.9 51 86-136 25-77 (173)
92 COG4492 PheB ACT domain-contai 60.8 44 0.00096 28.3 7.0 67 180-250 70-137 (150)
93 cd04931 ACT_PAH ACT domain of 58.2 79 0.0017 24.3 7.7 45 182-228 16-61 (90)
94 cd04922 ACT_AKi-HSDH-ThrA_2 AC 57.7 53 0.0011 22.2 6.2 38 191-228 13-50 (66)
95 cd04890 ACT_AK-like_1 ACT doma 57.0 59 0.0013 22.1 6.6 35 192-228 13-47 (62)
96 PRK11589 gcvR glycine cleavage 56.2 59 0.0013 28.5 7.5 66 181-251 96-165 (190)
97 PRK11589 gcvR glycine cleavage 55.0 41 0.00088 29.5 6.3 64 180-251 8-71 (190)
98 cd04892 ACT_AK-like_2 ACT doma 54.3 59 0.0013 21.2 6.0 26 192-217 13-38 (65)
99 cd04918 ACT_AK1-AT_2 ACT domai 52.7 68 0.0015 22.4 6.2 37 192-228 13-49 (65)
100 cd04868 ACT_AK-like ACT domain 52.5 59 0.0013 20.7 5.8 36 193-228 14-49 (60)
101 TIGR00119 acolac_sm acetolacta 51.1 93 0.002 26.5 7.7 55 191-251 10-66 (157)
102 KOG3558 Hypoxia-inducible fact 50.8 8.8 0.00019 40.1 1.7 48 82-132 45-96 (768)
103 cd04919 ACT_AK-Hom3_2 ACT doma 50.4 78 0.0017 21.5 6.2 37 192-228 14-50 (66)
104 PRK11895 ilvH acetolactate syn 47.4 1.2E+02 0.0026 25.9 7.9 38 191-228 11-50 (161)
105 PRK10872 relA (p)ppGpp synthet 43.5 1E+02 0.0022 32.7 8.1 62 182-250 668-731 (743)
106 TIGR00691 spoT_relA (p)ppGpp s 41.9 1.1E+02 0.0025 31.8 8.1 61 182-249 612-673 (683)
107 cd04885 ACT_ThrD-I Tandem C-te 41.7 68 0.0015 22.6 4.8 52 191-250 7-61 (68)
108 cd04916 ACT_AKiii-YclM-BS_2 AC 41.1 1.1E+02 0.0024 20.6 6.1 36 192-227 14-49 (66)
109 cd04929 ACT_TPH ACT domain of 40.9 1.4E+02 0.0031 21.9 7.1 38 191-228 9-47 (74)
110 cd04923 ACT_AK-LysC-DapG-like_ 37.2 1.2E+02 0.0026 19.9 6.8 26 191-216 12-37 (63)
111 PF02120 Flg_hook: Flagellar h 37.2 1.2E+02 0.0027 21.9 5.7 49 170-218 27-79 (85)
112 KOG3560 Aryl-hydrocarbon recep 36.5 26 0.00055 36.0 2.4 39 94-132 36-75 (712)
113 PF14689 SPOB_a: Sensor_kinase 36.4 69 0.0015 22.8 4.0 41 92-142 17-57 (62)
114 PRK11092 bifunctional (p)ppGpp 36.1 1.6E+02 0.0034 31.0 8.1 61 182-249 628-689 (702)
115 cd04921 ACT_AKi-HSDH-ThrA-like 36.0 1.6E+02 0.0034 20.9 6.1 37 192-228 14-50 (80)
116 PF07485 DUF1529: Domain of Un 34.7 1.6E+02 0.0035 24.1 6.5 49 195-252 69-120 (123)
117 PRK08198 threonine dehydratase 34.6 2E+02 0.0043 27.5 8.1 63 181-250 328-395 (404)
118 cd04932 ACT_AKiii-LysC-EC_1 AC 34.2 1.9E+02 0.004 21.2 6.5 35 192-228 14-48 (75)
119 COG3074 Uncharacterized protei 33.9 75 0.0016 24.0 3.9 27 124-150 13-39 (79)
120 CHL00100 ilvH acetohydroxyacid 33.7 1.9E+02 0.004 25.1 7.0 56 191-252 11-68 (174)
121 PF13840 ACT_7: ACT domain ; P 33.4 72 0.0016 22.6 3.7 23 192-214 20-42 (65)
122 cd04935 ACT_AKiii-DAPDC_1 ACT 32.9 2E+02 0.0042 21.0 7.6 35 192-228 14-48 (75)
123 PF06005 DUF904: Protein of un 32.7 88 0.0019 23.3 4.2 26 123-148 12-37 (72)
124 cd04937 ACT_AKi-DapG-BS_2 ACT 31.6 1E+02 0.0022 21.4 4.2 24 191-214 13-36 (64)
125 cd04933 ACT_AK1-AT_1 ACT domai 31.5 2.2E+02 0.0048 21.2 7.1 35 192-228 14-48 (78)
126 TIGR01127 ilvA_1Cterm threonin 30.4 2.7E+02 0.0059 26.3 8.2 56 190-250 313-373 (380)
127 cd04936 ACT_AKii-LysC-BS-like_ 30.3 1.6E+02 0.0035 19.3 6.8 26 191-216 12-37 (63)
128 PF00170 bZIP_1: bZIP transcri 30.3 77 0.0017 22.4 3.4 22 128-149 25-46 (64)
129 cd04906 ACT_ThrD-I_1 First of 29.5 2.3E+02 0.0051 20.9 6.9 53 190-250 9-64 (85)
130 PRK14637 hypothetical protein; 29.4 3E+02 0.0065 23.2 7.4 54 195-251 10-64 (151)
131 cd04930 ACT_TH ACT domain of t 29.2 2.7E+02 0.0058 22.3 6.8 38 191-228 50-88 (115)
132 cd04924 ACT_AK-Arch_2 ACT doma 29.1 1.8E+02 0.0039 19.4 5.4 37 192-228 14-50 (66)
133 PF14992 TMCO5: TMCO5 family 29.0 79 0.0017 29.7 4.1 31 117-147 139-169 (280)
134 PF05687 DUF822: Plant protein 28.9 36 0.00077 29.1 1.7 29 80-108 8-36 (150)
135 PF08946 Osmo_CC: Osmosensory 28.6 82 0.0018 21.8 3.1 20 131-150 21-40 (46)
136 PF02344 Myc-LZ: Myc leucine z 28.1 46 0.001 21.3 1.7 19 89-107 11-29 (32)
137 PRK15422 septal ring assembly 27.7 1.1E+02 0.0024 23.4 4.1 27 124-150 13-39 (79)
138 smart00338 BRLZ basic region l 26.9 91 0.002 22.0 3.4 24 127-150 24-47 (65)
139 PRK14639 hypothetical protein; 26.2 2.6E+02 0.0056 23.2 6.4 49 200-251 4-53 (140)
140 cd04911 ACT_AKiii-YclM-BS_1 AC 25.9 1.3E+02 0.0029 22.6 4.2 35 192-228 14-48 (76)
141 PRK06382 threonine dehydratase 25.6 3.1E+02 0.0067 26.4 7.8 56 190-250 338-398 (406)
142 cd04910 ACT_AK-Ectoine_1 ACT d 24.9 2.9E+02 0.0063 20.4 6.0 47 194-250 16-62 (71)
143 cd04934 ACT_AK-Hom3_1 CT domai 24.6 2.1E+02 0.0045 20.8 5.0 35 192-228 14-48 (73)
144 PTZ00324 glutamate dehydrogena 23.7 4.7E+02 0.01 28.9 9.2 79 169-250 216-299 (1002)
145 PRK06635 aspartate kinase; Rev 23.1 5E+02 0.011 24.6 8.6 49 179-228 261-310 (404)
146 cd04913 ACT_AKii-LysC-BS-like_ 22.8 2.5E+02 0.0054 18.9 7.7 26 191-216 11-36 (75)
147 PF09789 DUF2353: Uncharacteri 22.7 2.5E+02 0.0054 26.9 6.3 35 116-150 66-100 (319)
148 PRK15385 magnesium transport p 21.8 5.1E+02 0.011 23.5 7.9 65 180-249 142-210 (225)
149 PRK11152 ilvM acetolactate syn 21.1 3.6E+02 0.0078 20.1 7.6 54 191-251 12-67 (76)
150 PRK11899 prephenate dehydratas 21.1 5.2E+02 0.011 24.0 8.0 57 190-251 202-259 (279)
151 PRK14640 hypothetical protein; 20.7 3.8E+02 0.0083 22.5 6.5 48 201-251 14-62 (152)
152 KOG3896 Dynactin, subunit p62 20.2 1E+02 0.0023 30.0 3.2 26 122-147 139-164 (449)
153 PF13224 DUF4032: Domain of un 20.1 2.2E+02 0.0048 24.7 4.9 35 194-228 19-53 (165)
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=99.34 E-value=1e-12 Score=92.27 Aligned_cols=53 Identities=28% Similarity=0.382 Sum_probs=48.5
Q ss_pred ccccchHHHHHHHHHHHhcHhhhhccCCCC--CcCCCCchhhhHHHHHHHHHHHH
Q 039361 83 KMILRKDIERQRRQHLSMLHASLRSLLPLQ--SITGKRSISDHINEARNYINYLN 135 (253)
Q Consensus 83 kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~--~~k~K~Sis~il~eAI~YIKeLq 135 (253)
++..|+..||.||..||..|..|+.+||.. ....|.|.+++|..||+||++||
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 477899999999999999999999999996 25668899999999999999997
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=99.34 E-value=1.2e-12 Score=92.29 Aligned_cols=58 Identities=29% Similarity=0.366 Sum_probs=52.4
Q ss_pred cccccchHHHHHHHHHHHhcHhhhhccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHH
Q 039361 82 KKMILRKDIERQRRQHLSMLHASLRSLLPLQSITGKRSISDHINEARNYINYLNKNIQ 139 (253)
Q Consensus 82 ~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k~K~Sis~il~eAI~YIKeLq~rVk 139 (253)
.++..|+..||+||.+||..|..|+++||......|.|.+++|..||+||+.|+..++
T Consensus 3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 5688999999999999999999999999998655677888889999999999998763
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.32 E-value=2.6e-12 Score=88.95 Aligned_cols=52 Identities=33% Similarity=0.432 Sum_probs=46.4
Q ss_pred hHHHHHHHHHHHhcHhhhhccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHH
Q 039361 88 KDIERQRRQHLSMLHASLRSLLPLQSITGKRSISDHINEARNYINYLNKNIQ 139 (253)
Q Consensus 88 ~~~ERqRR~kMn~lf~~LRSLLP~~~~k~K~Sis~il~eAI~YIKeLq~rVk 139 (253)
+..||+||.+||+.|..|+++||......|.|.+++|.+||+||++|+++++
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 3689999999999999999999976545677888889999999999999876
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=98.23 E-value=1.9e-06 Score=83.13 Aligned_cols=63 Identities=21% Similarity=0.317 Sum_probs=53.0
Q ss_pred CcccccccchHHHHHHHHHHHhcHhhhhccCCCCCcC-CCCchhhhHHHHHHHHHHHHHHHHHH
Q 039361 79 NNNKKMILRKDIERQRRQHLSMLHASLRSLLPLQSIT-GKRSISDHINEARNYINYLNKNIQEL 141 (253)
Q Consensus 79 ~~~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k-~K~Sis~il~eAI~YIKeLq~rVkeL 141 (253)
-...||.+|+++||+||.++|++.-.|.-|||..+.- .|+.+..|+.-+++||++||+..+..
T Consensus 229 rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~ 292 (411)
T KOG1318|consen 229 RDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRA 292 (411)
T ss_pred HHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHH
Confidence 3567899999999999999999999999999977422 25556777999999999999887743
No 5
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.93 E-value=2.5e-05 Score=70.51 Aligned_cols=66 Identities=21% Similarity=0.244 Sum_probs=54.9
Q ss_pred CcccccccchHHHHHHHHHHHhcHhhhhccCCCCCcCCCCc-hhhhHHHHHHHHHHHHHHHHHHHHhH
Q 039361 79 NNNKKMILRKDIERQRRQHLSMLHASLRSLLPLQSITGKRS-ISDHINEARNYINYLNKNIQELGLKR 145 (253)
Q Consensus 79 ~~~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k~K~S-is~il~eAI~YIKeLq~rVkeLe~kK 145 (253)
+..+.+..|++-||.||-+++..|..|+-+||...- .|++ .+.+|..|..||+.|+.+..+.+...
T Consensus 55 ~~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~-~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~ 121 (232)
T KOG2483|consen 55 SAASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNG-ETRSTTLSILDKALEHIQSLERKSATQQQDI 121 (232)
T ss_pred CCCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCC-cchhhhhHhhhhHHHHHHHHHhHHHHHHHHH
Confidence 455678999999999999999999999999998753 3344 68899999999999998776665443
No 6
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=97.79 E-value=3.7e-05 Score=67.31 Aligned_cols=65 Identities=18% Similarity=0.268 Sum_probs=56.2
Q ss_pred ccccccchHHHHHHHHHHHhcHhhhhccCCCCCcCC----CCchhhhHHHHHHHHHHHHHHHHHHHHhH
Q 039361 81 NKKMILRKDIERQRRQHLSMLHASLRSLLPLQSITG----KRSISDHINEARNYINYLNKNIQELGLKR 145 (253)
Q Consensus 81 ~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k~----K~Sis~il~eAI~YIKeLq~rVkeLe~kK 145 (253)
+.+|..|-.+||+||.-+|.-|..|.-|||.-...+ |.|.+-||-.||+||-.|...+.+-+.+-
T Consensus 60 ~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~ 128 (229)
T KOG1319|consen 60 DRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEV 128 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345889999999999999999999999999765544 88999999999999999998877666543
No 7
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.57 E-value=5.6e-05 Score=67.44 Aligned_cols=64 Identities=31% Similarity=0.380 Sum_probs=57.2
Q ss_pred cccccccchHHHHHHHHHHHhcHhhhhccCCCCCc-CCCCchhhhHHHHHHHHHHHHHHHHHHHH
Q 039361 80 NNKKMILRKDIERQRRQHLSMLHASLRSLLPLQSI-TGKRSISDHINEARNYINYLNKNIQELGL 143 (253)
Q Consensus 80 ~~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~-k~K~Sis~il~eAI~YIKeLq~rVkeLe~ 143 (253)
....+..+++.||+|=+.+|..|..||.+||.... ..|.|.-++|-.||.||+.|++-++.-+.
T Consensus 106 ~~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~ 170 (228)
T KOG4029|consen 106 TSAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEA 170 (228)
T ss_pred hhhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhccccc
Confidence 45678889999999999999999999999999887 67889999999999999999998776664
No 8
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=97.46 E-value=0.00012 Score=76.06 Aligned_cols=62 Identities=21% Similarity=0.366 Sum_probs=52.9
Q ss_pred CCCCcccccccchHHHHHHHHHHHhcHhhhhccCCCCC-cCCCCchhhhHHHHHHHHHHHHHH
Q 039361 76 SDNNNNKKMILRKDIERQRRQHLSMLHASLRSLLPLQS-ITGKRSISDHINEARNYINYLNKN 137 (253)
Q Consensus 76 ~~~~~~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~-~k~K~Sis~il~eAI~YIKeLq~r 137 (253)
+++...+++..|..+||+||.|||.+...|.+|||.-. .-+|.|...||-.||.+||.+++.
T Consensus 13 ~d~k~r~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 13 SDSKDRKKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred ccchhhhccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence 35566678999999999999999999999999999765 234667788899999999998874
No 9
>cd04895 ACT_ACR_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.44 E-value=0.0016 Score=48.67 Aligned_cols=62 Identities=8% Similarity=0.036 Sum_probs=48.6
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccH----HHHHHHH
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDL----RVLQLKL 248 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~----~~l~~kL 248 (253)
.|+|.+. .++++|++|..+|.++||+|..|-+++.|+++.-+|.+ .-.++..++- ..|+++|
T Consensus 3 viev~a~--DRpGLL~~i~~~l~~~gl~I~~AkIsT~Gerv~DvFyV---~d~~g~kl~d~~~~~~l~~~L 68 (72)
T cd04895 3 LVKVDSA--RKPGILLEAVQVLTDLDLCITKAYISSDGGWFMDVFHV---TDQLGNKLTDDSLIAYIEKSL 68 (72)
T ss_pred EEEEEEC--CcCCHHHHHHHHHHHCCcEEEEEEEeecCCeEEEEEEE---ECCCCCCCCCHHHHHHHHHHh
Confidence 4566674 56889999999999999999999999999999999998 5555545543 3444444
No 10
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.43 E-value=0.00024 Score=54.86 Aligned_cols=56 Identities=23% Similarity=0.339 Sum_probs=48.8
Q ss_pred HHHHhcHhhhhccCCCCCc---CCCCchhhhHHHHHHHHHHHHHHHHHHHHhHHHhhhh
Q 039361 96 QHLSMLHASLRSLLPLQSI---TGKRSISDHINEARNYINYLNKNIQELGLKRDKLKNL 151 (253)
Q Consensus 96 ~kMn~lf~~LRSLLP~~~~---k~K~Sis~il~eAI~YIKeLq~rVkeLe~kK~~l~~~ 151 (253)
.+|+++.+.|+.|||.... .+|+|-+-+|.|+-+||+.|+..|..|.++-.+|...
T Consensus 20 dqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL~t 78 (93)
T PLN03217 20 DQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELLAN 78 (93)
T ss_pred HHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 6899999999999998632 3588999999999999999999999999987776643
No 11
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD is the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted tyrosine kinase. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.41 E-value=0.0019 Score=47.28 Aligned_cols=66 Identities=15% Similarity=0.145 Sum_probs=49.1
Q ss_pred eEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee-CCeEEEEEEeeccccCCCccccH----HHHHHHHHhh
Q 039361 181 VEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT-DEGFFHTIQAEESQVGDLTCVDL----RVLQLKLDHS 251 (253)
Q Consensus 181 veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-~~~~~~tI~a~~~kv~~~~~id~----~~l~~kL~~~ 251 (253)
.+|.+.|. .++++|+++..+|..+|++|++|.+.+. ++.++-+|.. .-.++..++. .+|+++|.++
T Consensus 2 ~~i~v~~~--Dr~gLl~~i~~~l~~~~l~I~~A~i~T~~~~~v~D~F~v---~~~~~~~~~~~~~~~~l~~~L~~~ 72 (73)
T cd04900 2 TEVFIYTP--DRPGLFARIAGALDQLGLNILDARIFTTRDGYALDTFVV---LDPDGEPIGERERLARIREALEDA 72 (73)
T ss_pred EEEEEEec--CCCCHHHHHHHHHHHCCCCeEEeEEEEeCCCeEEEEEEE---ECCCCCCCChHHHHHHHHHHHHhh
Confidence 36777774 4678999999999999999999999877 6899999998 5444434432 3455555544
No 12
>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=97.39 E-value=0.0018 Score=48.84 Aligned_cols=66 Identities=9% Similarity=0.053 Sum_probs=53.6
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcccc----HHHHHHHHHhhh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVD----LRVLQLKLDHSI 252 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id----~~~l~~kL~~~I 252 (253)
.|+|.|. .++++|.+|..+|-++|++|.+|.+++.++++.-+|.. .-.+|..+. ..+|+++|.+++
T Consensus 3 vveV~~~--DRpGLL~~i~~~l~~~~l~I~~A~I~T~gera~D~FyV---~d~~g~kl~~~~~~~~l~~~L~~al 72 (75)
T cd04897 3 VVTVQCR--DRPKLLFDVVCTLTDMDYVVFHATIDTDGDDAHQEYYI---RHKDGRTLSTEGERQRVIKCLEAAI 72 (75)
T ss_pred EEEEEeC--CcCcHHHHHHHHHHhCCeEEEEEEEeecCceEEEEEEE---EcCCCCccCCHHHHHHHHHHHHHHH
Confidence 3667774 56889999999999999999999999999999999998 666554443 347777777765
No 13
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=97.27 E-value=0.00011 Score=66.93 Aligned_cols=63 Identities=17% Similarity=0.261 Sum_probs=54.8
Q ss_pred CCCcccccccchHHHHHHHHHHHhcHhhhhccCCCCCcC-----CCCchhhhHHHHHHHHHHHHHHHH
Q 039361 77 DNNNNKKMILRKDIERQRRQHLSMLHASLRSLLPLQSIT-----GKRSISDHINEARNYINYLNKNIQ 139 (253)
Q Consensus 77 ~~~~~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k-----~K~Sis~il~eAI~YIKeLq~rVk 139 (253)
......+|..+-..||+||-.||+.+..|+.|||...++ .|...++||.=|++|++.|+....
T Consensus 26 ~~~~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 26 SKTRQYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred hhhHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence 344567899999999999999999999999999988877 377788899999999999987643
No 14
>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=97.22 E-value=0.0046 Score=46.04 Aligned_cols=66 Identities=12% Similarity=0.001 Sum_probs=49.2
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeee-eCCeEEEEEEeeccccCCCcccc---HHHHHHHHHhhh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQ-TDEGFFHTIQAEESQVGDLTCVD---LRVLQLKLDHSI 252 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~-~~~~~~~tI~a~~~kv~~~~~id---~~~l~~kL~~~I 252 (253)
.++|.|. .++++|+++..+|..+|++|++|.+++ .|+.++-+|.+ .-.++...+ ..+|+++|.+++
T Consensus 2 ~~ei~~~--Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V---~d~~~~~~~~~~~~~l~~~L~~~L 71 (76)
T cd04927 2 LLKLFCS--DRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFI---TDARELLHTKKRREETYDYLRAVL 71 (76)
T ss_pred EEEEEEC--CCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEE---eCCCCCCCCHHHHHHHHHHHHHHH
Confidence 5677774 467899999999999999999999996 89999999998 443333112 335666665543
No 15
>cd04896 ACT_ACR-like_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.06 E-value=0.0069 Score=45.69 Aligned_cols=66 Identities=11% Similarity=0.069 Sum_probs=51.4
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEee--eeCCeEEEEEEeeccccCCCcccc---HHHHHHHHHhhh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCAST--QTDEGFFHTIQAEESQVGDLTCVD---LRVLQLKLDHSI 252 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS--~~~~~~~~tI~a~~~kv~~~~~id---~~~l~~kL~~~I 252 (253)
.|+|+|. .++++|++|..+|.++|++|.+|-++ +.|+++.-+|.. ...+..-.| ...|+++|.+++
T Consensus 2 vlev~a~--DRpGLL~~i~~~l~~~~l~i~~AkI~~~T~Gerv~D~Fyv---~~~g~kl~d~~~~~~L~~~L~~~l 72 (75)
T cd04896 2 LLQIRCV--DQKGLLYDILRTSKDCNIQISYGRFSSKVKGYREVDLFIV---QSDGKKIMDPKKQAALCARLREEM 72 (75)
T ss_pred EEEEEeC--CcccHHHHHHHHHHHCCeEEEEEEEecCcccCEEEEEEEE---eCCCCccCCHHHHHHHHHHHHHHh
Confidence 3567774 56889999999999999999999999 999998888887 544432123 457888887764
No 16
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_ACR-UUR-like_2, includes the second of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the second and fourth ACT domains of a novel protein composed almost entirely of ACT domain repeats, the ACR protein. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.00 E-value=0.011 Score=41.88 Aligned_cols=65 Identities=15% Similarity=0.168 Sum_probs=48.8
Q ss_pred EEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccH---HHHHHHHHhhh
Q 039361 183 IVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDL---RVLQLKLDHSI 252 (253)
Q Consensus 183 I~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~---~~l~~kL~~~I 252 (253)
|.+.+. .+++.|.+++.+|.++|+.|+++.+.+.++.++.+|.+ +-.++..++. .+|+++|.++|
T Consensus 3 l~v~~~--d~~gll~~i~~~l~~~~~~I~~~~~~~~~~~~~~~f~i---~~~~~~~~~~~~~~~i~~~l~~~~ 70 (70)
T cd04899 3 LELTAL--DRPGLLADVTRVLAELGLNIHSAKIATLGERAEDVFYV---TDADGQPLDPERQEALRAALGEAL 70 (70)
T ss_pred EEEEEc--CCccHHHHHHHHHHHCCCeEEEEEEEecCCEEEEEEEE---ECCCCCcCCHHHHHHHHHHHHhhC
Confidence 455553 45778999999999999999999999888899999998 6555433333 35777776653
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=96.96 E-value=0.011 Score=43.32 Aligned_cols=64 Identities=17% Similarity=0.147 Sum_probs=46.6
Q ss_pred eEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 181 VEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 181 veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+|.|.+. .++++|++|..+|.++|++|+++.+.+.++..+.+|++ .-.++..++.+ ..++|.+
T Consensus 2 tri~V~~~--D~~Gll~~i~~~l~~~~lnI~sa~i~t~~~~~~d~f~v---~~~~~~~~~~~-~~~~l~~ 65 (72)
T cd04926 2 VRLELRTE--DRVGLLSDVTRVFRENGLTVTRAEISTQGDMAVNVFYV---TDANGNPVDPK-TIEAVRQ 65 (72)
T ss_pred eEEEEEEC--CccCHHHHHHHHHHHCCcEEEEEEEecCCCeEEEEEEE---ECCCCCcCCHH-HHHHHHH
Confidence 45666664 45789999999999999999999998888888889988 54444334433 3334443
No 18
>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=96.80 E-value=0.017 Score=42.84 Aligned_cols=64 Identities=16% Similarity=0.145 Sum_probs=52.0
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeee-eCCeEEEEEEeeccccCCCccccHHHHHHHHHhhh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQ-TDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHSI 252 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~-~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~I 252 (253)
+|.|.+. .++++|+++..+|..+||+|++|.+.+ .+|.++-+|.+ . +..+=+...|.++|.+++
T Consensus 3 eI~V~~~--Dr~gLFa~iag~L~~~~LnI~~A~i~tt~dG~~LDtF~V---~--d~~~~~~~~~~~~~~~~~ 67 (68)
T cd04928 3 EITFAAG--DKPKLLSQLSSLLGDLGLNIAEAHAFSTDDGLALDIFVV---T--GWKRGETAALGHALQKEI 67 (68)
T ss_pred EEEEEEC--CCcchHHHHHHHHHHCCCceEEEEEEEcCCCeEEEEEEE---e--cCCccchHHHHHHHHHhh
Confidence 6777774 468899999999999999999999875 57889999988 4 333457888999998775
No 19
>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=96.69 E-value=0.023 Score=41.90 Aligned_cols=65 Identities=15% Similarity=0.196 Sum_probs=50.0
Q ss_pred EEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCC-Cccc-c---HHHHHHHHHhhh
Q 039361 183 IVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGD-LTCV-D---LRVLQLKLDHSI 252 (253)
Q Consensus 183 I~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~-~~~i-d---~~~l~~kL~~~I 252 (253)
|++.+. .++++|++|-.+|.++|+.|++|.+++.|+.++-+|.+ .-.+ +..+ + ..+|++.|.+++
T Consensus 3 ~~v~~~--Dr~gLl~~i~~~l~~~~lnI~~A~i~t~~~~~~d~f~V---~d~~~~~~~~~~~~~~~i~~~L~~~l 72 (74)
T cd04925 3 IELTGT--DRPGLLSEVFAVLADLHCNVVEARAWTHNGRLACVIYV---RDEETGAPIDDPIRLASIEDRLDNVL 72 (74)
T ss_pred EEEEEC--CCCCHHHHHHHHHHHCCCcEEEEEEEEECCEEEEEEEE---EcCcCCCCCCCHHHHHHHHHHHHHHh
Confidence 556663 46889999999999999999999999999999999998 4322 2222 2 457777777765
No 20
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=96.57 E-value=0.0014 Score=61.23 Aligned_cols=51 Identities=33% Similarity=0.406 Sum_probs=44.3
Q ss_pred HHHHHHHHHHhcHhhhhccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHH
Q 039361 90 IERQRRQHLSMLHASLRSLLPLQSITGKRSISDHINEARNYINYLNKNIQEL 141 (253)
Q Consensus 90 ~ERqRR~kMn~lf~~LRSLLP~~~~k~K~Sis~il~eAI~YIKeLq~rVkeL 141 (253)
-||+|=+-+|.-|.+||+|||.. -..|.|.+.||..+.+||.+|+..--+|
T Consensus 67 NERRRMQSINAGFqsLr~LlPr~-eGEKLSKAAILQQTa~yI~~Le~~Kt~l 117 (373)
T KOG0561|consen 67 NERRRMQSINAGFQSLRALLPRK-EGEKLSKAAILQQTADYIHQLEGHKTEL 117 (373)
T ss_pred hHHHHHHhhhHHHHHHHHhcCcc-cchhhHHHHHHHHHHHHHHHHHhccccc
Confidence 69999999999999999999975 3468999999999999999998764443
No 21
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=96.03 E-value=0.015 Score=53.19 Aligned_cols=59 Identities=19% Similarity=0.187 Sum_probs=46.5
Q ss_pred hHHHHHHHHHHHhcHhhhh-ccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHHHHhHHHh
Q 039361 88 KDIERQRRQHLSMLHASLR-SLLPLQSITGKRSISDHINEARNYINYLNKNIQELGLKRDKL 148 (253)
Q Consensus 88 ~~~ERqRR~kMn~lf~~LR-SLLP~~~~k~K~Sis~il~eAI~YIKeLq~rVkeLe~kK~~l 148 (253)
-+.||+|=+|.|+.|.+|. .-.+++.. +.....||-.||.||..||.-++++.+....+
T Consensus 123 TMRERRRLkKVNEAFE~LKRrT~~NPNQ--RLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~ 182 (284)
T KOG3960|consen 123 TMRERRRLKKVNEAFETLKRRTSSNPNQ--RLPKVEILRSAIRYIERLQALLQEQDQAEKGL 182 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCccc--cccHHHHHHHHHHHHHHHHHHHHHhhccchhh
Confidence 4579999999999999995 34454442 44556779999999999999999998766544
No 22
>PRK05007 PII uridylyl-transferase; Provisional
Probab=95.62 E-value=0.083 Score=55.98 Aligned_cols=79 Identities=13% Similarity=0.144 Sum_probs=59.8
Q ss_pred CceEEEEEe--CCeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcccc---HHH
Q 039361 169 QNCVTIHPY--SGGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVD---LRV 243 (253)
Q Consensus 169 ~p~V~V~~~--~~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id---~~~ 243 (253)
++.|.+... +.-..|+|++. .++++|++|..+|.++|++|.+|-++|.|+++.-+|.+ .-.++..++ ...
T Consensus 795 ~~~V~~d~~~s~~~TvlEV~a~--DRpGLL~~I~~~l~~~~l~I~~AkI~T~gera~DvFyV---~~~~g~~l~~~~~~~ 869 (884)
T PRK05007 795 PTEVSFLPTHTDRRSYMELIAL--DQPGLLARVGKIFADLGISLHGARITTIGERVEDLFIL---ATADRRALNEELQQE 869 (884)
T ss_pred CCEEEEccCCCCCeEEEEEEeC--CchHHHHHHHHHHHHCCcEEEEEEEeccCceEEEEEEE---EcCCCCcCCHHHHHH
Confidence 456666532 23567788884 56899999999999999999999999999999999988 544554555 346
Q ss_pred HHHHHHhhh
Q 039361 244 LQLKLDHSI 252 (253)
Q Consensus 244 l~~kL~~~I 252 (253)
|+++|..++
T Consensus 870 l~~~L~~~l 878 (884)
T PRK05007 870 LRQRLTEAL 878 (884)
T ss_pred HHHHHHHHH
Confidence 677776654
No 23
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=95.58 E-value=0.2 Score=34.49 Aligned_cols=60 Identities=18% Similarity=0.261 Sum_probs=44.0
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCC--e-EEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDE--G-FFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~--~-~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
.|.+.|. .+++.|.+|..+|.++|+.|.++.....++ . ++.++.. ..-+...+.++|.++
T Consensus 2 ~v~v~~~--drpG~l~~v~~~la~~~inI~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~l~~~ 64 (66)
T PF01842_consen 2 RVRVIVP--DRPGILADVTEILADHGINIDSISQSSDKDGVGIVFIVIVV--------DEEDLEKLLEELEAL 64 (66)
T ss_dssp EEEEEEE--TSTTHHHHHHHHHHHTTEEEEEEEEEEESSTTEEEEEEEEE--------EGHGHHHHHHHHHHH
T ss_pred EEEEEcC--CCCCHHHHHHHHHHHcCCCHHHeEEEecCCCceEEEEEEEC--------CCCCHHHHHHHHHcc
Confidence 3556664 457899999999999999999999998876 3 3333333 345677788887765
No 24
>PRK03381 PII uridylyl-transferase; Provisional
Probab=95.55 E-value=0.12 Score=53.92 Aligned_cols=78 Identities=18% Similarity=0.086 Sum_probs=61.4
Q ss_pred ceEEEEEe-CCeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHH
Q 039361 170 NCVTIHPY-SGGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKL 248 (253)
Q Consensus 170 p~V~V~~~-~~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL 248 (253)
|.|.+... .+.++|.|.|. .++++|++|..+|..+|++|++|++.+.||.++-+|.+ .-..+......+|++.|
T Consensus 588 ~~v~~~~~~~~~~~V~V~~~--DrpGLfa~i~~vL~~~glnI~dA~i~t~dg~~ld~F~V---~~~~~~~~~~~~l~~~L 662 (774)
T PRK03381 588 VHVEIAPADPHMVEVTVVAP--DRRGLLSKAAGVLALHRLRVRSASVRSHDGVAVLEFVV---SPRFGSPPDAALLRQDL 662 (774)
T ss_pred CEEEEeeCCCCeEEEEEEec--CCccHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEE---ECCCCCcchHHHHHHHH
Confidence 45555432 36788888874 56889999999999999999999999988999999999 65555445567888888
Q ss_pred Hhhh
Q 039361 249 DHSI 252 (253)
Q Consensus 249 ~~~I 252 (253)
.+++
T Consensus 663 ~~~L 666 (774)
T PRK03381 663 RRAL 666 (774)
T ss_pred HHHH
Confidence 8764
No 25
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=95.54 E-value=0.19 Score=35.08 Aligned_cols=45 Identities=11% Similarity=0.171 Sum_probs=37.2
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.|.+.|. .+++.|.++..+|.++|+.|.++.+.+.++.....|++
T Consensus 2 ~l~i~~~--d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~~~v 46 (70)
T cd04873 2 VVEVYAP--DRPGLLADITRVLADLGLNIHDARISTTGERALDVFYV 46 (70)
T ss_pred EEEEEeC--CCCCHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEE
Confidence 3556664 45778999999999999999999998877777778888
No 26
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=95.34 E-value=0.18 Score=37.22 Aligned_cols=63 Identities=13% Similarity=0.117 Sum_probs=50.2
Q ss_pred eEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 181 VEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 181 veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
+.|.+.+. .+++.++.+..+|.+.|.++..+..++.++.+...+.+ .+. .-+.++|+..|.++
T Consensus 3 ~vItv~G~--DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v---~~~---~~~~~~l~~~L~~l 65 (76)
T PF13740_consen 3 LVITVVGP--DRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLV---SIP---EDSLERLESALEEL 65 (76)
T ss_dssp EEEEEEEE----TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEE---EES---HHHHHHHHHHHHHH
T ss_pred EEEEEEec--CCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEE---EeC---cccHHHHHHHHHHH
Confidence 45666664 45889999999999999999999999999999999988 555 22778888888765
No 27
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=95.20 E-value=0.19 Score=53.45 Aligned_cols=79 Identities=15% Similarity=0.026 Sum_probs=60.5
Q ss_pred CceEEEEEeC--CeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcccc----HH
Q 039361 169 QNCVTIHPYS--GGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVD----LR 242 (253)
Q Consensus 169 ~p~V~V~~~~--~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id----~~ 242 (253)
+|.|.+.... +..+|.|.+. .++++|++|..+|..+|++|++|.+++.|++++-+|.+ .-.++..+. ..
T Consensus 801 ~~~V~i~~~~~~~~T~i~V~a~--DrpGLLa~I~~~L~~~~l~I~~AkI~T~g~~v~D~F~V---~d~~g~~l~~~~~~~ 875 (895)
T PRK00275 801 PTQVTISNDAQRPVTVLEIIAP--DRPGLLARIGRIFLEFDLSLQNAKIATLGERVEDVFFI---TDADNQPLSDPQLCS 875 (895)
T ss_pred CCEEEEEECCCCCeEEEEEEEC--CCCCHHHHHHHHHHHCCCEEEEeEEEecCCEEEEEEEE---ECCCCCCCCCHHHHH
Confidence 3667666543 3567777774 56889999999999999999999999999999999999 554544332 34
Q ss_pred HHHHHHHhhh
Q 039361 243 VLQLKLDHSI 252 (253)
Q Consensus 243 ~l~~kL~~~I 252 (253)
+|+++|.+++
T Consensus 876 ~l~~~L~~~L 885 (895)
T PRK00275 876 RLQDAICEQL 885 (895)
T ss_pred HHHHHHHHHH
Confidence 6778777664
No 28
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=94.57 E-value=0.24 Score=52.38 Aligned_cols=79 Identities=14% Similarity=0.098 Sum_probs=59.6
Q ss_pred CceEEEEEeCC--eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcccc---HHH
Q 039361 169 QNCVTIHPYSG--GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVD---LRV 243 (253)
Q Consensus 169 ~p~V~V~~~~~--~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id---~~~ 243 (253)
+|.|.+....+ -..|+|.+. .++++|++|..+|.++|++|.+|-++|.++++.-+|.+ .-.++..++ ..+
T Consensus 770 ~~~V~~dn~~s~~~T~iev~a~--DrpGLL~~I~~~l~~~~l~i~~AkI~T~gerv~D~Fyv---~~~~g~~l~~~~~~~ 844 (854)
T PRK01759 770 KTEVRFLNEEKQEQTEMELFAL--DRAGLLAQVSQVFSELNLNLLNAKITTIGEKAEDFFIL---TNQQGQALDEEERKA 844 (854)
T ss_pred CCEEEEccCCCCCeEEEEEEeC--CchHHHHHHHHHHHHCCCEEEEEEEcccCceEEEEEEE---ECCCCCcCChHHHHH
Confidence 46666643322 467788884 56889999999999999999999999999999988888 444443333 367
Q ss_pred HHHHHHhhh
Q 039361 244 LQLKLDHSI 252 (253)
Q Consensus 244 l~~kL~~~I 252 (253)
|+++|.+++
T Consensus 845 l~~~L~~~l 853 (854)
T PRK01759 845 LKSRLLSNL 853 (854)
T ss_pred HHHHHHHHh
Confidence 777777665
No 29
>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=94.56 E-value=0.42 Score=35.35 Aligned_cols=63 Identities=16% Similarity=0.103 Sum_probs=51.0
Q ss_pred eEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 181 VEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 181 veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
+.|.+.|+ .+++...+|-..|.+.|..++.++....++.+++.+.. .+.. .+.+.|+++|..+
T Consensus 2 ~iltv~g~--Dr~GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~---~~~~---~~~~~l~~~l~~~ 64 (77)
T cd04893 2 LVISALGT--DRPGILNELTRAVSESGCNILDSRMAILGTEFALTMLV---EGSW---DAIAKLEAALPGL 64 (77)
T ss_pred EEEEEEeC--CCChHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEE---Eecc---ccHHHHHHHHHHH
Confidence 34566774 45788999999999999999999999999999998888 5442 3678888887754
No 30
>PRK04374 PII uridylyl-transferase; Provisional
Probab=94.51 E-value=0.37 Score=51.22 Aligned_cols=79 Identities=14% Similarity=0.031 Sum_probs=60.1
Q ss_pred CceEEEEEeCC--eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcccc---HHH
Q 039361 169 QNCVTIHPYSG--GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVD---LRV 243 (253)
Q Consensus 169 ~p~V~V~~~~~--~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id---~~~ 243 (253)
+|.|.+....+ -..|+|.+. .++++|++|-.+|.++|++|++|.+++.|+++.-+|.+ .-.++..++ ..+
T Consensus 783 ~~~V~~~~~~~~~~t~leI~a~--DrpGLLa~Ia~~l~~~~l~I~~AkI~T~g~~a~D~F~V---~d~~g~~~~~~~~~~ 857 (869)
T PRK04374 783 APRVEFSESAGGRRTRISLVAP--DRPGLLADVAHVLRMQHLRVHDARIATFGERAEDQFQI---TDEHDRPLSESARQA 857 (869)
T ss_pred CCeEEEeecCCCCeEEEEEEeC--CcCcHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEE---ECCCCCcCChHHHHH
Confidence 46677765333 467777774 46889999999999999999999999999999999998 544443332 357
Q ss_pred HHHHHHhhh
Q 039361 244 LQLKLDHSI 252 (253)
Q Consensus 244 l~~kL~~~I 252 (253)
|+++|.+++
T Consensus 858 l~~~L~~~l 866 (869)
T PRK04374 858 LRDALCACL 866 (869)
T ss_pred HHHHHHHHh
Confidence 777777665
No 31
>PRK00194 hypothetical protein; Validated
Probab=94.42 E-value=0.24 Score=37.24 Aligned_cols=65 Identities=14% Similarity=0.171 Sum_probs=50.6
Q ss_pred eEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 181 VEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 181 veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
+.|.+.|. .+++.+.+|...|-++|++|++.+..+.++.++..+.+ .... ...+.+.|++.|.++
T Consensus 4 ~~ltv~g~--DrpGiva~vt~~la~~g~nI~~~~~~~~~~~~~~~~~v---~~~~-~~~~~~~l~~~l~~l 68 (90)
T PRK00194 4 AIITVIGK--DKVGIIAGVSTVLAELNVNILDISQTIMDGYFTMIMLV---DISE-SKKDFAELKEELEEL 68 (90)
T ss_pred EEEEEEcC--CCCCHHHHHHHHHHHcCCCEEehhhHhhCCeeEEEEEE---EecC-CCCCHHHHHHHHHHH
Confidence 45667774 46889999999999999999999988888877777777 5433 245678888877654
No 32
>PRK05092 PII uridylyl-transferase; Provisional
Probab=94.35 E-value=0.4 Score=51.14 Aligned_cols=79 Identities=13% Similarity=-0.005 Sum_probs=60.7
Q ss_pred CceEEEEEeCC--eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcccc----HH
Q 039361 169 QNCVTIHPYSG--GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVD----LR 242 (253)
Q Consensus 169 ~p~V~V~~~~~--~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id----~~ 242 (253)
+|.|.+....+ ...|.|.+. .++++|++|..+|.++|++|.+|.+++.++++.-+|.+ .-.++..+. ..
T Consensus 830 ~~~V~~~~~~s~~~t~i~I~~~--DrpGLl~~I~~~l~~~gl~I~~A~I~T~~~~~~D~F~v---~d~~g~~i~~~~~~~ 904 (931)
T PRK05092 830 PPRVTIDNEASNRFTVIEVNGR--DRPGLLYDLTRALSDLNLNIASAHIATYGERAVDVFYV---TDLFGLKITNEARQA 904 (931)
T ss_pred CCEEEEeeCCCCCeEEEEEEEC--CcCcHHHHHHHHHHHCCceEEEEEEEEcCCEEEEEEEE---eCCCCCcCCCHHHHH
Confidence 46677765433 467777774 46889999999999999999999999999999999999 554543332 35
Q ss_pred HHHHHHHhhh
Q 039361 243 VLQLKLDHSI 252 (253)
Q Consensus 243 ~l~~kL~~~I 252 (253)
+|+++|.+++
T Consensus 905 ~l~~~L~~~L 914 (931)
T PRK05092 905 AIRRALLAAL 914 (931)
T ss_pred HHHHHHHHHh
Confidence 6788887765
No 33
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=94.00 E-value=0.59 Score=49.51 Aligned_cols=79 Identities=16% Similarity=0.182 Sum_probs=58.5
Q ss_pred CceEEEEEe--CCeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeee-eCCeEEEEEEeeccccCCCccccHH---
Q 039361 169 QNCVTIHPY--SGGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQ-TDEGFFHTIQAEESQVGDLTCVDLR--- 242 (253)
Q Consensus 169 ~p~V~V~~~--~~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~-~~~~~~~tI~a~~~kv~~~~~id~~--- 242 (253)
.|.|.+... .+..+|.|.+. .++++|++|..+|..+|++|++|.+.+ .+|.++-+|.+ .-.++..++.+
T Consensus 664 ~~~V~i~~~~~~~~t~V~V~~~--DrpGLfa~Ia~~L~~~~L~I~~A~I~T~~~g~alD~F~V---~d~~g~~~~~~~~~ 738 (854)
T PRK01759 664 DLLVKISNRFSRGGTEIFIYCQ--DQANLFLKVVSTIGAKKLSIHDAQIITSQDGYVLDSFIV---TELNGKLLEFDRRR 738 (854)
T ss_pred CCEEEEEecCCCCeEEEEEEec--CCccHHHHHHHHHHHCCCeEEEEEEEEccCCEEEEEEEE---eCCCCCCCCHHHHH
Confidence 366666543 34678888884 468899999999999999999999876 89999999998 54454444433
Q ss_pred HHHHHHHhhh
Q 039361 243 VLQLKLDHSI 252 (253)
Q Consensus 243 ~l~~kL~~~I 252 (253)
+|++.|.+++
T Consensus 739 ~l~~~L~~aL 748 (854)
T PRK01759 739 QLEQALTKAL 748 (854)
T ss_pred HHHHHHHHHH
Confidence 5666666654
No 34
>PRK03381 PII uridylyl-transferase; Provisional
Probab=93.89 E-value=0.51 Score=49.45 Aligned_cols=74 Identities=8% Similarity=0.022 Sum_probs=54.7
Q ss_pred ceEEEEEeCC--eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcccc--HHHHH
Q 039361 170 NCVTIHPYSG--GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVD--LRVLQ 245 (253)
Q Consensus 170 p~V~V~~~~~--~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id--~~~l~ 245 (253)
+.|.+....+ ...|+|.+. .++++|++|..+|.++|++|++|.+++.|++++-+|.+ .-.++..+. ...|+
T Consensus 695 ~~v~~~~~~~~~~t~i~V~a~--DrpGLla~Ia~~L~~~~lnI~~AkI~T~g~~a~D~F~V---~d~~g~~~~~~~~~l~ 769 (774)
T PRK03381 695 PRVLWLDGASPDATVLEVRAA--DRPGLLARLARALERAGVDVRWARVATLGADVVDVFYV---TGAAGGPLADARAAVE 769 (774)
T ss_pred cEEEEEECCCCCeEEEEEEeC--CchhHHHHHHHHHHHCCCeEEEEEEeecCCeEEEEEEE---ECCCCCcCchHHHHHH
Confidence 4565654433 467777773 56889999999999999999999999999999999999 655554443 33444
Q ss_pred HHH
Q 039361 246 LKL 248 (253)
Q Consensus 246 ~kL 248 (253)
++|
T Consensus 770 ~~L 772 (774)
T PRK03381 770 QAV 772 (774)
T ss_pred HHh
Confidence 443
No 35
>PRK03059 PII uridylyl-transferase; Provisional
Probab=93.86 E-value=0.51 Score=49.99 Aligned_cols=78 Identities=13% Similarity=0.038 Sum_probs=58.1
Q ss_pred ceEEEEEeC--CeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCC-ccccHHHHHH
Q 039361 170 NCVTIHPYS--GGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDL-TCVDLRVLQL 246 (253)
Q Consensus 170 p~V~V~~~~--~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~-~~id~~~l~~ 246 (253)
+.|.+.... +..+|+|.+. .++++|++|-.+|..+|++|++|.+++.|++++-+|.+ .-... ..-...+|++
T Consensus 774 ~~V~~~~~~~~~~T~i~V~a~--DrpGLLa~Ia~~L~~~~l~I~~AkI~T~~~~v~DvF~V---~~~~~~~~~~~~~l~~ 848 (856)
T PRK03059 774 PRVDLRPDERGQYYILSVSAN--DRPGLLYAIARVLAEHRVSVHTAKINTLGERVEDTFLI---DGSGLSDNRLQIQLET 848 (856)
T ss_pred ceEEEEEcCCCCEEEEEEEeC--CcchHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEE---cCCCCCCHHHHHHHHH
Confidence 556665432 3567777774 56889999999999999999999999999999999988 42221 1123457888
Q ss_pred HHHhhh
Q 039361 247 KLDHSI 252 (253)
Q Consensus 247 kL~~~I 252 (253)
+|.+++
T Consensus 849 ~L~~~L 854 (856)
T PRK03059 849 ELLDAL 854 (856)
T ss_pred HHHHHh
Confidence 887765
No 36
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=93.76 E-value=0.42 Score=50.38 Aligned_cols=78 Identities=21% Similarity=0.086 Sum_probs=58.0
Q ss_pred ceEEEEE--eCCeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEee-eeCCeEEEEEEeeccccCCCcccc----HH
Q 039361 170 NCVTIHP--YSGGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCAST-QTDEGFFHTIQAEESQVGDLTCVD----LR 242 (253)
Q Consensus 170 p~V~V~~--~~~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS-~~~~~~~~tI~a~~~kv~~~~~id----~~ 242 (253)
|.|.+.. ..+..+|.|.+. .++++|++|..+|..+|++|++|.++ +.|+.++-+|.+ +-.++..++ ..
T Consensus 656 ~~v~~~~~~~~~~t~i~V~~~--DrpgLla~i~~~L~~~~l~I~~A~I~tt~~g~~lD~F~V---~~~~g~~~~~~~~~~ 730 (850)
T TIGR01693 656 PLALIDGTRPSGGTEVFIYAP--DQPGLFAKVAGALAMLSLSVHDAQVNTTKDGVALDTFVV---QDLFGSPPAAERVFQ 730 (850)
T ss_pred CEEEEeccCCCCeEEEEEEeC--CCCcHHHHHHHHHHHCCCeEEEEEEEEecCCEEEEEEEE---ECCCCCCCCcHHHHH
Confidence 4555533 234678888884 56889999999999999999999988 678999999999 665554443 33
Q ss_pred HHHHHHHhhh
Q 039361 243 VLQLKLDHSI 252 (253)
Q Consensus 243 ~l~~kL~~~I 252 (253)
+|++.|.+++
T Consensus 731 ~i~~~L~~~L 740 (850)
T TIGR01693 731 ELLQGLVDVL 740 (850)
T ss_pred HHHHHHHHHH
Confidence 5667776654
No 37
>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=93.66 E-value=0.39 Score=36.11 Aligned_cols=64 Identities=16% Similarity=0.197 Sum_probs=50.5
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
.|.+.|+ .+++.+++|...|-++|+++++++..+.++.++..+.+ .... ...+.++|++.|..+
T Consensus 3 vl~i~g~--D~pGiva~vt~~la~~g~nI~~~~~~~~~~~f~~~~~v---~~~~-~~~~~~~L~~~l~~l 66 (88)
T cd04872 3 VITVVGK--DRVGIVAGVSTKLAELNVNILDISQTIMDGYFTMIMIV---DISE-SNLDFAELQEELEEL 66 (88)
T ss_pred EEEEEcC--CCCCHHHHHHHHHHHcCCCEEechhHhhCCccEEEEEE---EeCC-CCCCHHHHHHHHHHH
Confidence 4666674 46889999999999999999999988888888777777 5432 246788888887754
No 38
>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=93.64 E-value=0.52 Score=34.12 Aligned_cols=64 Identities=6% Similarity=0.035 Sum_probs=44.2
Q ss_pred EEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcc-ccHHHHHHHHHhh
Q 039361 183 IVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTC-VDLRVLQLKLDHS 251 (253)
Q Consensus 183 I~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~-id~~~l~~kL~~~ 251 (253)
|.+.|. .+++.+.+|-..|-++|+.+++.+..+..+.-.+.+.+ ++..+.. ++...|+++|..+
T Consensus 2 i~v~g~--D~~Giv~~it~~l~~~g~nI~~~~~~~~~~~~~f~~~~---~~~~~~~~~~~~~l~~~l~~l 66 (74)
T cd04875 2 LTLSCP--DRPGIVAAVSGFLAEHGGNIVESDQFVDPDSGRFFMRV---EFELEGFDLSREALEAAFAPV 66 (74)
T ss_pred EEEEcC--CCCCHHHHHHHHHHHcCCCEEeeeeeecCCCCeEEEEE---EEEeCCCCCCHHHHHHHHHHH
Confidence 455564 45788999999999999999999888532212234444 4444332 6788999888754
No 39
>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=93.56 E-value=0.75 Score=33.45 Aligned_cols=62 Identities=10% Similarity=0.114 Sum_probs=47.5
Q ss_pred EEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeC------CeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 183 IVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTD------EGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 183 I~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~------~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
|.+.|. .+++.+.+|-+.|.++|+++.+.+..+.+ +.++..+.+ .+. ..++..+++..|..+
T Consensus 2 l~v~g~--D~~Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v---~~p--~~~~~~~l~~~l~~l 69 (81)
T cd04869 2 VEVVGN--DRPGIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATL---ALP--AGTDLDALREELEEL 69 (81)
T ss_pred EEEEeC--CCCCHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEE---ecC--CCCCHHHHHHHHHHH
Confidence 445563 45788999999999999999999998877 566666666 443 356888998888754
No 40
>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=93.51 E-value=0.56 Score=49.44 Aligned_cols=78 Identities=17% Similarity=0.018 Sum_probs=58.0
Q ss_pred ceEEEEEeCC--eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcccc---HHHH
Q 039361 170 NCVTIHPYSG--GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVD---LRVL 244 (253)
Q Consensus 170 p~V~V~~~~~--~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id---~~~l 244 (253)
|.|++....+ ...|.|.+. .+++.|++|..+|.++|++|.++.+++.+++..-+|.+ ....+..++ ...|
T Consensus 767 ~~V~~d~~~s~~~t~~~v~~~--DrpGll~~i~~~l~~~~~~i~~a~i~t~~~~~~d~F~v---~~~~g~~~~~~~~~~l 841 (850)
T TIGR01693 767 PRVTILNTASRKATIMEVRAL--DRPGLLARVGRTLEELGLSIQSAKITTFGEKAEDVFYV---TDLFGLKLTDEEEQRL 841 (850)
T ss_pred CeEEEccCCCCCeEEEEEEEC--CccHHHHHHHHHHHHCCCeEEEEEEEecCccceeEEEE---ECCCCCCCCHHHHHHH
Confidence 5566654333 466777774 56889999999999999999999999999998888888 555443333 4567
Q ss_pred HHHHHhhh
Q 039361 245 QLKLDHSI 252 (253)
Q Consensus 245 ~~kL~~~I 252 (253)
+++|.+++
T Consensus 842 ~~~L~~~l 849 (850)
T TIGR01693 842 LEVLAASV 849 (850)
T ss_pred HHHHHHHh
Confidence 77776654
No 41
>PRK05007 PII uridylyl-transferase; Provisional
Probab=93.47 E-value=0.85 Score=48.50 Aligned_cols=79 Identities=19% Similarity=0.198 Sum_probs=57.3
Q ss_pred CceEEEEEeC--CeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee-CCeEEEEEEeeccccCCCccccH---H
Q 039361 169 QNCVTIHPYS--GGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT-DEGFFHTIQAEESQVGDLTCVDL---R 242 (253)
Q Consensus 169 ~p~V~V~~~~--~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-~~~~~~tI~a~~~kv~~~~~id~---~ 242 (253)
.|.|.+.... +..+|.|.|. .++++|++|..+|..+|++|++|.+.+. +|.++-+|.+ .-.++..++. .
T Consensus 688 ~p~V~i~~~~~~~~t~V~V~a~--DrpGLfa~Ia~~La~~~L~I~~A~I~T~~dg~alD~F~V---~d~~g~~~~~~~~~ 762 (884)
T PRK05007 688 KPLVLLSKQATRGGTEIFIWSP--DRPYLFAAVCAELDRRNLSVHDAQIFTSRDGMAMDTFIV---LEPDGSPLSQDRHQ 762 (884)
T ss_pred CCeEEEEecCCCCeEEEEEEec--CCcCHHHHHHHHHHHCCCEEEEEEEEEcCCCeEEEEEEE---ECCCCCCCCHHHHH
Confidence 3666665433 4778888774 5688999999999999999999997765 5688888888 5555444443 3
Q ss_pred HHHHHHHhhh
Q 039361 243 VLQLKLDHSI 252 (253)
Q Consensus 243 ~l~~kL~~~I 252 (253)
+|++.|.+++
T Consensus 763 ~I~~~L~~aL 772 (884)
T PRK05007 763 VIRKALEQAL 772 (884)
T ss_pred HHHHHHHHHH
Confidence 4677776654
No 42
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=92.92 E-value=0.87 Score=48.53 Aligned_cols=69 Identities=14% Similarity=0.183 Sum_probs=52.9
Q ss_pred CeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEe-eeeCCeEEEEEEeeccccCCCccc--c---HHHHHHHHHhhh
Q 039361 179 GGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCAS-TQTDEGFFHTIQAEESQVGDLTCV--D---LRVLQLKLDHSI 252 (253)
Q Consensus 179 ~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsass-S~~~~~~~~tI~a~~~kv~~~~~i--d---~~~l~~kL~~~I 252 (253)
+..+|.|.|. .++++|+++..+|..+|++|++|.+ |+.+|.++-+|.+ .-.++..+ + ..+|++.|.+++
T Consensus 703 ~~t~V~V~~~--DrpgLFa~i~g~L~~~~lnI~~A~I~Tt~dg~alD~F~V---~d~~g~~~~~~~~r~~~i~~~L~~~L 777 (895)
T PRK00275 703 GGTQIFIYAP--DQHDFFAATVAAMDQLNLNIHDARIITSSSQFTLDTYIV---LDDDGEPIGDNPARIEQIREGLTEAL 777 (895)
T ss_pred CeEEEEEEeC--CCCcHHHHHHHHHHHCCCeEEEEEEEEcCCCeEEEEEEE---eCCCCCCccchHHHHHHHHHHHHHHH
Confidence 5788888884 5688999999999999999999997 5678888889998 55555432 2 234667776654
No 43
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=92.76 E-value=0.87 Score=33.30 Aligned_cols=62 Identities=21% Similarity=0.268 Sum_probs=44.1
Q ss_pred eEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee--CCeEEEEEEeeccccCCCccccHHHHHHHHH
Q 039361 181 VEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT--DEGFFHTIQAEESQVGDLTCVDLRVLQLKLD 249 (253)
Q Consensus 181 veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~--~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~ 249 (253)
+.+.+.+. .+++.|.+|..++.+.|+.+.+++.... ++.....|.+ ++.+. -....|-++|.
T Consensus 7 ~~l~i~~~--dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v---~V~d~--~~L~~ii~~L~ 70 (80)
T PF13291_consen 7 VRLRIEAE--DRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTV---EVKDL--EHLNQIIRKLR 70 (80)
T ss_dssp EEEEEEEE----TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEE---EESSH--HHHHHHHHHHC
T ss_pred EEEEEEEE--cCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEE---EECCH--HHHHHHHHHHH
Confidence 34445553 4578999999999999999999999984 6788888998 66553 24445555554
No 44
>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=92.62 E-value=1.2 Score=32.36 Aligned_cols=57 Identities=14% Similarity=0.115 Sum_probs=46.1
Q ss_pred CCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 190 KEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 190 ~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
..+++...++-++|-++|+++.+.+.++.++.+...+.+ .. +..++..+|++.|..+
T Consensus 7 ~DrpGiv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~~v---~~--p~~~~~~~l~~~l~~l 63 (75)
T cd04870 7 PDRPGLTSALTEVLAAHGVRILDVGQAVIHGRLSLGILV---QI--PDSADSEALLKDLLFK 63 (75)
T ss_pred CCCCCHHHHHHHHHHHCCCCEEecccEEEcCeeEEEEEE---Ec--CCCCCHHHHHHHHHHH
Confidence 346889999999999999999999988888886666666 43 3346789999988764
No 45
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=92.58 E-value=0.53 Score=49.62 Aligned_cols=75 Identities=16% Similarity=0.123 Sum_probs=57.6
Q ss_pred CceEEEEEeCC--eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHH
Q 039361 169 QNCVTIHPYSG--GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQL 246 (253)
Q Consensus 169 ~p~V~V~~~~~--~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~ 246 (253)
+|.|++....+ ...+++.+- .++++|+.|-.+|.+++|++++|.++++|+++.-+|.+ ....+..++ .++++
T Consensus 778 ~p~v~i~~t~~~~~t~lEv~al--DRpGLLa~v~~v~~dl~l~i~~AkItT~GErveD~F~v---t~~~~~~l~-~~~~q 851 (867)
T COG2844 778 PPRVTILPTASNDKTVLEVRAL--DRPGLLAALAGVFADLGLSLHSAKITTFGERVEDVFIV---TDADGQALN-AELRQ 851 (867)
T ss_pred CCceeeccccCCCceEEEEEeC--CcccHHHHHHHHHHhcccceeeeeeccccccceeEEEE---eccccccCC-HHHHH
Confidence 47788876543 466777774 45889999999999999999999999999998888888 666665553 34444
Q ss_pred HHH
Q 039361 247 KLD 249 (253)
Q Consensus 247 kL~ 249 (253)
.|.
T Consensus 852 ~l~ 854 (867)
T COG2844 852 SLL 854 (867)
T ss_pred HHH
Confidence 444
No 46
>PRK03059 PII uridylyl-transferase; Provisional
Probab=92.24 E-value=0.98 Score=47.91 Aligned_cols=77 Identities=9% Similarity=0.169 Sum_probs=56.3
Q ss_pred ceEEEEEe--CCeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEee-eeCCeEEEEEEeeccccCCCcccc----HH
Q 039361 170 NCVTIHPY--SGGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCAST-QTDEGFFHTIQAEESQVGDLTCVD----LR 242 (253)
Q Consensus 170 p~V~V~~~--~~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS-~~~~~~~~tI~a~~~kv~~~~~id----~~ 242 (253)
|-|.++.. .+..+|.|.|. .++++|+++..+|..+|++|++|.+. +.+|.++-+|.+ .-.++. +. ..
T Consensus 666 ~~v~~~~~~~~~~~~v~i~~~--d~~gLFa~i~g~l~~~~l~I~~A~i~t~~~g~~ld~f~V---~~~~~~-~~~~~~~~ 739 (856)
T PRK03059 666 PIVRARLSPAGEGLQVMVYTP--DQPDLFARICGYFDRAGFSILDARVHTTRHGYALDTFQV---LDPEED-VHYRDIIN 739 (856)
T ss_pred CeEEEEecCCCCeEEEEEEec--CCCcHHHHHHHHHHHCCCceeeeEEEEcCCCeEEEEEEE---eCCCCC-CChHHHHH
Confidence 44445443 35789988884 56889999999999999999999984 578999999998 544443 22 34
Q ss_pred HHHHHHHhhh
Q 039361 243 VLQLKLDHSI 252 (253)
Q Consensus 243 ~l~~kL~~~I 252 (253)
+|++.|.+++
T Consensus 740 ~i~~~l~~~l 749 (856)
T PRK03059 740 LVEHELAERL 749 (856)
T ss_pred HHHHHHHHHH
Confidence 5666666553
No 47
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=91.92 E-value=0.065 Score=45.82 Aligned_cols=59 Identities=29% Similarity=0.411 Sum_probs=50.0
Q ss_pred CCcccccccchHHHHHHHHHHHhcHhhhhccCCCCCcCCCCchhhhHHHHHHHHHHHHHH
Q 039361 78 NNNNKKMILRKDIERQRRQHLSMLHASLRSLLPLQSITGKRSISDHINEARNYINYLNKN 137 (253)
Q Consensus 78 ~~~~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k~K~Sis~il~eAI~YIKeLq~r 137 (253)
++-.+++..|+.-||||-+-+|+.|.+||-.+|-.. -+|.|..-.|.-|.-||.-|-+=
T Consensus 73 dE~q~qrv~anvrerqRtqsLn~AF~~lr~iiptlP-sdklSkiqtLklA~ryidfl~~v 131 (173)
T KOG4447|consen 73 DELQKQRVMANVRERQRTQSLNEAFAALRKIIPTLP-SDKLSKIQTLKLAARYIDFLYQV 131 (173)
T ss_pred HHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCC-ccccccccchhhcccCCchhhhc
Confidence 344478999999999999999999999999999775 47888877788888898877653
No 48
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=91.49 E-value=0.098 Score=55.39 Aligned_cols=63 Identities=25% Similarity=0.281 Sum_probs=52.8
Q ss_pred ccccccchHHHHHHHHHHHhcHhhhhccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHHHHhH
Q 039361 81 NKKMILRKDIERQRRQHLSMLHASLRSLLPLQSITGKRSISDHINEARNYINYLNKNIQELGLKR 145 (253)
Q Consensus 81 ~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k~K~Sis~il~eAI~YIKeLq~rVkeLe~kK 145 (253)
..+|..|+.+|++=|--+|++...|+-+||..-. |...+..+.-||+||.+|+..-+.|....
T Consensus 274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~a--Kl~kSavLr~ai~~i~dl~~~nq~lk~~~ 336 (953)
T KOG2588|consen 274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEA--KLNKSAVLRKAIDYIEDLQGYNQKLKLEN 336 (953)
T ss_pred CcccchhhHHHHHhhcchhHHHHHHHHhcCccHh--hhhhhhhHHHHHHHHHHhhccccccchhh
Confidence 5789999999999999999999999999997654 33446669999999999998776665443
No 49
>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=91.24 E-value=1.6 Score=31.04 Aligned_cols=63 Identities=16% Similarity=0.091 Sum_probs=42.9
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee-CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT-DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+.+.+. .+++.|.+|+..|.++|+++...+.+.. ++.....|.+ .+.+. .....+|-++|.+
T Consensus 2 ~l~i~~~--d~~g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~~~v---~v~~~-~~~l~~l~~~L~~ 65 (76)
T cd04888 2 TLSLLLE--HRPGVLSKVLNTIAQVRGNVLTINQNIPIHGRANVTISI---DTSTM-NGDIDELLEELRE 65 (76)
T ss_pred EEEEEec--CCCchHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEEEEE---EcCch-HHHHHHHHHHHhc
Confidence 3445553 3467899999999999999999987653 4656666666 44443 2255667777664
No 50
>PRK04374 PII uridylyl-transferase; Provisional
Probab=91.03 E-value=1.8 Score=46.15 Aligned_cols=70 Identities=13% Similarity=0.218 Sum_probs=53.6
Q ss_pred CCeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeee-eCCeEEEEEEeeccccCCCc-cccHHHHHHHHHhhh
Q 039361 178 SGGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQ-TDEGFFHTIQAEESQVGDLT-CVDLRVLQLKLDHSI 252 (253)
Q Consensus 178 ~~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~-~~~~~~~tI~a~~~kv~~~~-~id~~~l~~kL~~~I 252 (253)
.+..+|.|.|. .++++|++|..+|..+|++|++|.+.+ .+|.++-+|.+ .-.++. .-...+|++.|.+++
T Consensus 688 ~~~~~v~v~~~--d~~gLFa~i~g~l~~~~lnI~~A~i~t~~~g~~ld~f~V---~~~~~~~~~~~~~i~~~l~~~l 759 (869)
T PRK04374 688 NDALEVFVYSP--DRDGLFAAIVATLDRKGYGIHRARVLDAPHDAIFDVFEV---LPQDTYADGDPQRLAAALRQVL 759 (869)
T ss_pred CCeEEEEEEeC--CCccHHHHHHHHHHHCCCeEEEEEEEEcCCCEEEEEEEE---eCCCCCChHHHHHHHHHHHHHH
Confidence 35788888884 568899999999999999999999876 68999999998 543332 223445777776654
No 51
>PRK05092 PII uridylyl-transferase; Provisional
Probab=90.81 E-value=2.4 Score=45.36 Aligned_cols=79 Identities=15% Similarity=0.167 Sum_probs=57.4
Q ss_pred CceEEEEEeC--CeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeee-eCCeEEEEEEeeccccCCCccc-c---H
Q 039361 169 QNCVTIHPYS--GGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQ-TDEGFFHTIQAEESQVGDLTCV-D---L 241 (253)
Q Consensus 169 ~p~V~V~~~~--~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~-~~~~~~~tI~a~~~kv~~~~~i-d---~ 241 (253)
++.|.++... +..+|.|.|. .++++|++|..+|..+|++|++|.+.+ .|+.++-+|.+ .-.++..+ + .
T Consensus 719 ~~~v~~~~~~~~~~t~v~I~~~--Dr~GLfa~i~~~L~~~glnI~~A~I~t~~dg~alD~F~V---~~~~g~~~~~~~~~ 793 (931)
T PRK05092 719 PLATEVRPDPARGVTEVTVLAA--DHPGLFSRIAGACAAAGANIVDARIFTTTDGRALDTFWI---QDAFGRDEDEPRRL 793 (931)
T ss_pred CcEEEEEecCCCCeEEEEEEeC--CCCcHHHHHHHHHHHCCCcEEEEEEEEecCCeEEEEEEE---ECCCCCCCCCHHHH
Confidence 3566665543 5788888885 467899999999999999999999876 67888888888 54443222 2 4
Q ss_pred HHHHHHHHhhh
Q 039361 242 RVLQLKLDHSI 252 (253)
Q Consensus 242 ~~l~~kL~~~I 252 (253)
..|++.|.+++
T Consensus 794 ~~l~~~L~~~l 804 (931)
T PRK05092 794 ARLAKAIEDAL 804 (931)
T ss_pred HHHHHHHHHHH
Confidence 56777776553
No 52
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=90.07 E-value=3.2 Score=29.42 Aligned_cols=54 Identities=13% Similarity=0.049 Sum_probs=39.9
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeee-CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQT-DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~-~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
+++.|.+|+.+|.+.|..+.+++.... ++.....|.+ ++.+. -.+..+-++|.+
T Consensus 9 ~~g~L~~i~~~i~~~~~nI~~v~~~~~~~~~~~~~~~v---ev~~~--~~l~~i~~~L~~ 63 (74)
T cd04887 9 RPGMLGRVTTAIGEAGGDIGAIDLVEQGRDYTVRDITV---DAPSE--EHAETIVAAVRA 63 (74)
T ss_pred CCchHHHHHHHHHHcCCcEEEEEEEEecCCEEEEEEEE---EcCCH--HHHHHHHHHHhc
Confidence 467899999999999999999998876 4676677777 55553 234456666554
No 53
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=89.78 E-value=2.9 Score=28.70 Aligned_cols=55 Identities=11% Similarity=0.187 Sum_probs=38.5
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeee-----CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQT-----DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~-----~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.|.+|+.+|.+.|++|.+..+... ++.....|.. ++.+ ..+...+.++|.+
T Consensus 7 d~~G~L~~i~~~i~~~~~nI~~i~~~~~~~~~~~~~~~~~i~v---~~~~--~~~l~~l~~~l~~ 66 (73)
T cd04886 7 DRPGQLAKLLAVIAEAGANIIEVSHDRAFKTLPLGEVEVELTL---ETRG--AEHIEEIIAALRE 66 (73)
T ss_pred CCCChHHHHHHHHHHcCCCEEEEEEEeccCCCCCceEEEEEEE---EeCC--HHHHHHHHHHHHH
Confidence 3567899999999999999999987654 3556666666 4432 2344566666653
No 54
>PRK04435 hypothetical protein; Provisional
Probab=88.78 E-value=3.1 Score=34.86 Aligned_cols=68 Identities=18% Similarity=0.155 Sum_probs=49.9
Q ss_pred eCCeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeee-eCCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 177 YSGGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQ-TDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 177 ~~~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~-~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+..+.+.+... .+++.|++|+..|.+.|++|.+.+.+. .++....+|.+ .+.+. ..++.+|-++|.+
T Consensus 66 ~~r~vtL~i~l~--Dr~GlLs~Il~~IA~~~aNIltI~q~i~~~g~a~vs~tV---evs~~-~~~L~~Li~~L~~ 134 (147)
T PRK04435 66 KGKIITLSLLLE--DRSGTLSKVLNVIAEAGGNILTINQSIPLQGRANVTISI---DTSSM-EGDIDELLEKLRN 134 (147)
T ss_pred CCcEEEEEEEEe--cCCCHHHHHHHHHHHcCCCeEEEEEEcCCCCEEEEEEEE---EeCCh-HHHHHHHHHHHHc
Confidence 455677777664 346789999999999999999998764 46777777888 55443 3366777777764
No 55
>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=88.64 E-value=3.9 Score=27.75 Aligned_cols=52 Identities=10% Similarity=0.058 Sum_probs=38.0
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC--CeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD--EGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~--~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.|.+++..|.+.|+.+.+..+...+ +....++.+ +- .....+.++|.+
T Consensus 8 d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v---~~-----~~~~~l~~~l~~ 61 (71)
T cd04879 8 DVPGVIGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDV---DS-----PVPEEVLEELKA 61 (71)
T ss_pred CCCCHHHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEc---CC-----CCCHHHHHHHHc
Confidence 45678999999999999999999887754 666666665 22 135566666654
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=88.14 E-value=4.3 Score=27.86 Aligned_cols=60 Identities=12% Similarity=0.089 Sum_probs=39.1
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee-CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT-DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
++.+.+ ..+++.|.+++..|.++++.+.+.+.... ++....+|.. .+. .....+.++|.+
T Consensus 2 ~l~i~~--~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~i~~-----~~~--~~~~~~~~~L~~ 62 (72)
T cd04874 2 ALSIIA--EDKPGVLRDLTGVIAEHGGNITYTQQFIEREGKARIYMEL-----EGV--GDIEELVEELRS 62 (72)
T ss_pred eEEEEe--CCCCChHHHHHHHHHhCCCCEEEEEEeccCCCeEEEEEEE-----ecc--ccHHHHHHHHhC
Confidence 344555 34577899999999999999998887665 3444444554 221 244466666653
No 57
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=87.95 E-value=0.3 Score=48.77 Aligned_cols=63 Identities=16% Similarity=0.209 Sum_probs=50.2
Q ss_pred cccccccchHHHHHHHHHHHhcHhhhhccCCCCCcCCC-CchhhhHHHHHHHHHHHHHHHHHHH
Q 039361 80 NNKKMILRKDIERQRRQHLSMLHASLRSLLPLQSITGK-RSISDHINEARNYINYLNKNIQELG 142 (253)
Q Consensus 80 ~~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k~K-~Sis~il~eAI~YIKeLq~rVkeLe 142 (253)
...+|+..++.||-|=+.+|+.|..|--+.=...+.+| ....-||..|+.-|-.|+++|.|-.
T Consensus 523 EkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN 586 (632)
T KOG3910|consen 523 EKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN 586 (632)
T ss_pred HHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence 44778889999999999999999999876644433343 2557779999999999999998744
No 58
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. Members of this CD belong to the superfamily of ACT regulatory domains. Pairs of ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. The ACT domain has been detected in a number of diverse proteins; some of these proteins are involved in amino acid and purine biosynthesis, phenylalanine hydroxylation, regulation of bacterial metabolism and transcription, and many remain to be characterized. ACT domain-containing enzymes involved in amino acid and purine synthesis are in many cases allosteric enzymes with complex regulation enforced by the binding of ligands. The ACT domain is commonly involved in the binding of a small regulatory molecule, such as the amino acids L-Ser and L-Phe in the case of D-3-phosphoglycerate dehydrogenase and the bifunctional chorismate mutase-p
Probab=86.86 E-value=5.3 Score=24.54 Aligned_cols=37 Identities=16% Similarity=0.148 Sum_probs=27.6
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeC--CeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTD--EGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~--~~~~~tI~a 228 (253)
+++.+.+++..|...|+.+........+ +....++..
T Consensus 8 ~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~ 46 (60)
T cd02116 8 RPGLLAKVLSVLAEAGINITSIEQRTSGDGGEADIFIVV 46 (60)
T ss_pred CCchHHHHHHHHHHCCCcEEEEEeEEcCCCCeEEEEEEE
Confidence 4567999999999999999999877653 333344444
No 59
>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=86.38 E-value=5.2 Score=28.79 Aligned_cols=38 Identities=13% Similarity=0.194 Sum_probs=29.7
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeCC-eEEEEEEe
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTDE-GFFHTIQA 228 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~-~~~~tI~a 228 (253)
.+++.|++|+..+.++|+.+.+..+....+ .--|.|..
T Consensus 8 d~pG~L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~f~i 46 (75)
T cd04880 8 NKPGALAKALKVFAERGINLTKIESRPSRKGLWEYEFFV 46 (75)
T ss_pred CcCCHHHHHHHHHHHCCCCEEEEEeeecCCCCceEEEEE
Confidence 357789999999999999999998887544 44455444
No 60
>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=85.89 E-value=7.5 Score=28.43 Aligned_cols=38 Identities=13% Similarity=0.138 Sum_probs=30.7
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC-CeEEEEEEe
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD-EGFFHTIQA 228 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~-~~~~~tI~a 228 (253)
.+++.|++++..+.++|+.+++..+.... +...|.|.+
T Consensus 10 d~~G~L~~il~~f~~~~ini~~i~s~p~~~~~~~~~f~v 48 (80)
T cd04905 10 NKPGALYDVLGVFAERGINLTKIESRPSKGGLWEYVFFI 48 (80)
T ss_pred CCCCHHHHHHHHHHHCCcCEEEEEEEEcCCCCceEEEEE
Confidence 35778999999999999999999877653 456677777
No 61
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=84.93 E-value=6.5 Score=25.67 Aligned_cols=55 Identities=16% Similarity=0.199 Sum_probs=37.2
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC-CeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD-EGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~-~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.+.+++..|.++++++.+......+ +.....+.. .+.+ ..+...+.+.|..
T Consensus 7 ~~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~---~~~~--~~~~~~~~~~l~~ 62 (71)
T cd04876 7 DRPGLLADITTVIAEEKINILSVNTRTDDDGLATIRLTL---EVRD--LEHLARIMRKLRQ 62 (71)
T ss_pred ccCcHHHHHHHHHHhCCCCEEEEEeEECCCCEEEEEEEE---EECC--HHHHHHHHHHHhC
Confidence 34678999999999999999999887655 544444555 3222 2345666666653
No 62
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=84.43 E-value=5.7 Score=36.89 Aligned_cols=67 Identities=9% Similarity=-0.007 Sum_probs=49.0
Q ss_pred eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 180 GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 180 ~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
.+.|.+.|. .+++...+|-+.|-++|+++.+.+..+..+.-+|++.+ .+..+...+...|+++|..+
T Consensus 7 ~~vitv~G~--DrpGIVa~VT~~La~~~vNI~dls~~~~~~~~~F~m~~---~~~~p~~~~~~~L~~~L~~l 73 (286)
T PRK13011 7 TFVLTLSCP--SAAGIVAAVTGFLAEHGCYITELHSFDDRLSGRFFMRV---EFHSEEGLDEDALRAGFAPI 73 (286)
T ss_pred eEEEEEEeC--CCCCHHHHHHHHHHhCCCCEEEeeeeecCCCCeEEEEE---EEecCCCCCHHHHHHHHHHH
Confidence 456777774 56788999999999999999999987433322333556 55544467899999998764
No 63
>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=84.38 E-value=6.5 Score=26.80 Aligned_cols=50 Identities=10% Similarity=0.119 Sum_probs=36.4
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC--CeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD--EGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~--~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.|.+++..|.++|+.|.+...+... +...+.|+. +- ...+.+.|.+
T Consensus 8 d~pG~L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~v---e~-------~~~~~~~L~~ 59 (65)
T cd04882 8 DKPGGLHEILQILSEEGINIEYMYAFVEKKGGKALLIFRT---ED-------IEKAIEVLQE 59 (65)
T ss_pred CCCcHHHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEe---CC-------HHHHHHHHHH
Confidence 45788999999999999999877655443 566667777 21 5566666654
No 64
>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=84.34 E-value=12 Score=26.23 Aligned_cols=58 Identities=10% Similarity=0.229 Sum_probs=39.8
Q ss_pred EEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee--CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 183 IVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT--DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 183 I~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~--~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
+.+.. ..+++.|.+++..|.+.|+.+.+...... ++.....|+. .. .+...+.+.|.+
T Consensus 4 ~~v~~--~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v---~~-----~~~~~~~~~L~~ 63 (72)
T cd04883 4 IEVRV--PDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRV---QT-----MNPRPIIEDLRR 63 (72)
T ss_pred EEEEE--CCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEE---ec-----CCHHHHHHHHHH
Confidence 44444 34567899999999999999998865443 4566677777 33 233477777654
No 65
>cd04877 ACT_TyrR N-terminal ACT domain of the TyrR protein. ACT_TyrR: N-terminal ACT domain of the TyrR protein. The TyrR protein of Escherichia coli controls the expression of a group of transcription units (TyrR regulon) whose gene products are involved in the biosynthesis or transport of the aromatic amino acids. Binding to specific DNA sequences known as TyrR boxes, the TyrR protein can either activate or repress transcription at different sigma70 promoters. Its regulatory activity occurs in response to intracellular levels of tyrosine, phenylalanine and tryptophan. The TyrR protein consists of an N-terminal region important for transcription activation with an ATP-independent aromatic amino acid binding site (contained within the ACT domain) and is involved in dimerization; a central region with an ATP binding site, an ATP-dependent aromatic amino acid binding site and is involved in hexamerization; and a helix turn helix DNA binding C-terminal region. In solution, in the absence
Probab=83.83 E-value=4.1 Score=29.47 Aligned_cols=58 Identities=10% Similarity=0.155 Sum_probs=38.1
Q ss_pred EEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 183 IVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 183 I~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
+.+.+. .+.+.|.+|+.++.++|+.+.++++.+. +.+..++.+ .+ ......|-++|.+
T Consensus 3 l~I~~~--dr~Gll~dI~~~i~~~~~nI~~~~~~~~-~~i~l~i~v-----~~--~~~L~~li~~L~~ 60 (74)
T cd04877 3 LEITCE--DRLGITQEVLDLLVEHNIDLRGIEIDPK-GRIYLNFPT-----IE--FEKLQTLMPEIRR 60 (74)
T ss_pred EEEEEE--ccchHHHHHHHHHHHCCCceEEEEEecC-CeEEEEeEe-----cC--HHHHHHHHHHHhC
Confidence 445553 3467899999999999999999998765 443333333 32 2235555555553
No 66
>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=82.06 E-value=13 Score=25.16 Aligned_cols=52 Identities=6% Similarity=0.095 Sum_probs=36.1
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeee--CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQT--DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~--~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.|.++...|.++|+.+.+...... ++.....|.. + +. +...+-++|.+
T Consensus 8 d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~i~i~v---~--~~---~~~~~i~~l~~ 61 (71)
T cd04903 8 DKPGAIAKVTSVLADHEINIAFMRVSRKEKGDQALMVIEV---D--QP---IDEEVIEEIKK 61 (71)
T ss_pred CCCChHHHHHHHHHHcCcCeeeeEEEeccCCCeEEEEEEe---C--CC---CCHHHHHHHHc
Confidence 4567899999999999999998876652 3555455665 2 11 55566666654
No 67
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=80.90 E-value=7.4 Score=41.36 Aligned_cols=77 Identities=19% Similarity=0.238 Sum_probs=57.7
Q ss_pred eEEEEEeCCeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEee-eeCCeEEEEEEeeccccCCCccccHH---HHHH
Q 039361 171 CVTIHPYSGGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCAST-QTDEGFFHTIQAEESQVGDLTCVDLR---VLQL 246 (253)
Q Consensus 171 ~V~V~~~~~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS-~~~~~~~~tI~a~~~kv~~~~~id~~---~l~~ 246 (253)
.+.++...++.+|.|.|+ .++.+|..+..++...|++|+.|++- +.+|..+-||.+ .--++..++.. .+..
T Consensus 675 ~~~~r~~~~~teV~V~a~--d~p~Lfa~v~~~~~~~g~~i~dAqi~tt~dG~alDtfiv---~~~~g~~~~~dr~~~~~~ 749 (867)
T COG2844 675 LISVRPHSGGTEVFVYAP--DRPRLFAVVCAALSRRGLSIVDAQIFTTRDGYALDTFIV---LEPDGFPVEEDRRAALRG 749 (867)
T ss_pred eeeecccCCceEEEEEcC--CCccHHHHHHHHHccCCCceeeeEEEEccCCceeeeEEE---ecCCCCccchhHHHHHHH
Confidence 345667778999999995 56889999999999999999999965 578889999988 54444444433 3445
Q ss_pred HHHhhh
Q 039361 247 KLDHSI 252 (253)
Q Consensus 247 kL~~~I 252 (253)
.|.+++
T Consensus 750 ~l~~~l 755 (867)
T COG2844 750 ELIEAL 755 (867)
T ss_pred HHHHHH
Confidence 555543
No 68
>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=80.66 E-value=15 Score=24.88 Aligned_cols=54 Identities=13% Similarity=0.049 Sum_probs=37.9
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeee--CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQT--DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~--~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.|.+++..|.++|+.+.+.+.... ++...+.|.. .+. . .....+..+|.+
T Consensus 9 d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~---~~~--~-~~~~~l~~~l~~ 64 (72)
T cd04878 9 NEPGVLNRISGLFARRGFNIESLTVGPTEDPGISRITIVV---EGD--D-DVIEQIVKQLNK 64 (72)
T ss_pred CCCcHHHHHHHHHHhCCCCEEEEEeeecCCCCeEEEEEEE---ECC--H-HHHHHHHHHHhC
Confidence 4567899999999999999999987764 4566666666 432 1 345555555553
No 69
>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=79.66 E-value=15 Score=26.15 Aligned_cols=55 Identities=16% Similarity=0.045 Sum_probs=36.4
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeee---CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQT---DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~---~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.|.+++..|.++|+.+++...... .+.-...++. ...... ....|.++|.+
T Consensus 8 d~pG~L~~l~~~i~~~g~nI~~i~~~~~~~~~~~~~~~v~v---~~e~~~--~~~~i~~~L~~ 65 (72)
T cd04884 8 DKPGTLKPVVDTLREFNARIISILTAFEDAPDGMRRVFIRV---TPMDRS--KENELIEELKA 65 (72)
T ss_pred CCCccHHHHHHHHHHCCCeEEEEEeccccCCCCccEEEEEE---EEecch--HHHHHHHHHhC
Confidence 4578899999999999999999976654 2333344444 332211 25577777654
No 70
>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=79.65 E-value=9.6 Score=26.57 Aligned_cols=52 Identities=10% Similarity=0.035 Sum_probs=38.1
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeee--eCCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQ--TDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~--~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.+.++...|.++|+.+.+..++. .++...+.|.+ +. ..+.++.++|.+
T Consensus 8 d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~i~v---~~-----~~~~~~~~~l~~ 61 (73)
T cd04902 8 DRPGVIGKVGTILGEAGINIAGMQVGRDEPGGEALMVLSV---DE-----PVPDEVLEELRA 61 (73)
T ss_pred CCCCHHHHHHHHHHHcCcChhheEeeccCCCCEEEEEEEe---CC-----CCCHHHHHHHHc
Confidence 457889999999999999998887655 45777788887 33 123466666654
No 71
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=79.47 E-value=14 Score=34.31 Aligned_cols=66 Identities=11% Similarity=0.141 Sum_probs=49.0
Q ss_pred eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeee--eCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 180 GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQ--TDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 180 ~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~--~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
.+.|.+.|. .+++....|-++|-++|+.+.+++.+. .++.+.-.+.+ ... +...+..+|+++|..+
T Consensus 6 ~~vitv~G~--DrpGIVa~Vt~~La~~g~NI~d~s~~~~~~~g~F~m~i~v---~~~-~~~~~~~~L~~~L~~l 73 (286)
T PRK06027 6 RYVLTLSCP--DRPGIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEF---EGD-GLIFNLETLRADFAAL 73 (286)
T ss_pred eEEEEEECC--CCCcHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEE---EeC-CCCCCHHHHHHHHHHH
Confidence 355667774 568889999999999999999999998 88854444555 331 2245688899888764
No 72
>PRK08577 hypothetical protein; Provisional
Probab=78.51 E-value=15 Score=29.95 Aligned_cols=65 Identities=22% Similarity=0.235 Sum_probs=44.0
Q ss_pred eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeC--CeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 180 GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTD--EGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 180 ~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~--~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+.+.+.+ ..+++.|.+++..|.++|+++.+.++.+.. +.....+.. .+.+. ..+...+.++|.+
T Consensus 56 ~~~I~V~~--~Dr~GvLa~I~~~l~~~~inI~~i~~~~~~~~~~~~i~l~v---ev~~~-~~~l~~l~~~L~~ 122 (136)
T PRK08577 56 LVEIELVV--EDRPGVLAKITGLLAEHGVDILATECEELKRGELAECVIIV---DLSKS-DIDLEELEEELKK 122 (136)
T ss_pred EEEEEEEE--cCCCCHHHHHHHHHHHCCCCEEEEEEEEecCCCEEEEEEEE---EeCCc-hhhHHHHHHHHHc
Confidence 34455555 345778999999999999999988876643 444445556 44442 1356777777764
No 73
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=78.47 E-value=11 Score=35.09 Aligned_cols=67 Identities=7% Similarity=0.129 Sum_probs=48.2
Q ss_pred eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEee--eeCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 180 GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCAST--QTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 180 ~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS--~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
.+.|.+.|. .+++..++|-..|-+.|+.+++++-. +..+.+|-.+.. .......++.++|+++|.++
T Consensus 9 ~~iitv~G~--Dr~GIVA~Vs~~Lae~g~NI~disq~~d~~~~~ffm~i~~---~~~~~~~~~~~~l~~~l~~l 77 (289)
T PRK13010 9 SYVLTLACP--SAPGIVAAVSGFLAEKGCYIVELTQFDDDESGRFFMRVSF---HAQSAEAASVDTFRQEFQPV 77 (289)
T ss_pred CEEEEEECC--CCCCcHHHHHHHHHHCCCCEEecccccccccCcEEEEEEE---EcCCCCCCCHHHHHHHHHHH
Confidence 346777774 45788999999999999999999985 344555544444 32223367889999988764
No 74
>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=77.40 E-value=18 Score=26.87 Aligned_cols=66 Identities=17% Similarity=0.119 Sum_probs=48.3
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
+|.++|+- +.++-.++-..+-+.||.+....+++.|.--+..+-+. ....+..+.-+-|++||.++
T Consensus 2 vitvnCPD--ktGLgcdlcr~il~fGl~i~rgd~sTDGkWCyiv~wVv--~~~~~~~~rW~lLK~RL~~~ 67 (69)
T cd04894 2 VITINCPD--KTGLGCDLCRIILEFGLNITRGDDSTDGRWCYIVFWVV--PRPPSIKVRWDLLKNRLMSA 67 (69)
T ss_pred EEEEeCCC--ccCcccHHHHHHHHhceEEEecccccCCcEEEEEEEEe--cCCCCCcccHHHHHHHHHhc
Confidence 57788863 45677899999999999999999999887433334441 12223568888999999875
No 75
>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=77.35 E-value=17 Score=25.29 Aligned_cols=53 Identities=13% Similarity=0.100 Sum_probs=35.2
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC-C-eEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD-E-GFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~-~-~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.|.++...|.++|+.+.+....... + .-...|.. + .. . +...+.+.|.+
T Consensus 10 d~~G~L~~l~~~l~~~~i~i~~~~~~~~~~~~~~~~~i~v---~--~~-~-~~~~~~~~L~~ 64 (69)
T cd04909 10 DEPGVIAEVTQILGDAGISIKNIEILEIREGIGGILRISF---K--TQ-E-DRERAKEILKE 64 (69)
T ss_pred CCCCHHHHHHHHHHHcCCCceeeEeEEeecCCcEEEEEEE---C--CH-H-HHHHHHHHHHH
Confidence 45778999999999999999988655541 1 22223444 2 11 2 66677777765
No 76
>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=76.18 E-value=4 Score=28.35 Aligned_cols=53 Identities=13% Similarity=0.014 Sum_probs=37.4
Q ss_pred CCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 190 KEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 190 ~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
..+++.|.+++..|.+.|+.+...+....++.....+.. .+. ....+-++|.+
T Consensus 7 ~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~a~~~~~~---~~~-----~l~~li~~l~~ 59 (69)
T cd04901 7 KNVPGVLGQINTILAEHNINIAAQYLQTRGEIGYVVIDI---DSE-----VSEELLEALRA 59 (69)
T ss_pred cCCCcHHHHHHHHHHHcCCCHHHHhccCCCCEEEEEEEc---CCC-----CCHHHHHHHHc
Confidence 356789999999999999999777665555666666666 332 55566666553
No 77
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=75.99 E-value=1.4 Score=40.29 Aligned_cols=55 Identities=25% Similarity=0.274 Sum_probs=44.7
Q ss_pred ccccchHHHHHHHHHHHhcHhhhhccCCCCCcCCCCchhhhHHHHHHHHHHHHHH
Q 039361 83 KMILRKDIERQRRQHLSMLHASLRSLLPLQSITGKRSISDHINEARNYINYLNKN 137 (253)
Q Consensus 83 kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k~K~Sis~il~eAI~YIKeLq~r 137 (253)
+++.=+..||+|=-.+|+-|..||.++|......|.+....+--|-+||..|++-
T Consensus 72 rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~ 126 (254)
T KOG3898|consen 72 RRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEV 126 (254)
T ss_pred hcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhccc
Confidence 3455566789888899999999999999754455777777889999999998865
No 78
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase
Probab=75.23 E-value=16 Score=41.46 Aligned_cols=68 Identities=22% Similarity=0.276 Sum_probs=53.4
Q ss_pred eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeC-----CeEEEEEEeeccccCCCccccHHHHHHHHHhhh
Q 039361 180 GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTD-----EGFFHTIQAEESQVGDLTCVDLRVLQLKLDHSI 252 (253)
Q Consensus 180 ~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~-----~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~I 252 (253)
.+.+.+... .++..|++||-+|+.+||.|+.-..-.+. ...+|.|.. +...+..++...++++|.+++
T Consensus 489 ~~~lkiy~~--~~~~~Ls~vlPilenlGl~V~~e~~~~i~~~~~~~~~i~~F~l---~~~~~~~~~~~~~~~~~~~a~ 561 (1528)
T PF05088_consen 489 RLRLKIYHP--GEPLPLSDVLPILENLGLRVIDERPYEIRRADGRRVWIHDFGL---QYPDGDALDLDDIRERFEEAF 561 (1528)
T ss_pred eEEEEEEcC--CCCcCHHHHHHHHHhCCCEEEEEecceeecCCCceEEEEEEEE---ecCCCccccHHHHHHHHHHHH
Confidence 466677653 34678999999999999999998755432 368889999 888776788998988887764
No 79
>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=75.02 E-value=25 Score=24.57 Aligned_cols=50 Identities=20% Similarity=0.208 Sum_probs=34.9
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.|.+|+..|.+.|+.|.+......++. ..++. ... +...+.+.|.+
T Consensus 10 d~pG~La~v~~~l~~~~inI~~i~~~~~~~~--~~~rl---~~~-----~~~~~~~~L~~ 59 (66)
T cd04908 10 NKPGRLAAVTEILSEAGINIRALSIADTSEF--GILRL---IVS-----DPDKAKEALKE 59 (66)
T ss_pred CCCChHHHHHHHHHHCCCCEEEEEEEecCCC--CEEEE---EEC-----CHHHHHHHHHH
Confidence 4578899999999999999999887666554 44444 221 24456666654
No 80
>COG3830 ACT domain-containing protein [Signal transduction mechanisms]
Probab=74.11 E-value=7.1 Score=30.62 Aligned_cols=59 Identities=19% Similarity=0.241 Sum_probs=48.2
Q ss_pred CCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhhh
Q 039361 190 KEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHSI 252 (253)
Q Consensus 190 ~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~I 252 (253)
+.+++....+-.+|-++|+++++.+=+..++.+-..+.+ .... ...|.+.+++.|....
T Consensus 11 kDr~GIva~is~vLAe~~vNIldisQtvm~~~ftm~~lV---~~~~-~~~d~~~lr~~l~~~~ 69 (90)
T COG3830 11 KDRVGIVAAVSRVLAEHGVNILDISQTVMDGFFTMIMLV---DISK-EVVDFAALRDELAAEG 69 (90)
T ss_pred CCCCchhHHHHHHHHHcCCcEEEHHHHHHhhhceeeeEE---cCCh-HhccHHHHHHHHHHHH
Confidence 356788999999999999999999999999988777777 4333 3678899998887653
No 81
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=72.68 E-value=26 Score=32.44 Aligned_cols=62 Identities=10% Similarity=0.210 Sum_probs=46.3
Q ss_pred EEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeC--CeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 183 IVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTD--EGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 183 I~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~--~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
|.+.|. .+++..+.|-..|-+.|+.+++++.+..+ +.++-.+.+ ...+ ..++...|+++|..
T Consensus 3 itv~g~--D~~GIVA~Vt~~La~~g~NI~d~sq~~~~~~~~F~mr~~v---~~~~-~~~~~~~l~~~l~~ 66 (280)
T TIGR00655 3 LLVSCP--DQKGLVAAISTFIAKHGANIISNDQHTDPETGRFFMRVEF---QLEG-FRLEESSLLAAFKS 66 (280)
T ss_pred EEEECC--CCCChHHHHHHHHHHCCCCEEeeeEEEcCCCCeEEEEEEE---EeCC-CCCCHHHHHHHHHH
Confidence 566674 45788999999999999999999988754 555545555 3332 24678899988876
No 82
>PRK07334 threonine dehydratase; Provisional
Probab=69.37 E-value=28 Score=33.44 Aligned_cols=63 Identities=14% Similarity=0.200 Sum_probs=44.6
Q ss_pred eEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee-----CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 181 VEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT-----DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 181 veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-----~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
+.|.|.+. .+++.|.+|+..|.+.++.|.++++.+. ++.....|.. ++.+. -....|.++|.+
T Consensus 327 v~l~I~~~--dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i---~V~d~--~~L~~vi~~Lr~ 394 (403)
T PRK07334 327 ARLRVDIR--DRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVI---ETRDA--AHLQEVIAALRA 394 (403)
T ss_pred EEEEEEeC--CCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEE---EeCCH--HHHHHHHHHHHH
Confidence 56666663 4577899999999999999999998754 5666666666 55442 234566666654
No 83
>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=69.25 E-value=26 Score=23.46 Aligned_cols=38 Identities=18% Similarity=0.186 Sum_probs=31.3
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC-CeEEEEEEe
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD-EGFFHTIQA 228 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~-~~~~~tI~a 228 (253)
.+++.|.++.+.|.+.|+.+.+......+ +..+..|..
T Consensus 7 d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v 45 (56)
T cd04889 7 NKPGRLAEVTEILAEAGINIKAISIAETRGEFGILRLIF 45 (56)
T ss_pred CCCChHHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEE
Confidence 45778999999999999999888877655 677777776
No 84
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=68.93 E-value=31 Score=24.64 Aligned_cols=55 Identities=13% Similarity=0.059 Sum_probs=38.8
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeee--eCCeEEEEEEeeccccCCCccccHHHHHHHHHhhh
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQ--TDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHSI 252 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~--~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~I 252 (253)
+++.|.+|+..+..-|+.+-+.+++. .++..-.+|.+ .-. .-.+..|...|.+++
T Consensus 2 ~~GvL~Ri~~vf~rRg~nI~sl~v~~~~~~~~~riti~v---~~~---~~~i~~l~~Ql~Kli 58 (63)
T PF13710_consen 2 QPGVLNRITGVFRRRGFNIESLSVGPTEDPGISRITIVV---SGD---DREIEQLVKQLEKLI 58 (63)
T ss_dssp STTHHHHHHHHHHTTT-EECEEEEEE-SSTTEEEEEEEE---ES----CCHHHHHHHHHHCST
T ss_pred CcHHHHHHHHHHhcCCeEEeeEEeeecCCCCEEEEEEEE---eeC---chhHHHHHHHHhccC
Confidence 46789999999999999999999888 55666667766 332 224556666666553
No 85
>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=68.71 E-value=35 Score=23.43 Aligned_cols=44 Identities=14% Similarity=0.166 Sum_probs=31.5
Q ss_pred EEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee-C-CeEEEEEEe
Q 039361 183 IVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT-D-EGFFHTIQA 228 (253)
Q Consensus 183 I~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-~-~~~~~tI~a 228 (253)
+.+.+. .+++.|.+++..|.+.|+.+.+.+.... + +.....+..
T Consensus 3 l~i~~~--d~~g~l~~i~~~l~~~~i~I~~~~~~~~~~~~~~~~~i~~ 48 (79)
T cd04881 3 LRLTVK--DKPGVLAKITGILAEHGISIESVIQKEADGGETAPVVIVT 48 (79)
T ss_pred EEEEeC--CCCcHHHHHHHHHHHcCCCeEEEEEcccCCCCceeEEEEE
Confidence 344443 4467899999999999999999887654 3 555555555
No 86
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=66.80 E-value=33 Score=24.91 Aligned_cols=38 Identities=18% Similarity=0.166 Sum_probs=29.6
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeCC-eEEEEEEe
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTDE-GFFHTIQA 228 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~-~~~~tI~a 228 (253)
.+++.|+++|..+.+.|+.+.+..+-...+ ..-|.|..
T Consensus 9 ~~pG~L~~vL~~f~~~~iNlt~IeSRP~~~~~~~y~Ffv 47 (74)
T cd04904 9 EEVGALARALKLFEEFGVNLTHIESRPSRRNGSEYEFFV 47 (74)
T ss_pred CCCcHHHHHHHHHHHCCCcEEEEECCCCCCCCceEEEEE
Confidence 357789999999999999999999887653 33455444
No 87
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=65.74 E-value=8.8 Score=35.55 Aligned_cols=58 Identities=22% Similarity=0.239 Sum_probs=49.2
Q ss_pred ccccccchHHHHHHHHHHHhcHhhhhccCCCCCcCCCCchhhhHHHHHHHHHHHHHHH
Q 039361 81 NKKMILRKDIERQRRQHLSMLHASLRSLLPLQSITGKRSISDHINEARNYINYLNKNI 138 (253)
Q Consensus 81 ~~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k~K~Sis~il~eAI~YIKeLq~rV 138 (253)
+.++..-+..||+|=..+|.-|..||-.+|....-.|.|.-..|-=|-.||--|-..+
T Consensus 172 ~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 172 SHRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLL 229 (285)
T ss_pred HhhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhh
Confidence 3556667789999999999999999999999988778888788888889998776654
No 88
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=65.63 E-value=5.6 Score=39.33 Aligned_cols=46 Identities=28% Similarity=0.380 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHHhcHhhhhccCCCCCc-CCCCchhhhHHHHHHHHHH
Q 039361 88 KDIERQRRQHLSMLHASLRSLLPLQSI-TGKRSISDHINEARNYINY 133 (253)
Q Consensus 88 ~~~ERqRR~kMn~lf~~LRSLLP~~~~-k~K~Sis~il~eAI~YIKe 133 (253)
+-+-|+||++=|.-|+.|..|||.... ..-.+.+++|--|..|||-
T Consensus 6 KnaA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKm 52 (598)
T KOG3559|consen 6 KNAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKM 52 (598)
T ss_pred hhHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHH
Confidence 446799999999999999999998752 1123334449999999974
No 89
>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=63.69 E-value=53 Score=23.70 Aligned_cols=36 Identities=22% Similarity=0.223 Sum_probs=28.0
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
..++.+.+++++|.+.|+.|..... .+..+.+++..
T Consensus 13 ~~~g~~~~if~~L~~~~I~v~~i~~--s~~~is~~v~~ 48 (75)
T cd04912 13 GAHGFLAKVFEIFAKHGLSVDLIST--SEVSVSLTLDP 48 (75)
T ss_pred CCccHHHHHHHHHHHcCCeEEEEEc--CCcEEEEEEEc
Confidence 3456799999999999999988864 33666666666
No 90
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=62.97 E-value=43 Score=35.07 Aligned_cols=66 Identities=6% Similarity=0.091 Sum_probs=53.3
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhhh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHSI 252 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~I 252 (253)
.+.|.-. ..+.+.|+++..+|--+|+.|.+|++.+ +|.....|.+ ...-+...|+..+.|.+..++
T Consensus 548 ~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~a~~~~-~~~~~~~~~v---~~~~~~~~~~~~~~~~~~~~~ 613 (693)
T PRK00227 548 FFTVIWH-GDYPRELVRVLALIAAKGWNILSARMVA-NGPWSAEFDV---RANGPQDFDPQEFLQAYKSGV 613 (693)
T ss_pred eEEEEec-CCcccHHHHHHHHHHhcCceeeEeEEec-CCceEEEEEE---ecCCCCCCChHHHHHHHHHhh
Confidence 4444431 2346789999999999999999999999 8888888888 667777899999999988654
No 91
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=61.92 E-value=7.8 Score=33.40 Aligned_cols=51 Identities=27% Similarity=0.255 Sum_probs=33.5
Q ss_pred cchHHHHHHHHHHHhcHhhhhccCCCCCcCCCCch--hhhHHHHHHHHHHHHH
Q 039361 86 LRKDIERQRRQHLSMLHASLRSLLPLQSITGKRSI--SDHINEARNYINYLNK 136 (253)
Q Consensus 86 ~H~~~ERqRR~kMn~lf~~LRSLLP~~~~k~K~Si--s~il~eAI~YIKeLq~ 136 (253)
++-..||+|-+.++..|.-|++|+|.....+|+-+ +.+=.+-|...-+||.
T Consensus 25 ~r~~~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~dE~q~ 77 (173)
T KOG4447|consen 25 DRQRKERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSLDELQK 77 (173)
T ss_pred hhhHHHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhHHHHHH
Confidence 34447999999999999999999998765444322 1222344444444444
No 92
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=60.77 E-value=44 Score=28.33 Aligned_cols=67 Identities=16% Similarity=0.123 Sum_probs=47.0
Q ss_pred eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEee-eeCCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 180 GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCAST-QTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 180 ~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS-~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
+-.|.+.-....+-+.|+++++++-++++.|++.+=+ ..+|+.--|+.. ... +..-+...|-++|.+
T Consensus 70 ~ri~TL~l~ledr~G~LS~vLd~iA~~~~nvLTI~Q~ipl~g~Anvtlsi---~~s-sm~~~V~~ii~kl~k 137 (150)
T COG4492 70 ERIITLSLSLEDRVGILSDVLDVIAREEINVLTIHQTIPLQGRANVTLSI---DTS-SMEKDVDKIIEKLRK 137 (150)
T ss_pred ceEEEEEEEEhhhhhhHHHHHHHHHHhCCcEEEEecccccCceeeEEEEE---Ech-hhhhhHHHHHHHHhc
Confidence 3344444333445678999999999999999999765 688887766666 444 235567777777764
No 93
>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=58.22 E-value=79 Score=24.31 Aligned_cols=45 Identities=18% Similarity=0.155 Sum_probs=32.2
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeC-CeEEEEEEe
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTD-EGFFHTIQA 228 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~-~~~~~tI~a 228 (253)
.+.+.. ..+++.|.++|..+.+.|+.+.+..+-... ..--|.|..
T Consensus 16 slif~l--~~~pGsL~~vL~~Fa~~~INLt~IeSRP~~~~~~~Y~FfV 61 (90)
T cd04931 16 SLIFSL--KEEVGALAKVLRLFEEKDINLTHIESRPSRLNKDEYEFFI 61 (90)
T ss_pred EEEEEc--CCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEE
Confidence 344444 345788999999999999999999888753 333455444
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=57.74 E-value=53 Score=22.24 Aligned_cols=38 Identities=8% Similarity=0.095 Sum_probs=26.6
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
..+..+.+++++|.+.|+.|...+.+.-+..+.+++..
T Consensus 13 ~~~~~~~~i~~~l~~~~I~v~~i~~~~s~~~is~~v~~ 50 (66)
T cd04922 13 GTPGVAATFFSALAKANVNIRAIAQGSSERNISAVIDE 50 (66)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEEeH
Confidence 34567999999999999999777654434444444443
No 95
>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=56.97 E-value=59 Score=22.09 Aligned_cols=35 Identities=17% Similarity=0.181 Sum_probs=27.0
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.++...+|+++|++.|+.|.....+. +.+.+++..
T Consensus 13 ~~~~~~~if~~l~~~~i~v~~i~t~~--~~is~~v~~ 47 (62)
T cd04890 13 EVGFLRKIFEILEKHGISVDLIPTSE--NSVTLYLDD 47 (62)
T ss_pred ccCHHHHHHHHHHHcCCeEEEEecCC--CEEEEEEeh
Confidence 34578999999999999999996533 556666665
No 96
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=56.19 E-value=59 Score=28.49 Aligned_cols=66 Identities=8% Similarity=0.026 Sum_probs=51.3
Q ss_pred eEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeC----CeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 181 VEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTD----EGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 181 veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~----~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
+.|.+.- ..+++.+.+|-..|-+.|+.+.+.++-+.+ +.-+|.+++ ++.-+...+...|++.|.++
T Consensus 96 ~~v~v~G--~DrPGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~---~v~lP~~~~~~~L~~~l~~l 165 (190)
T PRK11589 96 VWVQVEV--ADSPHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQI---TAHSPASQDAANIEQAFKAL 165 (190)
T ss_pred EEEEEEE--CCCCCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEE---EEEcCCCCCHHHHHHHHHHH
Confidence 3444444 245788999999999999999999887654 556777777 77777778899999988764
No 97
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=54.95 E-value=41 Score=29.50 Aligned_cols=64 Identities=9% Similarity=0.040 Sum_probs=47.0
Q ss_pred eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 180 GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 180 ~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
.+.|.+.. ..+++....|-++|.++|..++.++.+..++.+--.+.+ ... .....+|+..|..+
T Consensus 8 ~lviTviG--~DrpGIVa~vs~~l~~~g~NI~ds~~t~lgg~Fa~i~lv---s~~---~~~~~~le~~L~~l 71 (190)
T PRK11589 8 YLVITALG--ADRPGIVNTITRHVSSCGCNIEDSRLAMLGEEFTFIMLL---SGS---WNAITLIESTLPLK 71 (190)
T ss_pred EEEEEEEc--CCCChHHHHHHHHHHHcCCCeeehhhHhhCCceEEEEEE---eCC---hhHHHHHHHHHHhh
Confidence 34555555 356889999999999999999999999999966666555 332 22666777776543
No 98
>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=54.35 E-value=59 Score=21.24 Aligned_cols=26 Identities=15% Similarity=0.300 Sum_probs=21.9
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeee
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQ 217 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~ 217 (253)
.+..+.+++++|.+.++.|...+.+.
T Consensus 13 ~~~~~~~i~~~l~~~~i~v~~i~~~~ 38 (65)
T cd04892 13 TPGVAARIFSALAEAGINIIMISQGS 38 (65)
T ss_pred CccHHHHHHHHHHHCCCcEEEEEcCC
Confidence 35578999999999999999887654
No 99
>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=52.70 E-value=68 Score=22.43 Aligned_cols=37 Identities=11% Similarity=0.218 Sum_probs=29.0
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.++.+.+++.+|.+.|+.|.-.+.++-+-.+.+.+..
T Consensus 13 ~~~~~~~i~~aL~~~~I~v~~i~~g~s~~sis~~v~~ 49 (65)
T cd04918 13 SSLILERAFHVLYTKGVNVQMISQGASKVNISLIVND 49 (65)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCccceEEEEEeH
Confidence 3557999999999999999887776666666666655
No 100
>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=52.49 E-value=59 Score=20.70 Aligned_cols=36 Identities=17% Similarity=0.259 Sum_probs=26.4
Q ss_pred cchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 193 NLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 193 ~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
++.+.+++++|.+.++.|...+.+..+..+.+++..
T Consensus 14 ~~~~~~i~~~l~~~~i~i~~i~~~~~~~~~s~~v~~ 49 (60)
T cd04868 14 PGVAAKIFSALAEAGINVDMISQSESEVNISFTVDE 49 (60)
T ss_pred CCHHHHHHHHHHHCCCcEEEEEcCCCcEEEEEEEeH
Confidence 456999999999999999888766544444444444
No 101
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=51.06 E-value=93 Score=26.48 Aligned_cols=55 Identities=18% Similarity=0.082 Sum_probs=39.8
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC--CeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD--EGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~--~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
++++.|.+|...+.+.|+.+.+.++...+ +..-.+|.+ .-. .-.+..|..-|.++
T Consensus 10 n~pGvL~rI~~lf~rrg~NI~Sl~v~~t~~~~~sriti~V---~~d---~~~i~qi~kQl~Kl 66 (157)
T TIGR00119 10 NEPGVLSRVAGLFTRRGFNIESLTVGPTEDPDLSRMTIVV---VGD---DKVLEQITKQLNKL 66 (157)
T ss_pred CCCcHHHHHHHHHHhCCceEEEEEEeecCCCCEEEEEEEE---ECC---HHHHHHHHHHHhcC
Confidence 46789999999999999999999888654 566778888 331 22345555555544
No 102
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=50.81 E-value=8.8 Score=40.07 Aligned_cols=48 Identities=27% Similarity=0.324 Sum_probs=37.8
Q ss_pred cccccchHHHHHHHHHHHhcHhhhhccCCCCC----cCCCCchhhhHHHHHHHHH
Q 039361 82 KKMILRKDIERQRRQHLSMLHASLRSLLPLQS----ITGKRSISDHINEARNYIN 132 (253)
Q Consensus 82 ~kk~~H~~~ERqRR~kMn~lf~~LRSLLP~~~----~k~K~Sis~il~eAI~YIK 132 (253)
-+|..-..+=|-||-|=|+-|+.|.-+||.+- .-||+|| |--||.|++
T Consensus 45 ~rkEkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSi---mRLtISyLR 96 (768)
T KOG3558|consen 45 LRKEKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASI---MRLTISYLR 96 (768)
T ss_pred HHhhhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHH---HHHHHHHHH
Confidence 34555566789999999999999999999653 2456555 899999986
No 103
>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=50.43 E-value=78 Score=21.53 Aligned_cols=37 Identities=3% Similarity=0.032 Sum_probs=26.8
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.+..+.+++++|.+.|++|...+.+.-+..+.+++..
T Consensus 14 ~~~~~~~if~~L~~~~I~v~~i~q~~s~~~isf~v~~ 50 (66)
T cd04919 14 MIGIAGRMFTTLADHRINIEMISQGASEINISCVIDE 50 (66)
T ss_pred CcCHHHHHHHHHHHCCCCEEEEEecCccceEEEEEeH
Confidence 4567999999999999999777655444455555544
No 104
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=47.41 E-value=1.2e+02 Score=25.90 Aligned_cols=38 Identities=21% Similarity=0.090 Sum_probs=32.0
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC--CeEEEEEEe
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD--EGFFHTIQA 228 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~--~~~~~tI~a 228 (253)
++++.|.+|...+.+.|+.+.+.++...+ +..-.+|.+
T Consensus 11 N~pGvL~rI~~lf~rrg~NI~Sl~v~~te~~~~sriti~V 50 (161)
T PRK11895 11 NEPGVLSRVAGLFSRRGYNIESLTVGPTEDPGLSRMTIVT 50 (161)
T ss_pred CCCcHHHHHHHHHHhCCCcEEEEEeeecCCCCEEEEEEEE
Confidence 56789999999999999999999887653 566678887
No 105
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=43.46 E-value=1e+02 Score=32.70 Aligned_cols=62 Identities=15% Similarity=0.158 Sum_probs=43.3
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee--CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT--DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~--~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.|.|.+ ..+.++|.+|..+|.+.++.|.++++.+. ++.....|.. +|.+. -.+.+|-.+|.+
T Consensus 668 ~I~I~~--~Dr~GlL~dIt~~is~~~~nI~~v~~~~~~~~~~~~~~~~i---eV~~~--~~L~~l~~~L~~ 731 (743)
T PRK10872 668 VVRVTA--NDRSGLLRDITTILANEKVNVLGVASRSDTKQQLATIDMTI---EIYNL--QVLGRVLGKLNQ 731 (743)
T ss_pred EEEEEE--cCCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCCEEEEEEEE---EECCH--HHHHHHHHHHhc
Confidence 444444 34567899999999999999999998765 4666666777 55553 244555555553
No 106
>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=41.88 E-value=1.1e+02 Score=31.85 Aligned_cols=61 Identities=18% Similarity=0.285 Sum_probs=42.5
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee-CCeEEEEEEeeccccCCCccccHHHHHHHHH
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT-DEGFFHTIQAEESQVGDLTCVDLRVLQLKLD 249 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~ 249 (253)
.|.|.+. .+.+.|.+|..+|.+.++.|.++++... ++.....|.. +|.+. ..+..|-.+|.
T Consensus 612 ~I~I~~~--dr~GlLadI~~~ia~~~~nI~~v~~~~~~~~~~~~~~~i---eV~~~--~~L~~ii~~L~ 673 (683)
T TIGR00691 612 DINIEAV--DRKGVLSDLTTAISENDSNIVSISTKTYGKREAILNITV---EIKNY--KHLLKIMLKIK 673 (683)
T ss_pred EEEEEEe--cCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCEEEEEEEE---EECCH--HHHHHHHHHHh
Confidence 4455553 4567899999999999999999998876 4666667777 55543 23444444443
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=41.68 E-value=68 Score=22.60 Aligned_cols=52 Identities=21% Similarity=0.178 Sum_probs=34.9
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC---CeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD---EGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~---~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
.+++.|.++++.|.+ |.+|+..+....+ ..++.+|.+ .+. -...+|.++|.+
T Consensus 7 dkPG~l~~~~~~i~~-~~nI~~~~~~~~~~~~~~v~v~ie~-----~~~--~~~~~i~~~L~~ 61 (68)
T cd04885 7 ERPGALKKFLELLGP-PRNITEFHYRNQGGDEARVLVGIQV-----PDR--EDLAELKERLEA 61 (68)
T ss_pred CCCCHHHHHHHHhCC-CCcEEEEEEEcCCCCceEEEEEEEe-----CCH--HHHHHHHHHHHH
Confidence 357789999999999 9999998877643 234444443 222 345667776654
No 108
>cd04916 ACT_AKiii-YclM-BS_2 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. B. subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from B. subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=41.07 E-value=1.1e+02 Score=20.57 Aligned_cols=36 Identities=6% Similarity=0.104 Sum_probs=24.8
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEE
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQ 227 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~ 227 (253)
.+..+.+++.+|.+.|+.|.-.+.+..+..+.+++.
T Consensus 14 ~~~~~~~i~~~L~~~~i~v~~i~~~~s~~~isf~v~ 49 (66)
T cd04916 14 TVGVSARATAALAKAGINIRMINQGSSEISIMIGVH 49 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEEe
Confidence 456789999999999999977765443333333433
No 109
>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=40.92 E-value=1.4e+02 Score=21.87 Aligned_cols=38 Identities=21% Similarity=0.228 Sum_probs=28.8
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeC-CeEEEEEEe
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTD-EGFFHTIQA 228 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~-~~~~~tI~a 228 (253)
.+++.|+++|..+...|+.+.+..+-... ..--|.|-.
T Consensus 9 ~~~g~L~~iL~~f~~~~inl~~IeSRP~~~~~~~y~F~i 47 (74)
T cd04929 9 NEVGGLAKALKLFQELGINVVHIESRKSKRRSSEFEIFV 47 (74)
T ss_pred CCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEE
Confidence 34678999999999999999999887643 333455444
No 110
>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=37.21 E-value=1.2e+02 Score=19.94 Aligned_cols=26 Identities=15% Similarity=0.271 Sum_probs=21.3
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEee
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCAST 216 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS 216 (253)
+.+..+.+++.+|.+.|+.|...+.+
T Consensus 12 ~~~~~~~~i~~~L~~~~i~v~~i~~s 37 (63)
T cd04923 12 SHPGVAAKMFKALAEAGINIEMISTS 37 (63)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEcc
Confidence 34567899999999999999888754
No 111
>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=37.20 E-value=1.2e+02 Score=21.93 Aligned_cols=49 Identities=18% Similarity=0.316 Sum_probs=33.3
Q ss_pred ceEEEEEeCCeeEEEEEeecCCCc----chHHHHHHHHHHCCceEEEEEeeee
Q 039361 170 NCVTIHPYSGGVEIVINSVHKEEN----LKLSKVMEAVLEEGLDVIRCASTQT 218 (253)
Q Consensus 170 p~V~V~~~~~~veI~i~~~~~~~~----~~Ls~Vm~~Lee~gLdVvsassS~~ 218 (253)
-.|.++..++.+.|.+.+....-. ..+..+-++|...|+.+.+++++..
T Consensus 27 v~v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~~~~~~v~~~ 79 (85)
T PF02120_consen 27 VEVKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGLEVVNLSVSQG 79 (85)
T ss_dssp EEEEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-EEEEEEEESS
T ss_pred EEEEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEEEEC
Confidence 467888888899999988532100 1355777889999999999887754
No 112
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=36.47 E-value=26 Score=35.99 Aligned_cols=39 Identities=26% Similarity=0.342 Sum_probs=28.1
Q ss_pred HHHHHHhcHhhhhccCCCCC-cCCCCchhhhHHHHHHHHH
Q 039361 94 RRQHLSMLHASLRSLLPLQS-ITGKRSISDHINEARNYIN 132 (253)
Q Consensus 94 RR~kMn~lf~~LRSLLP~~~-~k~K~Sis~il~eAI~YIK 132 (253)
-|+.+|.-+..|.||||... +-.|.+..++|-=++.|++
T Consensus 36 HRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 36 HRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred HHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHH
Confidence 46778999999999999763 1224444455888999874
No 113
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=36.39 E-value=69 Score=22.77 Aligned_cols=41 Identities=32% Similarity=0.468 Sum_probs=31.4
Q ss_pred HHHHHHHHhcHhhhhccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHHH
Q 039361 92 RQRRQHLSMLHASLRSLLPLQSITGKRSISDHINEARNYINYLNKNIQELG 142 (253)
Q Consensus 92 RqRR~kMn~lf~~LRSLLP~~~~k~K~Sis~il~eAI~YIKeLq~rVkeLe 142 (253)
|.-|=.+.+.+..+..|+- .+| .++|.+||+++-+.++.+.
T Consensus 17 R~~RHD~~NhLqvI~gllq----lg~------~~~a~eYi~~~~~~~~~~s 57 (62)
T PF14689_consen 17 RAQRHDFLNHLQVIYGLLQ----LGK------YEEAKEYIKELSKDLQQES 57 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHH----TT-------HHHHHHHHHHHHHHHHHHH
T ss_pred HHHhHHHHHHHHHHHHHHH----CCC------HHHHHHHHHHHHHHHHHHH
Confidence 6666677777888888884 234 5999999999999888774
No 114
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=36.15 E-value=1.6e+02 Score=31.03 Aligned_cols=61 Identities=18% Similarity=0.229 Sum_probs=42.2
Q ss_pred EEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeC-CeEEEEEEeeccccCCCccccHHHHHHHHH
Q 039361 182 EIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTD-EGFFHTIQAEESQVGDLTCVDLRVLQLKLD 249 (253)
Q Consensus 182 eI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~-~~~~~tI~a~~~kv~~~~~id~~~l~~kL~ 249 (253)
.|.|.+. .+.+.|.+|..+|.+.++.+.++++.+.+ +.+...|.. +|.+. -.+..|-.+|.
T Consensus 628 ~i~I~~~--dr~GlL~dI~~~i~~~~~nI~~v~~~~~~~~~~~~~~~i---eV~~~--~~L~~i~~~Lr 689 (702)
T PRK11092 628 EIKVEMF--NHQGALANLTAAINTTGSNIQSLNTEEKDGRVYSAFIRL---TARDR--VHLANIMRKIR 689 (702)
T ss_pred EEEEEEe--CCCCHHHHHHHHHHHCCCCeEEEEEEEcCCCEEEEEEEE---EECCH--HHHHHHHHHHh
Confidence 4455553 45678999999999999999999987765 455666777 55553 23445555544
No 115
>cd04921 ACT_AKi-HSDH-ThrA-like_1 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the first of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pat
Probab=36.04 E-value=1.6e+02 Score=20.87 Aligned_cols=37 Identities=11% Similarity=0.240 Sum_probs=26.2
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.+..+.+++++|.+.|+.|...+.+..+..+.+++..
T Consensus 14 ~~~~~~~i~~~L~~~~I~v~~i~~~~~~~~isf~v~~ 50 (80)
T cd04921 14 VPGIAARIFSALARAGINVILISQASSEHSISFVVDE 50 (80)
T ss_pred CccHHHHHHHHHHHCCCcEEEEEecCCcceEEEEEeH
Confidence 4557999999999999999877665444444444443
No 116
>PF07485 DUF1529: Domain of Unknown Function (DUF1259); InterPro: IPR011094 This family is the lppY/lpqO homologue family. They are related to 'probable conserved lipoproteins' LppY and LpqO from Mycobacterium bovis.
Probab=34.73 E-value=1.6e+02 Score=24.12 Aligned_cols=49 Identities=18% Similarity=0.223 Sum_probs=34.0
Q ss_pred hHHHHHHHHHHCCceEEEEEeeeeC-C-eEEEE-EEeeccccCCCccccHHHHHHHHHhhh
Q 039361 195 KLSKVMEAVLEEGLDVIRCASTQTD-E-GFFHT-IQAEESQVGDLTCVDLRVLQLKLDHSI 252 (253)
Q Consensus 195 ~Ls~Vm~~Lee~gLdVvsassS~~~-~-~~~~t-I~a~~~kv~~~~~id~~~l~~kL~~~I 252 (253)
.+-.+|.+|.+.||+|....---.. + +++|. |.+ .-|+..+.++|..++
T Consensus 69 EV~pvi~aL~~~GI~vtAlHNH~l~e~Prl~ymH~~~---------~gdp~~lA~~vr~Al 120 (123)
T PF07485_consen 69 EVNPVISALRKNGIEVTALHNHWLFEQPRLFYMHIWG---------VGDPAKLARKVRAAL 120 (123)
T ss_pred HHHHHHHHHHHCCceEEEEecccccCCCCEEEEEEEe---------cCCHHHHHHHHHHHH
Confidence 4778999999999999988655443 3 45553 444 236777777777664
No 117
>PRK08198 threonine dehydratase; Provisional
Probab=34.57 E-value=2e+02 Score=27.49 Aligned_cols=63 Identities=11% Similarity=0.126 Sum_probs=43.3
Q ss_pred eEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeee-----CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 181 VEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQT-----DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 181 veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-----~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
+.+.+.- ..+++.|.+++..|-+.|..|+.++.... .+..-.+|.+ +..+.. ....|.++|.+
T Consensus 328 ~~l~v~l--~D~PG~L~~ll~~i~~~g~NI~~i~~~~~~~~~~~~~~~v~v~i---e~~~~~--~~~~l~~~L~~ 395 (404)
T PRK08198 328 LKLRVRL--PDRPGQLAKLLSIIAELGANVIDVDHDRFSPDLRLGEVEVELTL---ETRGPE--HIEEILDALRD 395 (404)
T ss_pred EEEEEEe--CCCCCHHHHHHHHHhhCCCceEEEEEEEccCCCCCceEEEEEEE---EeCCHH--HHHHHHHHHHH
Confidence 3444444 34578899999999999999999887642 3567777777 554332 45567777654
No 118
>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=34.16 E-value=1.9e+02 Score=21.17 Aligned_cols=35 Identities=14% Similarity=0.114 Sum_probs=26.8
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.++.+.+|+.+|.+.|+.|-..+.+. ..+.+++..
T Consensus 14 ~~g~~~~IF~~La~~~I~VDmI~~s~--~~iSftv~~ 48 (75)
T cd04932 14 AQGFLAKVFGILAKHNISVDLITTSE--ISVALTLDN 48 (75)
T ss_pred CcCHHHHHHHHHHHcCCcEEEEeecC--CEEEEEEec
Confidence 45679999999999999999886533 556666655
No 119
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.92 E-value=75 Score=24.04 Aligned_cols=27 Identities=30% Similarity=0.427 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHhhh
Q 039361 124 INEARNYINYLNKNIQELGLKRDKLKN 150 (253)
Q Consensus 124 l~eAI~YIKeLq~rVkeLe~kK~~l~~ 150 (253)
|..||+-|.-||-.|++|+.+...+..
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~~ 39 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLSQ 39 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhHH
Confidence 678999999999999999998765543
No 120
>CHL00100 ilvH acetohydroxyacid synthase small subunit
Probab=33.72 E-value=1.9e+02 Score=25.13 Aligned_cols=56 Identities=13% Similarity=0.069 Sum_probs=39.9
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeee--eCCeEEEEEEeeccccCCCccccHHHHHHHHHhhh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQ--TDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHSI 252 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~--~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~I 252 (253)
++++.|.+|...|-..|+.+.+.++.. ..+..-.||.+ . +... .++.|...|.+++
T Consensus 11 n~PGVL~RIt~lFsrRg~NIesLsv~~t~~~~~sr~TIvv---~--~~~~-~ieqL~kQL~KLi 68 (174)
T CHL00100 11 DESGVLTRIAGLFARRGFNIESLAVGPAEQKGISRITMVV---P--GDDR-TIEQLTKQLYKLV 68 (174)
T ss_pred CcCCHHHHHHHHHHhCCCCeeEEEeeEcCCCCccEEEEEE---E--CCHH-HHHHHHHHHHHHh
Confidence 468899999999999999999999876 34444445555 2 2111 2678888877664
No 121
>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=33.38 E-value=72 Score=22.62 Aligned_cols=23 Identities=17% Similarity=0.287 Sum_probs=20.1
Q ss_pred CcchHHHHHHHHHHCCceEEEEE
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCA 214 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsas 214 (253)
.++.++++..+|.+.|+.|...+
T Consensus 20 ~~Gv~a~i~~~La~~~I~i~~is 42 (65)
T PF13840_consen 20 VPGVAAKIFSALAEAGINIFMIS 42 (65)
T ss_dssp SHHHHHHHHHHHHHTTS-ECEEE
T ss_pred cccHHHHHHHHHHHCCCCEEEEE
Confidence 57789999999999999998887
No 122
>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=32.88 E-value=2e+02 Score=21.02 Aligned_cols=35 Identities=11% Similarity=0.155 Sum_probs=27.6
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.++.+.+++++|.+.|+.|-....+. +.+.+++..
T Consensus 14 ~~g~~~~IF~~La~~~I~vDmI~~s~--~~isftv~~ 48 (75)
T cd04935 14 QVGFLADVFAPFKKHGVSVDLVSTSE--TNVTVSLDP 48 (75)
T ss_pred ccCHHHHHHHHHHHcCCcEEEEEeCC--CEEEEEEeC
Confidence 35679999999999999999986533 667777765
No 123
>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=32.69 E-value=88 Score=23.31 Aligned_cols=26 Identities=31% Similarity=0.358 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhHHHh
Q 039361 123 HINEARNYINYLNKNIQELGLKRDKL 148 (253)
Q Consensus 123 il~eAI~YIKeLq~rVkeLe~kK~~l 148 (253)
-|..||+=|-.||.++++|+.+...+
T Consensus 12 ki~~aveti~~Lq~e~eeLke~n~~L 37 (72)
T PF06005_consen 12 KIQQAVETIALLQMENEELKEKNNEL 37 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 37899999999999999999875443
No 124
>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=31.58 E-value=1e+02 Score=21.39 Aligned_cols=24 Identities=21% Similarity=0.412 Sum_probs=19.7
Q ss_pred CCcchHHHHHHHHHHCCceEEEEE
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCA 214 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsas 214 (253)
..++.+.+++.+|.+.|+.|...+
T Consensus 13 ~~~gi~~~if~aL~~~~I~v~~~~ 36 (64)
T cd04937 13 GVPGVMAKIVGALSKEGIEILQTA 36 (64)
T ss_pred CCcCHHHHHHHHHHHCCCCEEEEE
Confidence 456789999999999999997333
No 125
>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=31.46 E-value=2.2e+02 Score=21.21 Aligned_cols=35 Identities=20% Similarity=0.151 Sum_probs=27.8
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.++.+.+|+++|.+.|+.|-..+.+. +.+.+++..
T Consensus 14 ~~g~~a~IF~~La~~~InVDmI~qs~--~sISftV~~ 48 (78)
T cd04933 14 QYGFLAKVFSIFETLGISVDVVATSE--VSISLTLDP 48 (78)
T ss_pred ccCHHHHHHHHHHHcCCcEEEEEecC--CEEEEEEEh
Confidence 45679999999999999999886533 667777775
No 126
>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=30.37 E-value=2.7e+02 Score=26.26 Aligned_cols=56 Identities=11% Similarity=0.089 Sum_probs=39.1
Q ss_pred CCCcchHHHHHHHHHHCCceEEEEEeeee-----CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 190 KEENLKLSKVMEAVLEEGLDVIRCASTQT-----DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 190 ~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-----~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
..+++.|.++++.+.+.|.+|++...... .+....+|.+ +..+ .-+...|.++|.+
T Consensus 313 ~D~pG~L~~v~~~i~~~~~NI~~i~~~r~~~~~~~~~~~v~v~v---et~~--~~~~~~i~~~L~~ 373 (380)
T TIGR01127 313 PDRPGALYHLLESIAEARANIVKIDHDRLSKEIPPGFAMVEITL---ETRG--KEHLDEILKILRD 373 (380)
T ss_pred CCCCCHHHHHHHHHhcCCCcEEEEEeeccccCCCCceEEEEEEE---EeCC--HHHHHHHHHHHHH
Confidence 45688999999999999999999876521 2455666666 4433 2344577777754
No 127
>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=30.27 E-value=1.6e+02 Score=19.30 Aligned_cols=26 Identities=19% Similarity=0.302 Sum_probs=21.4
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEee
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCAST 216 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS 216 (253)
..+..+.+++.+|.+.|+.|...+.+
T Consensus 12 ~~~~~~~~i~~~L~~~~i~v~~i~~s 37 (63)
T cd04936 12 SHPGVAAKMFEALAEAGINIEMISTS 37 (63)
T ss_pred CCccHHHHHHHHHHHCCCcEEEEEcc
Confidence 34567899999999999999888754
No 128
>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=30.27 E-value=77 Score=22.39 Aligned_cols=22 Identities=32% Similarity=0.643 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHhHHHhh
Q 039361 128 RNYINYLNKNIQELGLKRDKLK 149 (253)
Q Consensus 128 I~YIKeLq~rVkeLe~kK~~l~ 149 (253)
..||.+|+.++..|+..-+.|.
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 4689999999999988766554
No 129
>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=29.46 E-value=2.3e+02 Score=20.86 Aligned_cols=53 Identities=15% Similarity=0.115 Sum_probs=32.0
Q ss_pred CCCcchHHHHHHHHHHCCceEEEEEeeee---CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 190 KEENLKLSKVMEAVLEEGLDVIRCASTQT---DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 190 ~~~~~~Ls~Vm~~Lee~gLdVvsassS~~---~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
..+++.|.+++.+|- +.+|..+..... ...+..+|.+ .++ .-+...+.++|.+
T Consensus 9 pD~PG~L~~ll~~l~--~anI~~~~y~~~~~~~~~v~i~ie~-----~~~-~~~~~~i~~~L~~ 64 (85)
T cd04906 9 PERPGSFKKFCELIG--PRNITEFNYRYADEKDAHIFVGVSV-----ANG-AEELAELLEDLKS 64 (85)
T ss_pred CCCCcHHHHHHHHhC--CCceeEEEEEccCCCeeEEEEEEEe-----CCc-HHHHHHHHHHHHH
Confidence 345788999999998 677776666543 2345544554 221 1235566666654
No 130
>PRK14637 hypothetical protein; Provisional
Probab=29.44 E-value=3e+02 Score=23.19 Aligned_cols=54 Identities=9% Similarity=-0.093 Sum_probs=34.9
Q ss_pred hHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccc-cHHHHHHHHHhh
Q 039361 195 KLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCV-DLRVLQLKLDHS 251 (253)
Q Consensus 195 ~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~i-d~~~l~~kL~~~ 251 (253)
....+-.+++++|++++.+.+..-++.-+..|.. --.++..+ |++++.+.+..+
T Consensus 10 ~~~~v~p~~~~~g~eLvdve~~~~~~~~~lrV~I---D~~~gV~iddC~~vSr~Is~~ 64 (151)
T PRK14637 10 YFSECEPVVEGLGCKLVDLSRRVQQAQGRVRAVI---YSAGGVGLDDCARVHRILVPR 64 (151)
T ss_pred HHHHHHHHHHhcCCEEEEEEEEecCCCcEEEEEE---ECCCCCCHHHHHHHHHHHHHH
Confidence 3455666788999999999999887765556655 33333222 355666665443
No 131
>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=29.24 E-value=2.7e+02 Score=22.33 Aligned_cols=38 Identities=13% Similarity=0.058 Sum_probs=28.7
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeeeCC-eEEEEEEe
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQTDE-GFFHTIQA 228 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~-~~~~tI~a 228 (253)
.+++.|.++|..+.+.|+.+.+..+-...+ ..-|.|..
T Consensus 50 ~~pGsL~~iL~~Fa~~gINLt~IESRP~~~~~~eY~FfI 88 (115)
T cd04930 50 EGFSSLSRILKVFETFEAKIHHLESRPSRKEGGDLEVLV 88 (115)
T ss_pred CCCcHHHHHHHHHHHCCCCEEEEECCcCCCCCceEEEEE
Confidence 357789999999999999999998887533 23344444
No 132
>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=29.05 E-value=1.8e+02 Score=19.41 Aligned_cols=37 Identities=14% Similarity=0.178 Sum_probs=25.2
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.+..+.+++.+|.+.|+.|.-.+.+..+..+.+++..
T Consensus 14 ~~~~~~~i~~~L~~~~I~v~~i~q~~s~~~isf~i~~ 50 (66)
T cd04924 14 TPGVAGRVFGALGKAGINVIMISQGSSEYNISFVVAE 50 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCccceEEEEEeH
Confidence 4567899999999999999766654433444444443
No 133
>PF14992 TMCO5: TMCO5 family
Probab=29.04 E-value=79 Score=29.68 Aligned_cols=31 Identities=10% Similarity=0.248 Sum_probs=26.2
Q ss_pred CCchhhhHHHHHHHHHHHHHHHHHHHHhHHH
Q 039361 117 KRSISDHINEARNYINYLNKNIQELGLKRDK 147 (253)
Q Consensus 117 K~Sis~il~eAI~YIKeLq~rVkeLe~kK~~ 147 (253)
-..+..+-.+|++||+.||+.++.++..|+.
T Consensus 139 ~~~v~~l~eDq~~~i~klkE~L~rmE~ekE~ 169 (280)
T PF14992_consen 139 YQQVHQLCEDQANEIKKLKEKLRRMEEEKEM 169 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466677899999999999999999998754
No 134
>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=28.87 E-value=36 Score=29.07 Aligned_cols=29 Identities=31% Similarity=0.271 Sum_probs=24.8
Q ss_pred cccccccchHHHHHHHHHHHhcHhhhhcc
Q 039361 80 NNKKMILRKDIERQRRQHLSMLHASLRSL 108 (253)
Q Consensus 80 ~~~kk~~H~~~ERqRR~kMn~lf~~LRSL 108 (253)
...+|.+.+..||+||-=-...|.-||.+
T Consensus 8 t~kErEnnk~RERrRRAIaakIfaGLR~~ 36 (150)
T PF05687_consen 8 TWKERENNKRRERRRRAIAAKIFAGLRAH 36 (150)
T ss_pred cHhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34667788889999999999999999986
No 135
>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=28.61 E-value=82 Score=21.77 Aligned_cols=20 Identities=35% Similarity=0.574 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHhHHHhhh
Q 039361 131 INYLNKNIQELGLKRDKLKN 150 (253)
Q Consensus 131 IKeLq~rVkeLe~kK~~l~~ 150 (253)
|-++-++|.+|++||+.|..
T Consensus 21 iedid~qIaeLe~KR~~Lv~ 40 (46)
T PF08946_consen 21 IEDIDEQIAELEAKRQRLVD 40 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44567889999999887754
No 136
>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=28.07 E-value=46 Score=21.27 Aligned_cols=19 Identities=32% Similarity=0.441 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHhcHhhhhc
Q 039361 89 DIERQRRQHLSMLHASLRS 107 (253)
Q Consensus 89 ~~ERqRR~kMn~lf~~LRS 107 (253)
+-=|.||++++..+..||.
T Consensus 11 eqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 11 EQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3448899999999988874
No 137
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=27.72 E-value=1.1e+02 Score=23.44 Aligned_cols=27 Identities=30% Similarity=0.427 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHhhh
Q 039361 124 INEARNYINYLNKNIQELGLKRDKLKN 150 (253)
Q Consensus 124 l~eAI~YIKeLq~rVkeLe~kK~~l~~ 150 (253)
|..||+-|--||-.|++|+.+...+..
T Consensus 13 IqqAvdtI~LLqmEieELKekn~~L~~ 39 (79)
T PRK15422 13 VQQAIDTITLLQMEIEELKEKNNSLSQ 39 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999999998766644
No 138
>smart00338 BRLZ basic region leucin zipper.
Probab=26.88 E-value=91 Score=22.01 Aligned_cols=24 Identities=21% Similarity=0.464 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHhHHHhhh
Q 039361 127 ARNYINYLNKNIQELGLKRDKLKN 150 (253)
Q Consensus 127 AI~YIKeLq~rVkeLe~kK~~l~~ 150 (253)
--.||.+|+.+++.|+..-..|..
T Consensus 24 Kk~~~~~Le~~~~~L~~en~~L~~ 47 (65)
T smart00338 24 KKAEIEELERKVEQLEAENERLKK 47 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346889999999998887666543
No 139
>PRK14639 hypothetical protein; Provisional
Probab=26.17 E-value=2.6e+02 Score=23.23 Aligned_cols=49 Identities=10% Similarity=-0.096 Sum_probs=34.1
Q ss_pred HHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcc-ccHHHHHHHHHhh
Q 039361 200 MEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTC-VDLRVLQLKLDHS 251 (253)
Q Consensus 200 m~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~-id~~~l~~kL~~~ 251 (253)
-.+++++|++++.+.+...++.-+..|.. .-.++.+ =|++.+.+.|..+
T Consensus 4 ep~~~~~G~eLvdve~~~~~~~~~lrV~I---d~~~gv~iddC~~vSr~is~~ 53 (140)
T PRK14639 4 EALCKECGVSFYDDELVSENGRKIYRVYI---TKEGGVNLDDCERLSELLSPI 53 (140)
T ss_pred hHhHHhCCCEEEEEEEEecCCCcEEEEEE---eCCCCCCHHHHHHHHHHHHHH
Confidence 45788899999999999988776667766 4334432 3466777766544
No 140
>cd04911 ACT_AKiii-YclM-BS_1 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first 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. Bacillus subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from Bacillus 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=25.89 E-value=1.3e+02 Score=22.61 Aligned_cols=35 Identities=17% Similarity=0.093 Sum_probs=26.2
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
+.+-+.++|++||++|+.+-+.-++-.+ +..+++-
T Consensus 14 evGF~rk~L~I~E~~~is~Eh~PSGID~--~Siii~~ 48 (76)
T cd04911 14 EVGFGRKLLSILEDNGISYEHMPSGIDD--ISIIIRD 48 (76)
T ss_pred hhcHHHHHHHHHHHcCCCEeeecCCCcc--EEEEEEc
Confidence 3445899999999999999988766544 5555554
No 141
>PRK06382 threonine dehydratase; Provisional
Probab=25.57 E-value=3.1e+02 Score=26.37 Aligned_cols=56 Identities=14% Similarity=0.090 Sum_probs=38.5
Q ss_pred CCCcchHHHHHHHHHHCCceEEEEEee----ee-CCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 190 KEENLKLSKVMEAVLEEGLDVIRCAST----QT-DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 190 ~~~~~~Ls~Vm~~Lee~gLdVvsassS----~~-~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
..+++.|.++...|.++|++|+++... .. .+....+|++ +..+. -....|.++|.+
T Consensus 338 ~D~pG~L~~l~~ii~~~~~nI~~v~~~~~~~~~~~~~~~v~i~v---et~~~--~~~~~v~~~L~~ 398 (406)
T PRK06382 338 PDRPGNLYRIANAIASNGGNIYHAEVDNLRKETPPGFQSVTFTV---NVRGQ--DHLDRILNALRE 398 (406)
T ss_pred CCCCCHHHHHHHHHhcCCCcEEEEEEeeccccCCCCcEEEEEEE---EeCCH--HHHHHHHHHHHH
Confidence 356789999999999999999988764 22 3455666777 44321 233477777764
No 142
>cd04910 ACT_AK-Ectoine_1 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 first 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: aspartokinase
Probab=24.93 E-value=2.9e+02 Score=20.44 Aligned_cols=47 Identities=11% Similarity=0.115 Sum_probs=31.6
Q ss_pred chHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCccccHHHHHHHHHh
Q 039361 194 LKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTCVDLRVLQLKLDH 250 (253)
Q Consensus 194 ~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~ 250 (253)
+.-.+||++|.++++.+++- .+.-+.+-|.+.. ..-...++...|.+
T Consensus 16 g~d~~i~~~l~~~~v~ii~K--~~nANtit~yl~~--------~~k~~~r~~~~Le~ 62 (71)
T cd04910 16 GYDLEILELLQRFKVSIIAK--DTNANTITHYLAG--------SLKTIKRLTEDLEN 62 (71)
T ss_pred hHHHHHHHHHHHcCCeEEEE--ecCCCeEEEEEEc--------CHHHHHHHHHHHHH
Confidence 36889999999999999998 4444555565655 12244555555543
No 143
>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=24.55 E-value=2.1e+02 Score=20.83 Aligned_cols=35 Identities=9% Similarity=0.040 Sum_probs=26.8
Q ss_pred CcchHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 192 ENLKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 192 ~~~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
.++.+.+|+++|.+.|+.|-....+. +.+.+++..
T Consensus 14 ~~g~~~~If~~la~~~I~vd~I~~s~--~~isftv~~ 48 (73)
T cd04934 14 SHGFLARIFAILDKYRLSVDLISTSE--VHVSMALHM 48 (73)
T ss_pred ccCHHHHHHHHHHHcCCcEEEEEeCC--CEEEEEEeh
Confidence 35679999999999999999886533 556666664
No 144
>PTZ00324 glutamate dehydrogenase 2; Provisional
Probab=23.65 E-value=4.7e+02 Score=28.95 Aligned_cols=79 Identities=10% Similarity=-0.063 Sum_probs=54.4
Q ss_pred CceEEEEEeC-CeeEEEEEeec---CCCcchHHHHHHHHHHCCceEEEEEeeee-CCeEEEEEEeeccccCCCccccHHH
Q 039361 169 QNCVTIHPYS-GGVEIVINSVH---KEENLKLSKVMEAVLEEGLDVIRCASTQT-DEGFFHTIQAEESQVGDLTCVDLRV 243 (253)
Q Consensus 169 ~p~V~V~~~~-~~veI~i~~~~---~~~~~~Ls~Vm~~Lee~gLdVvsassS~~-~~~~~~tI~a~~~kv~~~~~id~~~ 243 (253)
.|.+.+...+ ++-++.+.... ......|+.+++.+.-+||.+..+-+-++ |+..+|++-+ +-..+....-..
T Consensus 216 g~~i~~~~~~~~~~~~r~~~a~~r~~~~~~~~s~~~~~~~~~~l~~~R~Y~e~fsngv~i~s~yv---~~~~~~~~~~~~ 292 (1002)
T PTZ00324 216 GPVLHVNEVPRGGVSFTMAMAFRRRYYTASFFSRFGEIVTFHGAYSMSKYVEPFSNGVQVYTFFI---RGLTADDNPDLS 292 (1002)
T ss_pred CCeEEEEecCCCCcEEEEEEEEecCCcHhhHHHHHHHHHHhcCCccceEEEEEeeCCcEEEEEEE---ecCCCCCccccc
Confidence 4778887777 44555555533 22345799999999999999999988876 7889999988 555442222345
Q ss_pred HHHHHHh
Q 039361 244 LQLKLDH 250 (253)
Q Consensus 244 l~~kL~~ 250 (253)
+.+++.+
T Consensus 293 ~~~~~~~ 299 (1002)
T PTZ00324 293 IEDRASL 299 (1002)
T ss_pred HHHHHHh
Confidence 6666654
No 145
>PRK06635 aspartate kinase; Reviewed
Probab=23.06 E-value=5e+02 Score=24.62 Aligned_cols=49 Identities=8% Similarity=0.089 Sum_probs=33.0
Q ss_pred CeeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeCC-eEEEEEEe
Q 039361 179 GGVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTDE-GFFHTIQA 228 (253)
Q Consensus 179 ~~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~~-~~~~tI~a 228 (253)
+-..|.+.. ....++.+.+++.+|.+.|+.|...+.+...+ ..-++|.+
T Consensus 261 ~v~~Isv~g-~~~~~g~l~~i~~~L~~~~I~i~~is~s~~~~~~~~is~~v 310 (404)
T PRK06635 261 DEAKVTVVG-VPDKPGIAAQIFGALAEANINVDMIVQNVSEDGKTDITFTV 310 (404)
T ss_pred CeEEEEECC-CCCCccHHHHHHHHHHHcCCeEEEEEecCCCCCceeEEEEE
Confidence 344566655 34456789999999999999999876664332 34444444
No 146
>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=22.77 E-value=2.5e+02 Score=18.87 Aligned_cols=26 Identities=15% Similarity=0.175 Sum_probs=20.5
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEee
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCAST 216 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS 216 (253)
..++.+.+++.+|.+.|+.|.....+
T Consensus 11 ~~~g~~~~i~~~L~~~~I~i~~i~~~ 36 (75)
T cd04913 11 DKPGVAAKIFGALAEANINVDMIVQN 36 (75)
T ss_pred CCCcHHHHHHHHHHHcCCeEEEEEeC
Confidence 34567999999999999999755433
No 147
>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=22.74 E-value=2.5e+02 Score=26.85 Aligned_cols=35 Identities=17% Similarity=0.349 Sum_probs=29.4
Q ss_pred CCCchhhhHHHHHHHHHHHHHHHHHHHHhHHHhhh
Q 039361 116 GKRSISDHINEARNYINYLNKNIQELGLKRDKLKN 150 (253)
Q Consensus 116 ~K~Sis~il~eAI~YIKeLq~rVkeLe~kK~~l~~ 150 (253)
.+.+++.+|.++-+-.+.|+..|++|..+-.++.+
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 56789999999999999999999999987654433
No 148
>PRK15385 magnesium transport protein MgtC; Provisional
Probab=21.79 E-value=5.1e+02 Score=23.48 Aligned_cols=65 Identities=6% Similarity=0.032 Sum_probs=40.3
Q ss_pred eeEEEEEeecCCCcchHHHHHHHHHHCCceEEEEEeeeeC--C--eEEEEEEeeccccCCCccccHHHHHHHHH
Q 039361 180 GVEIVINSVHKEENLKLSKVMEAVLEEGLDVIRCASTQTD--E--GFFHTIQAEESQVGDLTCVDLRVLQLKLD 249 (253)
Q Consensus 180 ~veI~i~~~~~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~--~--~~~~tI~a~~~kv~~~~~id~~~l~~kL~ 249 (253)
...+.++|....+......+++.|++.++.+.+.++...+ + .+..++.+ +..+ ....+.+-.+|.
T Consensus 142 ~~~~~v~~~~~~~~~vr~~L~~~l~~~~~~~~~l~~~~~~~~~~~ei~a~l~~---~~~~--~~~le~iv~~L~ 210 (225)
T PRK15385 142 RYILKVTCNKEDESAVRQWLLNIVKEAAICLQGLGSVPAQEQGYKEIRAELVG---HADY--RKTRELIISRIG 210 (225)
T ss_pred EEEEEEEEcCcchhHHHHHHHHHHHhCCCceEEeEeeecCCCCeEEEEEEEEe---cCCc--hhhHHHHHHHHh
Confidence 4567777854333234688889999999999999997653 3 34445555 3322 234555555543
No 149
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=21.14 E-value=3.6e+02 Score=20.14 Aligned_cols=54 Identities=17% Similarity=0.180 Sum_probs=36.6
Q ss_pred CCcchHHHHHHHHHHCCceEEEEEeeee--CCeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 191 EENLKLSKVMEAVLEEGLDVIRCASTQT--DEGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 191 ~~~~~Ls~Vm~~Lee~gLdVvsassS~~--~~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
++++.|.+++..+..-|+.|-+.+.... ++..-.+|.+ . + .-.++.|..-|.++
T Consensus 12 n~pGVL~Ri~~lf~rRGfnI~sl~v~~t~~~~~sriti~v---~--~--~~~i~ql~kQL~KL 67 (76)
T PRK11152 12 FRPEVLERVLRVVRHRGFQVCSMNMTQNTDAQNINIELTV---A--S--ERPIDLLSSQLNKL 67 (76)
T ss_pred CCccHHHHHHHHHhcCCeeeeeEEeeecCCCCEEEEEEEE---C--C--CchHHHHHHHHhcC
Confidence 4678899999999999999999988874 3444445555 2 2 22445555555443
No 150
>PRK11899 prephenate dehydratase; Provisional
Probab=21.08 E-value=5.2e+02 Score=23.96 Aligned_cols=57 Identities=14% Similarity=0.125 Sum_probs=40.4
Q ss_pred CCCcchHHHHHHHHHHCCceEEEEEeeeeC-CeEEEEEEeeccccCCCccccHHHHHHHHHhh
Q 039361 190 KEENLKLSKVMEAVLEEGLDVIRCASTQTD-EGFFHTIQAEESQVGDLTCVDLRVLQLKLDHS 251 (253)
Q Consensus 190 ~~~~~~Ls~Vm~~Lee~gLdVvsassS~~~-~~~~~tI~a~~~kv~~~~~id~~~l~~kL~~~ 251 (253)
..+++.|.++|.++-..|+......|-... ...-|.|-. .+.+. .+-..++++|.++
T Consensus 202 ~~~pGaL~~vL~~Fa~~gINLtkIeSRP~~~~~~~Y~F~i---d~eg~--~~d~~v~~aL~~l 259 (279)
T PRK11899 202 RNIPAALYKALGGFATNGVNMTKLESYMVGGSFTATQFYA---DIEGH--PEDRNVALALEEL 259 (279)
T ss_pred CCCCChHHHHHHHHHHcCCCeeeEEeeecCCCCceEEEEE---EEECC--CCCHHHHHHHHHH
Confidence 356788999999999999999999988764 445666666 45442 2344566666553
No 151
>PRK14640 hypothetical protein; Provisional
Probab=20.70 E-value=3.8e+02 Score=22.45 Aligned_cols=48 Identities=4% Similarity=-0.026 Sum_probs=32.0
Q ss_pred HHHHHCCceEEEEEeeeeCCeEEEEEEeeccccCCCcc-ccHHHHHHHHHhh
Q 039361 201 EAVLEEGLDVIRCASTQTDEGFFHTIQAEESQVGDLTC-VDLRVLQLKLDHS 251 (253)
Q Consensus 201 ~~Lee~gLdVvsassS~~~~~~~~tI~a~~~kv~~~~~-id~~~l~~kL~~~ 251 (253)
..++++|++++.+.+...++.-+..|.. --.+|.. =|++++.++|..+
T Consensus 14 p~~~~~G~el~dve~~~~~~~~~lrV~I---D~~~gv~lddC~~vSr~is~~ 62 (152)
T PRK14640 14 APVVALGFELWGIEFIRAGKHSTLRVYI---DGENGVSVENCAEVSHQVGAI 62 (152)
T ss_pred HHHHhcCCEEEEEEEEecCCCcEEEEEE---ECCCCCCHHHHHHHHHHHHHH
Confidence 3577789999999999877655556665 3333432 2466777777654
No 152
>KOG3896 consensus Dynactin, subunit p62 [Cell motility]
Probab=20.18 E-value=1e+02 Score=29.98 Aligned_cols=26 Identities=27% Similarity=0.502 Sum_probs=22.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhHHH
Q 039361 122 DHINEARNYINYLNKNIQELGLKRDK 147 (253)
Q Consensus 122 ~il~eAI~YIKeLq~rVkeLe~kK~~ 147 (253)
..+++-++|.+.|+++++.++.-|.+
T Consensus 139 ~r~n~l~eY~q~Laek~Ek~e~drkK 164 (449)
T KOG3896|consen 139 NRLNELTEYMQRLAEKIEKAEKDRKK 164 (449)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHhc
Confidence 35899999999999999999876544
No 153
>PF13224 DUF4032: Domain of unknown function (DUF4032)
Probab=20.12 E-value=2.2e+02 Score=24.68 Aligned_cols=35 Identities=26% Similarity=0.301 Sum_probs=29.3
Q ss_pred chHHHHHHHHHHCCceEEEEEeeeeCCeEEEEEEe
Q 039361 194 LKLSKVMEAVLEEGLDVIRCASTQTDEGFFHTIQA 228 (253)
Q Consensus 194 ~~Ls~Vm~~Lee~gLdVvsassS~~~~~~~~tI~a 228 (253)
....+=+..|.++|++|-...+++.++---..|+.
T Consensus 19 ~ri~~ri~rLN~LGFdV~El~~~~~~~g~~~~i~p 53 (165)
T PF13224_consen 19 WRIEERIRRLNELGFDVGELEITTDDDGTRLRIQP 53 (165)
T ss_pred HHHHHHHHHHHhcCCceeeeEeEEcCCCCEEEEEe
Confidence 44667788999999999999999988776777777
Done!