Query 042465
Match_columns 324
No_of_seqs 254 out of 1328
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 06:26:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042465.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042465hhsearch_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 6.1E-13 1.3E-17 96.3 3.5 49 133-181 2-55 (55)
2 cd00083 HLH Helix-loop-helix d 99.3 1.4E-12 3.1E-17 95.1 4.5 53 132-184 4-59 (60)
3 smart00353 HLH helix loop heli 99.3 7.5E-12 1.6E-16 89.5 5.6 49 137-185 1-52 (53)
4 KOG1319 bHLHZip transcription 99.2 2.1E-11 4.6E-16 108.0 4.2 71 128-198 58-135 (229)
5 KOG1318 Helix loop helix trans 99.1 3.5E-10 7.7E-15 111.7 8.9 57 131-187 232-292 (411)
6 KOG2483 Upstream transcription 98.7 1E-07 2.2E-12 88.4 10.2 67 129-195 56-125 (232)
7 KOG4304 Transcriptional repres 98.4 1.6E-07 3.5E-12 88.1 3.4 55 131-185 31-93 (250)
8 cd04897 ACT_ACR_3 ACT domain-c 98.3 9.9E-06 2.2E-10 62.8 9.8 67 242-311 3-73 (75)
9 KOG2588 Predicted DNA-binding 98.2 4.7E-07 1E-11 96.7 2.4 65 131-195 275-340 (953)
10 KOG3561 Aryl-hydrocarbon recep 98.2 1.4E-06 3.1E-11 92.7 5.0 51 133-183 21-75 (803)
11 cd04895 ACT_ACR_1 ACT domain-c 98.2 1.8E-05 3.8E-10 60.9 9.6 67 242-311 3-69 (72)
12 cd04896 ACT_ACR-like_3 ACT dom 98.1 1.7E-05 3.6E-10 61.5 8.3 66 242-311 2-73 (75)
13 KOG3960 Myogenic helix-loop-he 98.1 1.1E-05 2.5E-10 74.9 7.4 65 131-195 117-183 (284)
14 cd04927 ACT_ACR-like_2 Second 98.1 3.2E-05 6.9E-10 59.6 8.7 48 241-289 1-49 (76)
15 KOG0561 bHLH transcription fac 97.9 3E-06 6.5E-11 80.5 1.1 65 131-195 59-125 (373)
16 cd04900 ACT_UUR-like_1 ACT dom 97.9 0.00015 3.3E-09 55.0 10.2 67 242-311 3-70 (73)
17 cd04925 ACT_ACR_2 ACT domain-c 97.8 0.00031 6.7E-09 53.7 10.0 67 242-310 2-72 (74)
18 PLN03217 transcription factor 97.7 9.5E-05 2.1E-09 58.2 6.0 53 145-197 20-78 (93)
19 PF13740 ACT_6: ACT domain; PD 97.5 0.00084 1.8E-08 51.4 9.1 72 240-317 2-73 (76)
20 cd04899 ACT_ACR-UUR-like_2 C-t 97.5 0.0015 3.3E-08 48.3 9.9 66 242-311 2-67 (70)
21 cd04928 ACT_TyrKc Uncharacteri 97.5 0.0014 3E-08 49.9 9.5 64 242-310 3-67 (68)
22 KOG4029 Transcription factor H 97.3 0.00025 5.4E-09 65.7 4.5 57 132-188 109-169 (228)
23 cd04926 ACT_ACR_4 C-terminal 97.3 0.0037 8E-08 47.4 9.7 67 241-311 2-68 (72)
24 cd04893 ACT_GcvR_1 ACT domains 97.0 0.0073 1.6E-07 46.4 9.5 71 241-317 2-72 (77)
25 PRK00194 hypothetical protein; 96.8 0.009 1.9E-07 46.8 8.6 74 240-317 3-76 (90)
26 cd04869 ACT_GcvR_2 ACT domains 96.8 0.016 3.4E-07 44.1 9.6 71 243-318 2-78 (81)
27 cd04873 ACT_UUR-ACR-like ACT d 96.8 0.021 4.5E-07 41.6 9.8 66 242-311 2-67 (70)
28 cd04872 ACT_1ZPV ACT domain pr 96.8 0.0098 2.1E-07 46.6 8.5 73 241-317 2-74 (88)
29 PF01842 ACT: ACT domain; Int 96.7 0.015 3.3E-07 41.9 8.7 38 241-279 1-38 (66)
30 cd04894 ACT_ACR-like_1 ACT dom 96.7 0.0086 1.9E-07 44.9 7.1 66 242-309 2-67 (69)
31 PRK05007 PII uridylyl-transfer 96.7 0.007 1.5E-07 66.4 9.3 69 240-311 808-879 (884)
32 cd04886 ACT_ThrD-II-like C-ter 96.6 0.022 4.8E-07 41.3 8.9 67 243-318 1-72 (73)
33 PF13291 ACT_4: ACT domain; PD 96.6 0.034 7.4E-07 42.4 10.2 51 241-292 7-59 (80)
34 cd04875 ACT_F4HF-DF N-terminal 96.6 0.027 5.8E-07 42.5 9.3 70 243-314 2-71 (74)
35 cd04870 ACT_PSP_1 CT domains f 96.5 0.025 5.4E-07 42.9 8.7 70 243-317 2-71 (75)
36 PRK00275 glnD PII uridylyl-tra 96.2 0.036 7.8E-07 61.0 11.5 71 239-312 813-887 (895)
37 PRK04374 PII uridylyl-transfer 96.2 0.04 8.6E-07 60.5 11.4 69 239-310 795-866 (869)
38 PRK03059 PII uridylyl-transfer 96.0 0.033 7.2E-07 61.0 9.7 70 239-310 785-854 (856)
39 PRK01759 glnD PII uridylyl-tra 96.0 0.029 6.3E-07 61.4 9.1 68 240-310 783-853 (854)
40 PRK03381 PII uridylyl-transfer 95.9 0.042 9E-07 59.6 10.1 72 238-312 597-668 (774)
41 PRK05092 PII uridylyl-transfer 95.8 0.07 1.5E-06 59.0 11.4 72 240-312 843-916 (931)
42 PRK03381 PII uridylyl-transfer 95.7 0.056 1.2E-06 58.6 9.8 67 240-311 707-773 (774)
43 cd04887 ACT_MalLac-Enz ACT_Mal 95.5 0.1 2.2E-06 38.8 8.1 49 243-292 2-51 (74)
44 TIGR01693 UTase_glnD [Protein- 95.4 0.085 1.8E-06 57.7 10.1 68 240-310 779-849 (850)
45 KOG3910 Helix loop helix trans 95.4 0.011 2.4E-07 60.0 3.0 55 132-186 526-584 (632)
46 TIGR01693 UTase_glnD [Protein- 95.3 0.11 2.3E-06 56.9 10.4 76 238-314 666-744 (850)
47 cd04908 ACT_Bt0572_1 N-termina 95.3 0.14 3E-06 37.7 7.9 62 242-317 3-64 (66)
48 COG2844 GlnD UTP:GlnB (protein 95.2 0.08 1.7E-06 57.1 8.8 80 229-312 779-859 (867)
49 cd04883 ACT_AcuB C-terminal AC 95.1 0.2 4.4E-06 36.8 8.6 66 241-318 2-69 (72)
50 cd04909 ACT_PDH-BS C-terminal 95.0 0.15 3.2E-06 37.5 7.4 65 242-317 3-69 (69)
51 PRK05007 PII uridylyl-transfer 94.7 0.16 3.5E-06 55.9 9.9 75 238-313 699-775 (884)
52 PRK01759 glnD PII uridylyl-tra 94.6 0.17 3.6E-06 55.6 9.7 74 238-314 675-752 (854)
53 PRK00275 glnD PII uridylyl-tra 94.6 0.2 4.4E-06 55.2 10.2 74 239-313 703-780 (895)
54 cd04888 ACT_PheB-BS C-terminal 94.3 0.24 5.2E-06 36.8 7.1 50 242-292 2-52 (76)
55 cd04882 ACT_Bt0572_2 C-termina 94.3 0.22 4.7E-06 35.7 6.6 62 243-318 2-65 (65)
56 PRK03059 PII uridylyl-transfer 94.1 0.21 4.6E-06 54.8 8.9 74 239-313 677-752 (856)
57 PRK05092 PII uridylyl-transfer 94.0 0.36 7.7E-06 53.5 10.6 74 239-313 731-807 (931)
58 KOG4447 Transcription factor T 93.9 0.033 7.1E-07 48.6 1.9 49 133-181 79-129 (173)
59 PRK04374 PII uridylyl-transfer 93.6 0.36 7.8E-06 53.1 9.7 74 238-313 688-762 (869)
60 PRK04435 hypothetical protein; 93.5 0.44 9.5E-06 41.3 8.3 56 236-292 65-121 (147)
61 PRK06027 purU formyltetrahydro 93.5 0.68 1.5E-05 44.4 10.3 75 240-318 6-82 (286)
62 TIGR00655 PurU formyltetrahydr 93.3 0.56 1.2E-05 45.0 9.3 72 242-317 2-76 (280)
63 PRK13011 formyltetrahydrofolat 93.2 0.7 1.5E-05 44.4 9.9 76 240-318 7-82 (286)
64 cd04881 ACT_HSDH-Hom ACT_HSDH_ 93.2 0.2 4.3E-06 36.7 5.0 49 241-290 1-51 (79)
65 cd04877 ACT_TyrR N-terminal AC 93.2 0.38 8.2E-06 36.2 6.5 46 242-291 2-47 (74)
66 PRK13010 purU formyltetrahydro 92.7 0.68 1.5E-05 44.6 9.1 75 241-318 10-86 (289)
67 cd04876 ACT_RelA-SpoT ACT dom 92.2 0.8 1.7E-05 31.6 6.8 48 243-291 1-49 (71)
68 cd02116 ACT ACT domains are co 92.0 0.99 2.2E-05 29.3 6.8 35 243-278 1-35 (60)
69 PRK08577 hypothetical protein; 91.2 1.9 4.1E-05 36.5 9.2 53 239-292 55-109 (136)
70 PRK11589 gcvR glycine cleavage 91.0 0.73 1.6E-05 41.8 6.7 72 240-317 8-79 (190)
71 cd04878 ACT_AHAS N-terminal AC 90.6 1.1 2.4E-05 32.0 6.3 48 242-290 2-51 (72)
72 PRK07334 threonine dehydratase 90.6 1.6 3.5E-05 43.6 9.4 69 240-317 326-399 (403)
73 cd04874 ACT_Af1403 N-terminal 90.5 1.4 3E-05 31.6 6.8 35 242-277 2-36 (72)
74 KOG3898 Transcription factor N 90.3 0.5 1.1E-05 44.7 5.3 51 132-182 72-125 (254)
75 KOG3560 Aryl-hydrocarbon recep 89.8 0.42 9.2E-06 49.5 4.6 42 137-178 30-75 (712)
76 cd04880 ACT_AAAH-PDT-like ACT 89.1 3.5 7.5E-05 30.8 8.1 47 244-291 3-50 (75)
77 cd04889 ACT_PDH-BS-like C-term 88.5 1.7 3.8E-05 30.5 5.8 46 243-289 1-47 (56)
78 cd04905 ACT_CM-PDT C-terminal 88.1 6.7 0.00015 29.7 9.3 59 243-306 4-63 (80)
79 cd04879 ACT_3PGDH-like ACT_3PG 88.1 2.1 4.6E-05 30.3 6.2 44 243-287 2-47 (71)
80 cd04884 ACT_CBS C-terminal ACT 88.0 4.7 0.0001 29.8 8.2 66 243-318 2-70 (72)
81 cd04903 ACT_LSD C-terminal ACT 87.9 3.6 7.9E-05 29.2 7.4 33 243-276 2-34 (71)
82 COG3830 ACT domain-containing 87.7 1.9 4.1E-05 34.6 6.0 74 241-318 4-77 (90)
83 PRK06382 threonine dehydratase 87.4 2.9 6.3E-05 41.8 8.7 73 238-319 328-405 (406)
84 cd04885 ACT_ThrD-I Tandem C-te 86.5 5.7 0.00012 29.3 7.9 65 244-318 2-67 (68)
85 KOG3558 Hypoxia-inducible fact 86.4 0.47 1E-05 50.4 2.5 47 133-179 47-97 (768)
86 PRK08526 threonine dehydratase 84.4 6.7 0.00014 39.4 9.6 76 237-321 323-403 (403)
87 KOG3559 Transcriptional regula 84.4 1 2.3E-05 45.3 3.7 42 139-180 8-53 (598)
88 KOG4395 Transcription factor A 84.4 1.5 3.3E-05 41.4 4.6 51 132-182 174-227 (285)
89 cd04904 ACT_AAAH ACT domain of 83.3 10 0.00022 28.6 8.1 47 244-291 4-51 (74)
90 cd04906 ACT_ThrD-I_1 First of 82.8 11 0.00023 29.2 8.2 69 241-319 2-71 (85)
91 TIGR01127 ilvA_1Cterm threonin 82.1 6.4 0.00014 38.8 8.3 71 238-317 303-378 (380)
92 cd04901 ACT_3PGDH C-terminal A 80.7 2.4 5.2E-05 30.6 3.7 47 243-290 2-48 (69)
93 KOG3582 Mlx interactors and re 80.6 0.79 1.7E-05 48.8 1.3 66 131-196 650-720 (856)
94 PRK10872 relA (p)ppGpp synthet 80.1 11 0.00023 41.2 9.6 51 241-292 667-719 (743)
95 cd04931 ACT_PAH ACT domain of 79.6 23 0.00049 28.2 9.2 63 241-309 15-78 (90)
96 PRK00227 glnD PII uridylyl-tra 79.1 10 0.00022 41.1 9.0 70 239-312 545-615 (693)
97 TIGR00691 spoT_relA (p)ppGpp s 78.6 12 0.00027 40.2 9.6 51 241-292 611-662 (683)
98 COG0788 PurU Formyltetrahydrof 78.5 13 0.00029 35.6 8.7 68 240-309 7-74 (287)
99 PRK08198 threonine dehydratase 78.1 15 0.00033 36.5 9.6 72 238-318 325-401 (404)
100 cd04929 ACT_TPH ACT domain of 78.1 21 0.00046 27.2 8.3 57 245-308 5-62 (74)
101 PRK11092 bifunctional (p)ppGpp 78.1 13 0.00029 40.2 9.6 51 241-292 627-678 (702)
102 PF13710 ACT_5: ACT domain; PD 78.0 12 0.00027 27.5 6.8 42 249-291 1-42 (63)
103 TIGR00119 acolac_sm acetolacta 77.2 12 0.00025 33.0 7.5 47 242-289 3-51 (157)
104 PRK11589 gcvR glycine cleavage 76.9 15 0.00032 33.3 8.3 75 241-318 96-174 (190)
105 PF05088 Bac_GDH: Bacterial NA 76.4 14 0.0003 43.3 9.7 71 239-312 488-563 (1528)
106 PRK11152 ilvM acetolactate syn 76.1 12 0.00026 28.9 6.5 46 241-287 4-51 (76)
107 cd04902 ACT_3PGDH-xct C-termin 75.9 7.2 0.00016 28.3 5.0 46 243-289 2-49 (73)
108 PRK11895 ilvH acetolactate syn 75.1 14 0.0003 32.7 7.4 47 242-289 4-52 (161)
109 PRK06737 acetolactate synthase 74.1 16 0.00035 28.3 6.7 48 241-289 3-50 (76)
110 PRK13562 acetolactate synthase 73.9 20 0.00044 28.4 7.3 48 242-290 4-51 (84)
111 cd04922 ACT_AKi-HSDH-ThrA_2 AC 72.3 28 0.00062 24.5 7.4 60 242-311 3-65 (66)
112 CHL00100 ilvH acetohydroxyacid 69.0 25 0.00055 31.5 7.7 65 242-310 4-68 (174)
113 cd04916 ACT_AKiii-YclM-BS_2 AC 68.8 37 0.0008 23.9 7.4 60 242-311 3-65 (66)
114 COG4492 PheB ACT domain-contai 65.2 37 0.0008 29.4 7.5 54 237-291 69-123 (150)
115 COG3978 Acetolactate synthase 64.4 48 0.001 26.2 7.4 63 241-308 4-66 (86)
116 COG2844 GlnD UTP:GlnB (protein 63.4 40 0.00087 37.1 9.1 56 236-292 680-736 (867)
117 cd04930 ACT_TH ACT domain of t 62.2 65 0.0014 26.7 8.4 49 243-292 44-93 (115)
118 COG2061 ACT-domain-containing 59.8 58 0.0013 28.9 7.9 68 241-317 6-76 (170)
119 cd04892 ACT_AK-like_2 ACT doma 59.4 53 0.0012 22.3 7.3 33 242-275 2-37 (65)
120 COG4747 ACT domain-containing 57.3 66 0.0014 27.5 7.5 62 242-317 5-66 (142)
121 PF06005 DUF904: Protein of un 55.0 25 0.00053 27.0 4.4 26 170-195 13-38 (72)
122 COG3074 Uncharacterized protei 54.9 22 0.00047 27.4 3.9 28 170-197 13-40 (79)
123 TIGR02079 THD1 threonine dehyd 54.3 93 0.002 31.2 9.6 73 238-319 323-397 (409)
124 cd04868 ACT_AK-like ACT domain 53.2 64 0.0014 21.3 6.0 25 250-275 13-37 (60)
125 KOG4447 Transcription factor T 49.8 13 0.00027 32.9 2.2 43 139-181 29-73 (173)
126 PRK12483 threonine dehydratase 49.5 1.3E+02 0.0029 31.4 10.1 73 237-319 342-415 (521)
127 KOG3582 Mlx interactors and re 47.9 6 0.00013 42.4 -0.0 60 132-194 787-851 (856)
128 PRK00227 glnD PII uridylyl-tra 46.9 33 0.00072 37.1 5.4 61 241-312 632-692 (693)
129 KOG4005 Transcription factor X 46.5 85 0.0018 29.8 7.2 57 133-196 60-118 (292)
130 PRK08178 acetolactate synthase 46.2 96 0.0021 25.2 6.7 50 240-290 8-57 (96)
131 PRK15422 septal ring assembly 45.3 39 0.00085 26.5 4.1 28 170-197 13-40 (79)
132 COG0317 SpoT Guanosine polypho 44.5 72 0.0016 34.7 7.3 51 241-292 628-679 (701)
133 cd04919 ACT_AK-Hom3_2 ACT doma 44.0 1.1E+02 0.0024 21.5 7.4 27 249-276 13-39 (66)
134 smart00338 BRLZ basic region l 43.4 32 0.0007 25.2 3.3 25 174-198 25-49 (65)
135 PRK08639 threonine dehydratase 42.9 1.9E+02 0.004 29.2 9.8 74 237-319 333-408 (420)
136 PF02344 Myc-LZ: Myc leucine z 42.1 28 0.0006 22.6 2.3 17 140-156 13-29 (32)
137 COG2716 GcvR Glycine cleavage 41.4 35 0.00075 30.7 3.7 63 240-308 5-67 (176)
138 PRK11899 prephenate dehydratas 40.1 1.7E+02 0.0037 28.1 8.5 62 243-309 197-259 (279)
139 cd04937 ACT_AKi-DapG-BS_2 ACT 38.3 1.5E+02 0.0032 21.2 7.1 30 243-273 4-36 (64)
140 PRK05974 phosphoribosylformylg 37.6 1.5E+02 0.0033 22.7 6.5 56 249-313 9-69 (80)
141 cd04871 ACT_PSP_2 ACT domains 37.2 45 0.00098 25.8 3.5 69 243-317 2-80 (84)
142 PF14566 PTPlike_phytase: Inos 37.0 9.6 0.00021 32.8 -0.4 31 17-47 103-133 (149)
143 PF09849 DUF2076: Uncharacteri 36.7 69 0.0015 30.4 5.2 50 144-196 6-76 (247)
144 cd04890 ACT_AK-like_1 ACT doma 36.2 1.4E+02 0.0031 20.8 5.8 24 249-273 12-35 (62)
145 PF08826 DMPK_coil: DMPK coile 35.2 83 0.0018 23.5 4.4 53 139-196 8-60 (61)
146 PRK15385 magnesium transport p 35.1 3.4E+02 0.0074 25.4 9.4 52 239-291 141-196 (225)
147 PRK09224 threonine dehydratase 34.0 2.7E+02 0.0058 28.9 9.5 72 238-319 326-398 (504)
148 cd04924 ACT_AK-Arch_2 ACT doma 34.0 1.6E+02 0.0035 20.4 7.3 32 242-274 3-37 (66)
149 cd04933 ACT_AK1-AT_1 ACT domai 33.8 2.2E+02 0.0047 21.9 7.7 66 242-314 3-72 (78)
150 PF02185 HR1: Hr1 repeat; Int 33.5 1.8E+02 0.0038 21.6 6.1 49 146-198 15-63 (70)
151 PF13840 ACT_7: ACT domain ; P 33.4 82 0.0018 23.0 4.2 34 239-273 5-42 (65)
152 cd04921 ACT_AKi-HSDH-ThrA-like 33.4 1.7E+02 0.0038 21.4 6.1 69 242-316 3-74 (80)
153 PF00170 bZIP_1: bZIP transcri 33.3 61 0.0013 23.7 3.4 21 175-195 26-46 (64)
154 TIGR01124 ilvA_2Cterm threonin 32.5 3E+02 0.0066 28.5 9.6 71 238-319 323-394 (499)
155 cd04918 ACT_AK1-AT_2 ACT domai 32.4 1.9E+02 0.0041 20.8 6.0 27 249-276 12-38 (65)
156 PF02120 Flg_hook: Flagellar h 31.8 1.7E+02 0.0037 21.9 5.9 46 229-276 27-78 (85)
157 PF05687 DUF822: Plant protein 31.4 93 0.002 27.2 4.7 26 132-157 11-36 (150)
158 PF09006 Surfac_D-trimer: Lung 30.0 78 0.0017 22.4 3.2 22 177-198 1-22 (46)
159 COG1828 PurS Phosphoribosylfor 29.8 2.2E+02 0.0047 22.6 6.1 49 255-312 20-69 (83)
160 PF14197 Cep57_CLD_2: Centroso 29.6 1E+02 0.0022 23.4 4.1 28 168-195 40-67 (69)
161 cd04932 ACT_AKiii-LysC-EC_1 AC 29.4 2.5E+02 0.0054 21.1 8.3 57 248-313 12-68 (75)
162 PF14689 SPOB_a: Sensor_kinase 29.0 1.8E+02 0.0039 21.2 5.4 40 141-187 17-56 (62)
163 PRK14637 hypothetical protein; 28.9 2.5E+02 0.0055 24.4 7.1 60 249-311 6-66 (151)
164 PRK14646 hypothetical protein; 28.4 2.6E+02 0.0056 24.4 7.1 56 255-311 11-67 (155)
165 PF10393 Matrilin_ccoil: Trime 27.9 1.4E+02 0.003 21.1 4.3 28 170-197 18-45 (47)
166 cd04923 ACT_AK-LysC-DapG-like_ 27.4 2E+02 0.0044 19.5 7.1 31 243-274 3-36 (63)
167 KOG3540 Beta amyloid precursor 26.7 1.9E+02 0.0042 30.2 6.7 55 137-191 256-312 (615)
168 PF00403 HMA: Heavy-metal-asso 26.0 86 0.0019 22.1 3.1 53 251-316 10-62 (62)
169 PF07716 bZIP_2: Basic region 25.8 1E+02 0.0022 21.8 3.4 21 175-195 25-45 (54)
170 COG1591 Holliday junction reso 25.7 2.9E+02 0.0063 23.9 6.7 58 251-309 7-75 (137)
171 PF06305 DUF1049: Protein of u 25.6 66 0.0014 23.4 2.5 17 177-193 50-66 (68)
172 PRK14645 hypothetical protein; 25.6 3.2E+02 0.0069 23.9 7.2 58 254-312 12-70 (154)
173 PLN02550 threonine dehydratase 25.4 2.2E+02 0.0049 30.3 7.2 71 238-319 415-486 (591)
174 PF07544 Med9: RNA polymerase 24.8 2.9E+02 0.0063 21.4 6.1 50 145-196 31-80 (83)
175 PRK11898 prephenate dehydratas 24.3 4.6E+02 0.01 25.0 8.6 63 242-309 198-262 (283)
176 PRK14623 hypothetical protein; 23.3 3.6E+02 0.0079 22.2 6.6 20 174-193 7-26 (106)
177 cd04912 ACT_AKiii-LysC-EC-like 23.2 3.1E+02 0.0068 20.2 6.7 31 242-273 3-36 (75)
178 PRK14626 hypothetical protein; 23.0 3.7E+02 0.0081 22.2 6.7 25 170-194 7-31 (110)
179 PLN02705 beta-amylase 22.2 1.2E+02 0.0027 32.4 4.5 28 130-157 82-109 (681)
180 PF02700 PurS: Phosphoribosylf 22.0 2.2E+02 0.0048 22.1 4.9 49 255-312 19-68 (80)
181 COG4747 ACT domain-containing 21.9 4.8E+02 0.01 22.4 7.1 62 243-319 72-135 (142)
182 PF11619 P53_C: Transcription 21.6 1.1E+02 0.0025 23.2 3.0 35 230-264 6-40 (71)
183 PRK14624 hypothetical protein; 21.3 4.1E+02 0.0089 22.2 6.7 20 177-196 8-27 (115)
184 TIGR01834 PHA_synth_III_E poly 21.2 2.4E+02 0.0051 27.9 6.0 31 167-197 288-318 (320)
185 cd04898 ACT_ACR-like_4 ACT dom 21.1 2.3E+02 0.0051 22.1 4.7 62 244-307 4-67 (77)
186 cd04913 ACT_AKii-LysC-BS-like_ 20.8 3E+02 0.0066 19.1 6.4 25 248-273 10-34 (75)
187 TIGR01268 Phe4hydrox_tetr phen 20.8 5.3E+02 0.011 26.6 8.6 48 243-291 19-67 (436)
188 TIGR01270 Trp_5_monoox tryptop 20.8 4.7E+02 0.01 27.2 8.2 50 242-292 33-84 (464)
189 COG0077 PheA Prephenate dehydr 20.7 4.8E+02 0.01 25.2 7.9 62 243-309 197-259 (279)
190 cd04936 ACT_AKii-LysC-BS-like_ 20.5 2.9E+02 0.0062 18.7 6.8 24 249-273 12-35 (63)
191 COG2716 GcvR Glycine cleavage 20.4 2.8E+02 0.0061 25.0 5.8 68 240-308 92-161 (176)
192 PF10458 Val_tRNA-synt_C: Valy 20.2 3.3E+02 0.0071 20.0 5.4 53 142-194 11-65 (66)
193 PF13591 MerR_2: MerR HTH fami 20.1 1.6E+02 0.0034 22.8 3.8 24 172-195 60-83 (84)
194 PF03927 NapD: NapD protein; 20.1 2.9E+02 0.0062 21.2 5.2 46 227-275 26-72 (79)
195 PF11336 DUF3138: Protein of u 20.0 95 0.0021 31.9 3.0 24 175-198 25-48 (514)
196 PRK10622 pheA bifunctional cho 20.0 5.6E+02 0.012 25.7 8.5 58 247-309 304-362 (386)
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=6.1e-13 Score=96.30 Aligned_cols=49 Identities=33% Similarity=0.629 Sum_probs=46.4
Q ss_pred CcccchHHHHHHHHHHHHHHHHHhcCCCC-----CCCCcccHHHHHHHHHHHHH
Q 042465 133 RSRTLISEQKRRGKMKEKLYQLRALVPNI-----TKMDKASLVGDAVSYVQELQ 181 (324)
Q Consensus 133 r~~h~~~ER~RR~~in~~~~~LrslvP~~-----~K~dKasIL~~Ai~YIk~Lq 181 (324)
|..|+..||+||.+||.+|..|+.+||.. .|++|++||..||+||++||
T Consensus 2 R~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 2 RQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 67899999999999999999999999976 68999999999999999997
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=99.32 E-value=1.4e-12 Score=95.14 Aligned_cols=53 Identities=30% Similarity=0.603 Sum_probs=49.8
Q ss_pred cCcccchHHHHHHHHHHHHHHHHHhcCCCC---CCCCcccHHHHHHHHHHHHHHHH
Q 042465 132 HRSRTLISEQKRRGKMKEKLYQLRALVPNI---TKMDKASLVGDAVSYVQELQTTA 184 (324)
Q Consensus 132 ~r~~h~~~ER~RR~~in~~~~~LrslvP~~---~K~dKasIL~~Ai~YIk~Lq~~~ 184 (324)
++..|+..||+||++||..|..|+++||.. .|++|++||..||+||+.|+.++
T Consensus 4 ~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~ 59 (60)
T cd00083 4 RREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59 (60)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 367899999999999999999999999987 89999999999999999999875
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.27 E-value=7.5e-12 Score=89.50 Aligned_cols=49 Identities=33% Similarity=0.550 Sum_probs=45.3
Q ss_pred chHHHHHHHHHHHHHHHHHhcCCC---CCCCCcccHHHHHHHHHHHHHHHHH
Q 042465 137 LISEQKRRGKMKEKLYQLRALVPN---ITKMDKASLVGDAVSYVQELQTTAK 185 (324)
Q Consensus 137 ~~~ER~RR~~in~~~~~LrslvP~---~~K~dKasIL~~Ai~YIk~Lq~~~~ 185 (324)
+..||+||.+||++|..|+++||. ..|++|++||..||+||++|+.+++
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 468999999999999999999994 5799999999999999999998875
No 4
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=99.16 E-value=2.1e-11 Score=108.03 Aligned_cols=71 Identities=30% Similarity=0.434 Sum_probs=64.0
Q ss_pred CCCCcCcccchHHHHHHHHHHHHHHHHHhcCCCC-------CCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 042465 128 PKGDHRSRTLISEQKRRGKMKEKLYQLRALVPNI-------TKMDKASLVGDAVSYVQELQTTAKNLKAEIADLEASS 198 (324)
Q Consensus 128 ~k~~~r~~h~~~ER~RR~~in~~~~~LrslvP~~-------~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~~~~ 198 (324)
.|..+|..|...||+||+.||..+..|+.|||.+ .|+.||.||.++|+||.+|++++.+.+++...|++.+
T Consensus 58 yk~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~v 135 (229)
T KOG1319|consen 58 YKDRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDV 135 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455688999999999999999999999999953 4889999999999999999999999999999987765
No 5
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.07 E-value=3.5e-10 Score=111.72 Aligned_cols=57 Identities=25% Similarity=0.482 Sum_probs=51.7
Q ss_pred CcCcccchHHHHHHHHHHHHHHHHHhcCCCC----CCCCcccHHHHHHHHHHHHHHHHHHH
Q 042465 131 DHRSRTLISEQKRRGKMKEKLYQLRALVPNI----TKMDKASLVGDAVSYVQELQTTAKNL 187 (324)
Q Consensus 131 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~----~K~dKasIL~~Ai~YIk~Lq~~~~~L 187 (324)
.||..|+.+|||||++||++|.+|..|||.+ .|.+|..||..+++||+.||+..++.
T Consensus 232 ~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~ 292 (411)
T KOG1318|consen 232 RKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRA 292 (411)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHH
Confidence 4589999999999999999999999999976 47789999999999999999877743
No 6
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.69 E-value=1e-07 Score=88.39 Aligned_cols=67 Identities=22% Similarity=0.373 Sum_probs=56.9
Q ss_pred CCCcCcccchHHHHHHHHHHHHHHHHHhcCCCC--CCCC-cccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042465 129 KGDHRSRTLISEQKRRGKMKEKLYQLRALVPNI--TKMD-KASLVGDAVSYVQELQTTAKNLKAEIADLE 195 (324)
Q Consensus 129 k~~~r~~h~~~ER~RR~~in~~~~~LrslvP~~--~K~d-KasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~ 195 (324)
....|+.||..||+||..|+++|..|+.+||.. .+.. .++||..|.+||+.|+.+..+....++.|.
T Consensus 56 ~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~e~l~ 125 (232)
T KOG2483|consen 56 AASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQDIEDLS 125 (232)
T ss_pred CCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHHHHHHH
Confidence 334599999999999999999999999999975 3433 689999999999999998887777776664
No 7
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.40 E-value=1.6e-07 Score=88.12 Aligned_cols=55 Identities=27% Similarity=0.488 Sum_probs=48.4
Q ss_pred CcCcccchHHHHHHHHHHHHHHHHHhcCCC--------CCCCCcccHHHHHHHHHHHHHHHHH
Q 042465 131 DHRSRTLISEQKRRGKMKEKLYQLRALVPN--------ITKMDKASLVGDAVSYVQELQTTAK 185 (324)
Q Consensus 131 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~--------~~K~dKasIL~~Ai~YIk~Lq~~~~ 185 (324)
.++..|-+.|||||.+||+++.+|+.|||. ..|++||.||.-+++|++.|+...+
T Consensus 31 ~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 31 YRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred HhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence 356778899999999999999999999993 2789999999999999999987543
No 8
>cd04897 ACT_ACR_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.26 E-value=9.9e-06 Score=62.76 Aligned_cols=67 Identities=7% Similarity=0.137 Sum_probs=56.4
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCC----hHHHHHHHHHHHh
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQ----LPNLKLWVANALL 311 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~----~~~Lk~~v~~Al~ 311 (324)
+|+|.|++|||+|.+|..+|-.+ |++|.+|.|+|.++++.-+|.+.-.++. .+. .+.|++++..||.
T Consensus 3 vveV~~~DRpGLL~~i~~~l~~~-~l~I~~A~I~T~gera~D~FyV~d~~g~--kl~~~~~~~~l~~~L~~al~ 73 (75)
T cd04897 3 VVTVQCRDRPKLLFDVVCTLTDM-DYVVFHATIDTDGDDAHQEYYIRHKDGR--TLSTEGERQRVIKCLEAAIE 73 (75)
T ss_pred EEEEEeCCcCcHHHHHHHHHHhC-CeEEEEEEEeecCceEEEEEEEEcCCCC--ccCCHHHHHHHHHHHHHHHh
Confidence 58999999999999999999999 8999999999999999999998777664 443 4566666666654
No 9
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.23 E-value=4.7e-07 Score=96.71 Aligned_cols=65 Identities=31% Similarity=0.573 Sum_probs=61.1
Q ss_pred CcCcccchHHHHHHHHHHHHHHHHHhcCCCC-CCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042465 131 DHRSRTLISEQKRRGKMKEKLYQLRALVPNI-TKMDKASLVGDAVSYVQELQTTAKNLKAEIADLE 195 (324)
Q Consensus 131 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~-~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~ 195 (324)
.+|.+||++|||+|..||+++.+|+.+||+. .|+.|.++|..||+||++|+...+.++.+.+.++
T Consensus 275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~l~ 340 (953)
T KOG2588|consen 275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENASLR 340 (953)
T ss_pred cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhhhhh
Confidence 3589999999999999999999999999986 7999999999999999999999999999888776
No 10
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.19 E-value=1.4e-06 Score=92.68 Aligned_cols=51 Identities=25% Similarity=0.365 Sum_probs=48.1
Q ss_pred CcccchHHHHHHHHHHHHHHHHHhcCCCC----CCCCcccHHHHHHHHHHHHHHH
Q 042465 133 RSRTLISEQKRRGKMKEKLYQLRALVPNI----TKMDKASLVGDAVSYVQELQTT 183 (324)
Q Consensus 133 r~~h~~~ER~RR~~in~~~~~LrslvP~~----~K~dKasIL~~Ai~YIk~Lq~~ 183 (324)
|..|+.+|||||++||..+.+|.+|||.+ -|+||.+||..||.+|+.+++.
T Consensus 21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence 78999999999999999999999999965 5999999999999999999885
No 11
>cd04895 ACT_ACR_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.19 E-value=1.8e-05 Score=60.91 Aligned_cols=67 Identities=13% Similarity=0.236 Sum_probs=55.9
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHh
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALL 311 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~ 311 (324)
.|+|.+.+|+|+|.+|.++|..+ |++|..|.|+|.|+++.-+|.+.-..+ ..+.-+...+.|..+|.
T Consensus 3 viev~a~DRpGLL~~i~~~l~~~-gl~I~~AkIsT~Gerv~DvFyV~d~~g--~kl~d~~~~~~l~~~L~ 69 (72)
T cd04895 3 LVKVDSARKPGILLEAVQVLTDL-DLCITKAYISSDGGWFMDVFHVTDQLG--NKLTDDSLIAYIEKSLG 69 (72)
T ss_pred EEEEEECCcCCHHHHHHHHHHHC-CcEEEEEEEeecCCeEEEEEEEECCCC--CCCCCHHHHHHHHHHhc
Confidence 58999999999999999999999 999999999999999999998875544 45555555566666664
No 12
>cd04896 ACT_ACR-like_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.12 E-value=1.7e-05 Score=61.53 Aligned_cols=66 Identities=11% Similarity=0.184 Sum_probs=54.4
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEee--ecCCeEEEEEEEEecCCccccC----ChHHHHHHHHHHHh
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLV--AESERFVLTFTLNAKDNDQISM----QLPNLKLWVANALL 311 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vs--t~~~~~~~t~~vkv~~~~~~~~----~~~~Lk~~v~~Al~ 311 (324)
+|+|.|.+|+|+|.+|.++|..+ |++|..|.|+ |.|+++.-+|.+. ..+ ..+ ....|++++..+|.
T Consensus 2 vlev~a~DRpGLL~~i~~~l~~~-~l~i~~AkI~~~T~Gerv~D~Fyv~-~~g--~kl~d~~~~~~L~~~L~~~l~ 73 (75)
T cd04896 2 LLQIRCVDQKGLLYDILRTSKDC-NIQISYGRFSSKVKGYREVDLFIVQ-SDG--KKIMDPKKQAALCARLREEMV 73 (75)
T ss_pred EEEEEeCCcccHHHHHHHHHHHC-CeEEEEEEEecCcccCEEEEEEEEe-CCC--CccCCHHHHHHHHHHHHHHhc
Confidence 48899999999999999999999 8999999999 9999999999983 333 223 34567777777664
No 13
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=98.06 E-value=1.1e-05 Score=74.91 Aligned_cols=65 Identities=23% Similarity=0.378 Sum_probs=55.4
Q ss_pred CcCcccchHHHHHHHHHHHHHHHH-HhcCCCC-CCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042465 131 DHRSRTLISEQKRRGKMKEKLYQL-RALVPNI-TKMDKASLVGDAVSYVQELQTTAKNLKAEIADLE 195 (324)
Q Consensus 131 ~~r~~h~~~ER~RR~~in~~~~~L-rslvP~~-~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~ 195 (324)
+||..-.+.||||=.|+|+.|.+| |.-++|. ..+.|+.||..||+||..||.-++++-+....++
T Consensus 117 DRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~~ 183 (284)
T KOG3960|consen 117 DRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEKGLA 183 (284)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccchhhh
Confidence 467788899999999999999999 5667776 6789999999999999999998888876655553
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=98.05 E-value=3.2e-05 Score=59.62 Aligned_cols=48 Identities=21% Similarity=0.371 Sum_probs=43.5
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeee-cCCeEEEEEEEEe
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVA-ESERFVLTFTLNA 289 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst-~~~~~~~t~~vkv 289 (324)
++++|.|++++|+|.+|..+|..+ |++|++|.+.| .++.++-+|.+.-
T Consensus 1 ~~~ei~~~Dr~gLfa~i~~~l~~~-~l~I~~A~I~Tt~~~~v~D~F~V~d 49 (76)
T cd04927 1 FLLKLFCSDRKGLLHDVTEVLYEL-ELTIERVKVSTTPDGRVLDLFFITD 49 (76)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHC-CCeEEEEEEEECCCCEEEEEEEEeC
Confidence 368999999999999999999999 89999999996 7888888888853
No 15
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.92 E-value=3e-06 Score=80.49 Aligned_cols=65 Identities=23% Similarity=0.407 Sum_probs=55.3
Q ss_pred CcCcccchHHHHHHHHHHHHHHHHHhcCCCC--CCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042465 131 DHRSRTLISEQKRRGKMKEKLYQLRALVPNI--TKMDKASLVGDAVSYVQELQTTAKNLKAEIADLE 195 (324)
Q Consensus 131 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~--~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~ 195 (324)
.||.--|..||||=.-||..|..||+|+|.. .|++||.||+.+.+||.+|+.+.-+|-.++.+|+
T Consensus 59 mRReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~ll~qn~elK 125 (373)
T KOG0561|consen 59 MRREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTELLPQNGELK 125 (373)
T ss_pred HHHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccccccccchHH
Confidence 4577788899999999999999999999964 8999999999999999999987766655444443
No 16
>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=97.91 E-value=0.00015 Score=54.96 Aligned_cols=67 Identities=16% Similarity=0.178 Sum_probs=50.8
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec-CCeEEEEEEEEecCCccccCChHHHHHHHHHHHh
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE-SERFVLTFTLNAKDNDQISMQLPNLKLWVANALL 311 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~-~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~ 311 (324)
.|.|.|++++|+|.+|..+|..+ |++|++|.+.|. ++.++-+|.+.-..+ ..+..+...+.+..+|.
T Consensus 3 ~i~v~~~Dr~gLl~~i~~~l~~~-~l~I~~A~i~T~~~~~v~D~F~v~~~~~--~~~~~~~~~~~l~~~L~ 70 (73)
T cd04900 3 EVFIYTPDRPGLFARIAGALDQL-GLNILDARIFTTRDGYALDTFVVLDPDG--EPIGERERLARIREALE 70 (73)
T ss_pred EEEEEecCCCCHHHHHHHHHHHC-CCCeEEeEEEEeCCCeEEEEEEEECCCC--CCCChHHHHHHHHHHHH
Confidence 58899999999999999999999 899999999888 477777888764332 33433444445555554
No 17
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.79 E-value=0.00031 Score=53.66 Aligned_cols=67 Identities=15% Similarity=0.304 Sum_probs=51.6
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCC----hHHHHHHHHHHH
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQ----LPNLKLWVANAL 310 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~----~~~Lk~~v~~Al 310 (324)
.|+|.+++++|+|.+|..+|..+ |++|+.|.+.+.++.+.-+|.+.-.... ..+. .+.|++.|..+|
T Consensus 2 ~~~v~~~Dr~gLl~~i~~~l~~~-~lnI~~A~i~t~~~~~~d~f~V~d~~~~-~~~~~~~~~~~i~~~L~~~l 72 (74)
T cd04925 2 AIELTGTDRPGLLSEVFAVLADL-HCNVVEARAWTHNGRLACVIYVRDEETG-APIDDPIRLASIEDRLDNVL 72 (74)
T ss_pred EEEEEECCCCCHHHHHHHHHHHC-CCcEEEEEEEEECCEEEEEEEEEcCcCC-CCCCCHHHHHHHHHHHHHHh
Confidence 47899999999999999999999 8999999999999998888877643311 2232 345555555554
No 18
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.71 E-value=9.5e-05 Score=58.16 Aligned_cols=53 Identities=21% Similarity=0.529 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHhcCCCC------CCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 042465 145 GKMKEKLYQLRALVPNI------TKMDKASLVGDAVSYVQELQTTAKNLKAEIADLEAS 197 (324)
Q Consensus 145 ~~in~~~~~LrslvP~~------~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~~~ 197 (324)
++|++.+..|+.|+|.. .|.+-+-||++++.||+.|++++..|.+.+.+|-..
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 78999999999999953 344555689999999999999999999999998754
No 19
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=97.53 E-value=0.00084 Score=51.45 Aligned_cols=72 Identities=18% Similarity=0.276 Sum_probs=59.1
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
.+.|.|.+++|||++..|..+|.+. |.+|..++.++.++.|...+.+.+.. -+.+.|+..+..+-.+.|.++
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~-g~ni~d~~~~~~~~~f~~~~~v~~~~-----~~~~~l~~~L~~l~~~~~l~v 73 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEH-GCNIEDSRQAVLGGRFTLIMLVSIPE-----DSLERLESALEELAEELGLDV 73 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCT-T-EEEEEEEEEETTEEEEEEEEEESH-----HHHHHHHHHHHHHHHHTT-EE
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHC-CCcEEEEEEEEEcCeEEEEEEEEeCc-----ccHHHHHHHHHHHHHHCCcEE
Confidence 3689999999999999999999999 89999999999999988888777752 257888888888888888765
No 20
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_ACR-UUR-like_2, includes the second of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the second and fourth ACT domains of a novel protein composed almost entirely of ACT domain repeats, the ACR protein. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.50 E-value=0.0015 Score=48.26 Aligned_cols=66 Identities=20% Similarity=0.227 Sum_probs=51.2
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHh
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALL 311 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~ 311 (324)
.|.|.|+.++|+|.+|+.+|.++ +++|.++.+.+.++.+...|.+.-..+. . .+.+++ +.+..+|.
T Consensus 2 ~l~v~~~d~~gll~~i~~~l~~~-~~~I~~~~~~~~~~~~~~~f~i~~~~~~-~-~~~~~~-~~i~~~l~ 67 (70)
T cd04899 2 VLELTALDRPGLLADVTRVLAEL-GLNIHSAKIATLGERAEDVFYVTDADGQ-P-LDPERQ-EALRAALG 67 (70)
T ss_pred EEEEEEcCCccHHHHHHHHHHHC-CCeEEEEEEEecCCEEEEEEEEECCCCC-c-CCHHHH-HHHHHHHH
Confidence 47899999999999999999999 7999999999988888888888776654 2 444332 23555543
No 21
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. This CD includes a novel, yet uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.48 E-value=0.0014 Score=49.91 Aligned_cols=64 Identities=9% Similarity=0.143 Sum_probs=51.5
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCCccccCChHHHHHHHHHHH
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDNDQISMQLPNLKLWVANAL 310 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al 310 (324)
.|-|.|+.++|+|++|..+|..+ ||+|+.|.+.+.. +.++-+|.+.-.+++ ....|.+++..||
T Consensus 3 eI~V~~~Dr~gLFa~iag~L~~~-~LnI~~A~i~tt~dG~~LDtF~V~d~~~~----~~~~~~~~~~~~~ 67 (68)
T cd04928 3 EITFAAGDKPKLLSQLSSLLGDL-GLNIAEAHAFSTDDGLALDIFVVTGWKRG----ETAALGHALQKEI 67 (68)
T ss_pred EEEEEECCCcchHHHHHHHHHHC-CCceEEEEEEEcCCCeEEEEEEEecCCcc----chHHHHHHHHHhh
Confidence 47889999999999999999999 8999999997665 566677777655443 4667777877775
No 22
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.32 E-value=0.00025 Score=65.66 Aligned_cols=57 Identities=25% Similarity=0.339 Sum_probs=49.5
Q ss_pred cCcccchHHHHHHHHHHHHHHHHHhcCCC----CCCCCcccHHHHHHHHHHHHHHHHHHHH
Q 042465 132 HRSRTLISEQKRRGKMKEKLYQLRALVPN----ITKMDKASLVGDAVSYVQELQTTAKNLK 188 (324)
Q Consensus 132 ~r~~h~~~ER~RR~~in~~~~~LrslvP~----~~K~dKasIL~~Ai~YIk~Lq~~~~~L~ 188 (324)
.+..++..||+|=..+|..|..||.+||. ..|.+|..+|.-||.||++|+.-++.-.
T Consensus 109 ~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~ 169 (228)
T KOG4029|consen 109 QRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQE 169 (228)
T ss_pred hhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccc
Confidence 36677888999999999999999999994 4689999999999999999987665444
No 23
>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.26 E-value=0.0037 Score=47.36 Aligned_cols=67 Identities=10% Similarity=0.134 Sum_probs=49.8
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHh
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALL 311 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~ 311 (324)
..|.|.++.++|+|.+|..+|.++ |++|+++.+.+.++..+.+|++.-.++ ..++. ...+.+..+|-
T Consensus 2 tri~V~~~D~~Gll~~i~~~l~~~-~lnI~sa~i~t~~~~~~d~f~v~~~~~--~~~~~-~~~~~l~~~l~ 68 (72)
T cd04926 2 VRLELRTEDRVGLLSDVTRVFREN-GLTVTRAEISTQGDMAVNVFYVTDANG--NPVDP-KTIEAVRQEIG 68 (72)
T ss_pred eEEEEEECCccCHHHHHHHHHHHC-CcEEEEEEEecCCCeEEEEEEEECCCC--CcCCH-HHHHHHHHHhc
Confidence 357789999999999999999999 899999999988777677777653332 23343 33345666553
No 24
>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=97.04 E-value=0.0073 Score=46.37 Aligned_cols=71 Identities=13% Similarity=0.203 Sum_probs=58.1
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
+.|.+.|++++|+..+|.+.|.+. |.+|+.++....++.|...+.+.+. ..+.+.|+..+...-...|.++
T Consensus 2 ~iltv~g~Dr~GiVa~vs~~la~~-g~nI~d~~q~~~~~~F~m~~~~~~~-----~~~~~~l~~~l~~~~~~~~l~i 72 (77)
T cd04893 2 LVISALGTDRPGILNELTRAVSES-GCNILDSRMAILGTEFALTMLVEGS-----WDAIAKLEAALPGLARRLDLTL 72 (77)
T ss_pred EEEEEEeCCCChHHHHHHHHHHHc-CCCEEEceeeEEcCEEEEEEEEEec-----cccHHHHHHHHHHHHHHcCCEE
Confidence 568999999999999999999999 9999999999988988766666653 2367888888888555556654
No 25
>PRK00194 hypothetical protein; Validated
Probab=96.83 E-value=0.009 Score=46.77 Aligned_cols=74 Identities=12% Similarity=0.207 Sum_probs=59.5
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
.+.|.|.|++++|++..|...|-+. |++|+..+..+.++.+...+.+.... ...+...|+..+...-...|.++
T Consensus 3 ~~~ltv~g~DrpGiva~vt~~la~~-g~nI~~~~~~~~~~~~~~~~~v~~~~---~~~~~~~l~~~l~~l~~~~~~~~ 76 (90)
T PRK00194 3 KAIITVIGKDKVGIIAGVSTVLAEL-NVNILDISQTIMDGYFTMIMLVDISE---SKKDFAELKEELEELGKELGVKI 76 (90)
T ss_pred eEEEEEEcCCCCCHHHHHHHHHHHc-CCCEEehhhHhhCCeeEEEEEEEecC---CCCCHHHHHHHHHHHHHHcCCEE
Confidence 4679999999999999999999999 89999999888888777666665542 23567889988888666667654
No 26
>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=96.81 E-value=0.016 Score=44.12 Aligned_cols=71 Identities=15% Similarity=0.166 Sum_probs=56.8
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC------CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCc
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES------ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQ 316 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~------~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~ 316 (324)
|.|.|++++|++.+|.+.|.+. |++|...+..+.+ +.+...+.+.+ + ...+...|+..+...-.+-|.+
T Consensus 2 l~v~g~D~~Giv~~it~~l~~~-~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~--p--~~~~~~~l~~~l~~l~~~~~~~ 76 (81)
T cd04869 2 VEVVGNDRPGIVHEVTQFLAQR-NINIEDLSTETYSAPMSGTPLFKAQATLAL--P--AGTDLDALREELEELCDDLNVD 76 (81)
T ss_pred EEEEeCCCCCHHHHHHHHHHHc-CCCeEEeEeeeecCCCCCcceEEEEEEEec--C--CCCCHHHHHHHHHHHHHHhcce
Confidence 7899999999999999999999 8999999998877 55555555554 3 2467899999998877676776
Q ss_pred cc
Q 042465 317 VL 318 (324)
Q Consensus 317 ~~ 318 (324)
+.
T Consensus 77 ~~ 78 (81)
T cd04869 77 IS 78 (81)
T ss_pred EE
Confidence 54
No 27
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=96.79 E-value=0.021 Score=41.64 Aligned_cols=66 Identities=18% Similarity=0.336 Sum_probs=48.4
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHh
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALL 311 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~ 311 (324)
.|.|.|+.++|+|.+|+.+|.+. ++.|.++.+.+.++.....|++.-..+. ... +.-.+.+..+|.
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~-~~~I~~~~~~~~~~~~~~~~~v~~~~~~--~~~-~~~~~~l~~~l~ 67 (70)
T cd04873 2 VVEVYAPDRPGLLADITRVLADL-GLNIHDARISTTGERALDVFYVTDSDGR--PLD-PERIARLEEALE 67 (70)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHC-CCeEEEEEEeecCCEEEEEEEEECCCCC--cCC-HHHHHHHHHHHH
Confidence 47889999999999999999999 8999999998887766666666654432 222 233344555553
No 28
>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=96.78 E-value=0.0098 Score=46.55 Aligned_cols=73 Identities=12% Similarity=0.235 Sum_probs=59.4
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
+.|.+.|++++|++..|.+.|-.. |++|..++..+.++.+...+.+.+.. ...+...|+..+...-..-|.++
T Consensus 2 ~vl~i~g~D~pGiva~vt~~la~~-g~nI~~~~~~~~~~~f~~~~~v~~~~---~~~~~~~L~~~l~~l~~~~~l~~ 74 (88)
T cd04872 2 AVITVVGKDRVGIVAGVSTKLAEL-NVNILDISQTIMDGYFTMIMIVDISE---SNLDFAELQEELEELGKELGVKI 74 (88)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHc-CCCEEechhHhhCCccEEEEEEEeCC---CCCCHHHHHHHHHHHHHHcCCEE
Confidence 578999999999999999999999 89999999888878776666666432 24678999998888666666654
No 29
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=96.74 E-value=0.015 Score=41.85 Aligned_cols=38 Identities=13% Similarity=0.350 Sum_probs=35.1
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE 279 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~ 279 (324)
+.|.|.|+.++|+|.+|.++|-++ |++|.++...+..+
T Consensus 1 ~~v~v~~~drpG~l~~v~~~la~~-~inI~~~~~~~~~~ 38 (66)
T PF01842_consen 1 YRVRVIVPDRPGILADVTEILADH-GINIDSISQSSDKD 38 (66)
T ss_dssp EEEEEEEETSTTHHHHHHHHHHHT-TEEEEEEEEEEESS
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHc-CCCHHHeEEEecCC
Confidence 368899999999999999999999 89999999988877
No 30
>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=96.72 E-value=0.0086 Score=44.88 Aligned_cols=66 Identities=12% Similarity=0.211 Sum_probs=55.8
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHH
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANA 309 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~A 309 (324)
.|.|.|+++.|+-.+|.+.+-+. ||.|....++|.|.=.+..|.+.-+... ..+.-..||+.+..+
T Consensus 2 vitvnCPDktGLgcdlcr~il~f-Gl~i~rgd~sTDGkWCyiv~wVv~~~~~-~~~rW~lLK~RL~~~ 67 (69)
T cd04894 2 VITINCPDKTGLGCDLCRIILEF-GLNITRGDDSTDGRWCYIVFWVVPRPPS-IKVRWDLLKNRLMSA 67 (69)
T ss_pred EEEEeCCCccCcccHHHHHHHHh-ceEEEecccccCCcEEEEEEEEecCCCC-CcccHHHHHHHHHhc
Confidence 48999999999999999999999 9999999999988755666777666654 677888899888764
No 31
>PRK05007 PII uridylyl-transferase; Provisional
Probab=96.67 E-value=0.007 Score=66.40 Aligned_cols=69 Identities=19% Similarity=0.303 Sum_probs=57.2
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCC---hHHHHHHHHHHHh
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQ---LPNLKLWVANALL 311 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~---~~~Lk~~v~~Al~ 311 (324)
--.|+|.|.+|+|+|.+|.++|..+ |++|.+|.|+|.++++.-+|.|.-..+ ..++ .+.|++++..+|.
T Consensus 808 ~TvlEV~a~DRpGLL~~I~~~l~~~-~l~I~~AkI~T~gera~DvFyV~~~~g--~~l~~~~~~~l~~~L~~~l~ 879 (884)
T PRK05007 808 RSYMELIALDQPGLLARVGKIFADL-GISLHGARITTIGERVEDLFILATADR--RALNEELQQELRQRLTEALN 879 (884)
T ss_pred eEEEEEEeCCchHHHHHHHHHHHHC-CcEEEEEEEeccCceEEEEEEEEcCCC--CcCCHHHHHHHHHHHHHHHh
Confidence 3689999999999999999999999 899999999999999999998875544 3444 4566666666664
No 32
>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=96.61 E-value=0.022 Score=41.27 Aligned_cols=67 Identities=16% Similarity=0.198 Sum_probs=49.7
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeec-----CCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE-----SERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~-----~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
+.|.++.++|.|.+|+++|.+. |++|.+...... .+.....|++.+.+ ...+ ..+..+|.+.|+.+
T Consensus 1 ~~v~~~d~~G~L~~i~~~i~~~-~~nI~~i~~~~~~~~~~~~~~~~~i~v~~~~-------~~~l-~~l~~~l~~~g~~~ 71 (73)
T cd04886 1 LRVELPDRPGQLAKLLAVIAEA-GANIIEVSHDRAFKTLPLGEVEVELTLETRG-------AEHI-EEIIAALREAGYDV 71 (73)
T ss_pred CEEEeCCCCChHHHHHHHHHHc-CCCEEEEEEEeccCCCCCceEEEEEEEEeCC-------HHHH-HHHHHHHHHcCCEE
Confidence 3578899999999999999999 899998876654 24555666666643 2333 46777888888876
Q ss_pred c
Q 042465 318 L 318 (324)
Q Consensus 318 ~ 318 (324)
.
T Consensus 72 ~ 72 (73)
T cd04886 72 R 72 (73)
T ss_pred e
Confidence 3
No 33
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=96.61 E-value=0.034 Score=42.41 Aligned_cols=51 Identities=18% Similarity=0.271 Sum_probs=43.3
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec--CCeEEEEEEEEecCC
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE--SERFVLTFTLNAKDN 292 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~--~~~~~~t~~vkv~~~ 292 (324)
+.|+|.+.+++|+|.+|..+|-+. ++.|.+.++... ++.+...|.++|++.
T Consensus 7 ~~l~i~~~dr~GlL~dI~~~i~~~-~~nI~~i~~~~~~~~~~~~~~l~v~V~d~ 59 (80)
T PF13291_consen 7 VRLRIEAEDRPGLLADITSVISEN-GVNIRSINARTNKDDGTARITLTVEVKDL 59 (80)
T ss_dssp EEEEEEEE--TTHHHHHHHHHHCS-SSEEEEEEEEE--ETTEEEEEEEEEESSH
T ss_pred EEEEEEEEcCCCHHHHHHHHHHHC-CCCeEEEEeEEeccCCEEEEEEEEEECCH
Confidence 568999999999999999999999 899999999885 568888999999764
No 34
>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=96.56 E-value=0.027 Score=42.47 Aligned_cols=70 Identities=13% Similarity=0.097 Sum_probs=50.2
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCC
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQG 314 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g 314 (324)
|.|.|++++|++.+|.+.|-+. |+.|+..+..+..+.-.+.+.+++.... ...+...|+..+...-.+-|
T Consensus 2 i~v~g~D~~Giv~~it~~l~~~-g~nI~~~~~~~~~~~~~f~~~~~~~~~~-~~~~~~~l~~~l~~l~~~l~ 71 (74)
T cd04875 2 LTLSCPDRPGIVAAVSGFLAEH-GGNIVESDQFVDPDSGRFFMRVEFELEG-FDLSREALEAAFAPVAAEFD 71 (74)
T ss_pred EEEEcCCCCCHHHHHHHHHHHc-CCCEEeeeeeecCCCCeEEEEEEEEeCC-CCCCHHHHHHHHHHHHHHcC
Confidence 7899999999999999999999 8999999877532222334444444331 13578888888877554434
No 35
>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=96.48 E-value=0.025 Score=42.94 Aligned_cols=70 Identities=17% Similarity=0.185 Sum_probs=58.4
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
|.|.+++|||+..+|.++|-+. |++|...+.++.++.|...+.+.+.. ..+...|+..+...-...|.++
T Consensus 2 vtv~G~DrpGiv~~vt~~la~~-~~nI~dl~~~~~~~~f~~~~~v~~p~----~~~~~~l~~~l~~l~~~l~l~i 71 (75)
T cd04870 2 ITVTGPDRPGLTSALTEVLAAH-GVRILDVGQAVIHGRLSLGILVQIPD----SADSEALLKDLLFKAHELGLQV 71 (75)
T ss_pred EEEEcCCCCCHHHHHHHHHHHC-CCCEEecccEEEcCeeEEEEEEEcCC----CCCHHHHHHHHHHHHHHcCceE
Confidence 7889999999999999999999 89999999888888776666555532 3578999999998887777765
No 36
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=96.24 E-value=0.036 Score=61.02 Aligned_cols=71 Identities=17% Similarity=0.230 Sum_probs=58.5
Q ss_pred ceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccC----ChHHHHHHHHHHHhh
Q 042465 239 RGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISM----QLPNLKLWVANALLN 312 (324)
Q Consensus 239 ~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~----~~~~Lk~~v~~Al~n 312 (324)
+...|.|.+.+++|+|++|..+|..+ |++|+.|.|+|.+++++-+|.|.-..+. .+ ..+.|++.|..+|..
T Consensus 813 ~~T~i~V~a~DrpGLLa~I~~~L~~~-~l~I~~AkI~T~g~~v~D~F~V~d~~g~--~l~~~~~~~~l~~~L~~~L~~ 887 (895)
T PRK00275 813 PVTVLEIIAPDRPGLLARIGRIFLEF-DLSLQNAKIATLGERVEDVFFITDADNQ--PLSDPQLCSRLQDAICEQLDA 887 (895)
T ss_pred CeEEEEEEECCCCCHHHHHHHHHHHC-CCEEEEeEEEecCCEEEEEEEEECCCCC--CCCCHHHHHHHHHHHHHHHhc
Confidence 34689999999999999999999999 8999999999999999999988755443 23 235677777777743
No 37
>PRK04374 PII uridylyl-transferase; Provisional
Probab=96.17 E-value=0.04 Score=60.49 Aligned_cols=69 Identities=17% Similarity=0.245 Sum_probs=55.6
Q ss_pred ceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCCh---HHHHHHHHHHH
Q 042465 239 RGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQL---PNLKLWVANAL 310 (324)
Q Consensus 239 ~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~---~~Lk~~v~~Al 310 (324)
+-..|.|.+.+++|+|.+|..+|..+ |++|..|.|+|.++++.-+|.|.-..+. .+.. +.|++++..+|
T Consensus 795 ~~t~leI~a~DrpGLLa~Ia~~l~~~-~l~I~~AkI~T~g~~a~D~F~V~d~~g~--~~~~~~~~~l~~~L~~~l 866 (869)
T PRK04374 795 RRTRISLVAPDRPGLLADVAHVLRMQ-HLRVHDARIATFGERAEDQFQITDEHDR--PLSESARQALRDALCACL 866 (869)
T ss_pred CeEEEEEEeCCcCcHHHHHHHHHHHC-CCeEEEeEEEecCCEEEEEEEEECCCCC--cCChHHHHHHHHHHHHHh
Confidence 34789999999999999999999999 8999999999999999999988755443 2322 55555555554
No 38
>PRK03059 PII uridylyl-transferase; Provisional
Probab=95.99 E-value=0.033 Score=60.96 Aligned_cols=70 Identities=17% Similarity=0.191 Sum_probs=53.6
Q ss_pred ceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHH
Q 042465 239 RGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANAL 310 (324)
Q Consensus 239 ~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al 310 (324)
+...|.|.|.+++|+|.+|..+|..+ |++|..|.|+|.++++.-+|.|.-.... ..-..+.|++.|..+|
T Consensus 785 ~~T~i~V~a~DrpGLLa~Ia~~L~~~-~l~I~~AkI~T~~~~v~DvF~V~~~~~~-~~~~~~~l~~~L~~~L 854 (856)
T PRK03059 785 QYYILSVSANDRPGLLYAIARVLAEH-RVSVHTAKINTLGERVEDTFLIDGSGLS-DNRLQIQLETELLDAL 854 (856)
T ss_pred CEEEEEEEeCCcchHHHHHHHHHHHC-CCeEEEEEEeecCCEEEEEEEEcCCCCC-CHHHHHHHHHHHHHHh
Confidence 44789999999999999999999999 8999999999999999999988311110 1112445566665554
No 39
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=95.96 E-value=0.029 Score=61.44 Aligned_cols=68 Identities=18% Similarity=0.240 Sum_probs=54.8
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCCh---HHHHHHHHHHH
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQL---PNLKLWVANAL 310 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~---~~Lk~~v~~Al 310 (324)
--.|.|.+.+++|+|.+|.++|.++ |++|..|.|+|.++++.=+|.+.-..+ ..++. +.|++++..+|
T Consensus 783 ~T~iev~a~DrpGLL~~I~~~l~~~-~l~i~~AkI~T~gerv~D~Fyv~~~~g--~~l~~~~~~~l~~~L~~~l 853 (854)
T PRK01759 783 QTEMELFALDRAGLLAQVSQVFSEL-NLNLLNAKITTIGEKAEDFFILTNQQG--QALDEEERKALKSRLLSNL 853 (854)
T ss_pred eEEEEEEeCCchHHHHHHHHHHHHC-CCEEEEEEEcccCceEEEEEEEECCCC--CcCChHHHHHHHHHHHHHh
Confidence 3688999999999999999999999 899999999999999999998875444 23432 45555555444
No 40
>PRK03381 PII uridylyl-transferase; Provisional
Probab=95.94 E-value=0.042 Score=59.58 Aligned_cols=72 Identities=14% Similarity=0.120 Sum_probs=60.3
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
.+...|.|.|++++|+|++|..+|..+ |++|+.|.+.+.++.++-+|.|.-..+ .....+.|++.|..+|..
T Consensus 597 ~~~~~V~V~~~DrpGLfa~i~~vL~~~-glnI~dA~i~t~dg~~ld~F~V~~~~~--~~~~~~~l~~~L~~~L~~ 668 (774)
T PRK03381 597 PHMVEVTVVAPDRRGLLSKAAGVLALH-RLRVRSASVRSHDGVAVLEFVVSPRFG--SPPDAALLRQDLRRALDG 668 (774)
T ss_pred CCeEEEEEEecCCccHHHHHHHHHHHC-CCeEEEeEEEecCCEEEEEEEEECCCC--CcchHHHHHHHHHHHHcC
Confidence 356889999999999999999999999 899999999997788888887764433 234468899999998876
No 41
>PRK05092 PII uridylyl-transferase; Provisional
Probab=95.81 E-value=0.07 Score=58.96 Aligned_cols=72 Identities=18% Similarity=0.192 Sum_probs=58.6
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccC--ChHHHHHHHHHHHhh
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISM--QLPNLKLWVANALLN 312 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~--~~~~Lk~~v~~Al~n 312 (324)
...|.|.|.+++|+|.+|..+|.++ |++|.+|.|.|.++++.-+|.+.-..+..... ..+.|++.+..+|..
T Consensus 843 ~t~i~I~~~DrpGLl~~I~~~l~~~-gl~I~~A~I~T~~~~~~D~F~v~d~~g~~i~~~~~~~~l~~~L~~~L~~ 916 (931)
T PRK05092 843 FTVIEVNGRDRPGLLYDLTRALSDL-NLNIASAHIATYGERAVDVFYVTDLFGLKITNEARQAAIRRALLAALAE 916 (931)
T ss_pred eEEEEEEECCcCcHHHHHHHHHHHC-CceEEEEEEEEcCCEEEEEEEEeCCCCCcCCCHHHHHHHHHHHHHHhcC
Confidence 4789999999999999999999999 89999999999999999999887655431111 246677888777744
No 42
>PRK03381 PII uridylyl-transferase; Provisional
Probab=95.68 E-value=0.056 Score=58.60 Aligned_cols=67 Identities=19% Similarity=0.198 Sum_probs=55.4
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHh
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALL 311 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~ 311 (324)
-..|.|.|.+++|+|.+|..+|..+ |++|.+|.|.|.++.++-+|.|.-..+ ..+..+ .+.|..+|+
T Consensus 707 ~t~i~V~a~DrpGLla~Ia~~L~~~-~lnI~~AkI~T~g~~a~D~F~V~d~~g--~~~~~~--~~~l~~~L~ 773 (774)
T PRK03381 707 ATVLEVRAADRPGLLARLARALERA-GVDVRWARVATLGADVVDVFYVTGAAG--GPLADA--RAAVEQAVL 773 (774)
T ss_pred eEEEEEEeCCchhHHHHHHHHHHHC-CCeEEEEEEeecCCeEEEEEEEECCCC--CcCchH--HHHHHHHhh
Confidence 4789999999999999999999999 899999999999999999998875444 344333 566666664
No 43
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=95.54 E-value=0.1 Score=38.78 Aligned_cols=49 Identities=18% Similarity=0.242 Sum_probs=41.4
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCC
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDN 292 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~ 292 (324)
|+|.+..++|+|.+|+.+|.+. |.+|...++.... +.....|++++.+.
T Consensus 2 l~v~~~d~~g~L~~i~~~i~~~-~~nI~~v~~~~~~~~~~~~~~~vev~~~ 51 (74)
T cd04887 2 LRLELPNRPGMLGRVTTAIGEA-GGDIGAIDLVEQGRDYTVRDITVDAPSE 51 (74)
T ss_pred EEEEeCCCCchHHHHHHHHHHc-CCcEEEEEEEEecCCEEEEEEEEEcCCH
Confidence 6889999999999999999999 8999998887654 56667777777664
No 44
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=95.41 E-value=0.085 Score=57.69 Aligned_cols=68 Identities=15% Similarity=0.143 Sum_probs=55.0
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCC---hHHHHHHHHHHH
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQ---LPNLKLWVANAL 310 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~---~~~Lk~~v~~Al 310 (324)
-..|.|.|.++||+|.+|.++|..+ |++|.++.+.|.++++.-+|.+.-..+. .++ .+.|++++..+|
T Consensus 779 ~t~~~v~~~DrpGll~~i~~~l~~~-~~~i~~a~i~t~~~~~~d~F~v~~~~g~--~~~~~~~~~l~~~L~~~l 849 (850)
T TIGR01693 779 ATIMEVRALDRPGLLARVGRTLEEL-GLSIQSAKITTFGEKAEDVFYVTDLFGL--KLTDEEEQRLLEVLAASV 849 (850)
T ss_pred eEEEEEEECCccHHHHHHHHHHHHC-CCeEEEEEEEecCccceeEEEEECCCCC--CCCHHHHHHHHHHHHHHh
Confidence 4789999999999999999999999 8999999999999999889988765542 333 345555555444
No 45
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=95.40 E-value=0.011 Score=60.04 Aligned_cols=55 Identities=18% Similarity=0.219 Sum_probs=46.4
Q ss_pred cCcccchHHHHHHHHHHHHHHHHHhcCCCC----CCCCcccHHHHHHHHHHHHHHHHHH
Q 042465 132 HRSRTLISEQKRRGKMKEKLYQLRALVPNI----TKMDKASLVGDAVSYVQELQTTAKN 186 (324)
Q Consensus 132 ~r~~h~~~ER~RR~~in~~~~~LrslvP~~----~K~dKasIL~~Ai~YIk~Lq~~~~~ 186 (324)
||..++++||-|=..||+.|.+|..+.--- ....|.-||..|+..|-.|++|+.+
T Consensus 526 RR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRE 584 (632)
T KOG3910|consen 526 RRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRE 584 (632)
T ss_pred HHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHH
Confidence 488889999999999999999998885422 2346788999999999999999865
No 46
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=95.28 E-value=0.11 Score=56.89 Aligned_cols=76 Identities=16% Similarity=0.144 Sum_probs=60.2
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEee-ecCCeEEEEEEEEecCCccccC--ChHHHHHHHHHHHhhCC
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLV-AESERFVLTFTLNAKDNDQISM--QLPNLKLWVANALLNQG 314 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vs-t~~~~~~~t~~vkv~~~~~~~~--~~~~Lk~~v~~Al~n~g 314 (324)
.+...|.|.+++++|+|.+|..+|..+ |++|+.|.|. +.++.++-+|.|+-..+....- -.+.|++.+..+|....
T Consensus 666 ~~~t~i~V~~~DrpgLla~i~~~L~~~-~l~I~~A~I~tt~~g~~lD~F~V~~~~g~~~~~~~~~~~i~~~L~~~L~~~~ 744 (850)
T TIGR01693 666 SGGTEVFIYAPDQPGLFAKVAGALAML-SLSVHDAQVNTTKDGVALDTFVVQDLFGSPPAAERVFQELLQGLVDVLAGLA 744 (850)
T ss_pred CCeEEEEEEeCCCCcHHHHHHHHHHHC-CCeEEEEEEEEecCCEEEEEEEEECCCCCCCCcHHHHHHHHHHHHHHHcCCC
Confidence 345789999999999999999999999 8999999998 6677888888887665531111 25568888888886643
No 47
>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=95.27 E-value=0.14 Score=37.68 Aligned_cols=62 Identities=24% Similarity=0.246 Sum_probs=48.4
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
.|.|..+.++|.|.+|+++|.+. |++|.+.-+...++. ..+++.+... .++.++|.+.||++
T Consensus 3 ri~v~v~d~pG~La~v~~~l~~~-~inI~~i~~~~~~~~--~~~rl~~~~~-----------~~~~~~L~~~G~~v 64 (66)
T cd04908 3 QLSVFLENKPGRLAAVTEILSEA-GINIRALSIADTSEF--GILRLIVSDP-----------DKAKEALKEAGFAV 64 (66)
T ss_pred EEEEEEcCCCChHHHHHHHHHHC-CCCEEEEEEEecCCC--CEEEEEECCH-----------HHHHHHHHHCCCEE
Confidence 46778899999999999999999 899998877665553 5566666331 47778888899875
No 48
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=95.21 E-value=0.08 Score=57.12 Aligned_cols=80 Identities=15% Similarity=0.245 Sum_probs=60.9
Q ss_pred ceeeEEEEe-CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHH
Q 042465 229 MQMDVFQVE-ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVA 307 (324)
Q Consensus 229 ~~VeV~~v~-e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~ 307 (324)
|.|.+..-. .....++|.+.+|+|+|..|..+|..+ +++|.+|.|+|+|.++.=+|.+....+ ..+ -..+++.+.
T Consensus 779 p~v~i~~t~~~~~t~lEv~alDRpGLLa~v~~v~~dl-~l~i~~AkItT~GErveD~F~vt~~~~--~~l-~~~~~q~l~ 854 (867)
T COG2844 779 PRVTILPTASNDKTVLEVRALDRPGLLAALAGVFADL-GLSLHSAKITTFGERVEDVFIVTDADG--QAL-NAELRQSLL 854 (867)
T ss_pred CceeeccccCCCceEEEEEeCCcccHHHHHHHHHHhc-ccceeeeeeccccccceeEEEEecccc--ccC-CHHHHHHHH
Confidence 455554222 234789999999999999999999999 899999999999999988888887776 344 344555555
Q ss_pred HHHhh
Q 042465 308 NALLN 312 (324)
Q Consensus 308 ~Al~n 312 (324)
++|+.
T Consensus 855 ~~ll~ 859 (867)
T COG2844 855 QRLLE 859 (867)
T ss_pred HHHHH
Confidence 55543
No 49
>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=95.14 E-value=0.2 Score=36.84 Aligned_cols=66 Identities=14% Similarity=0.222 Sum_probs=47.8
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec--CCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCccc
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE--SERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQVL 318 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~--~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~~ 318 (324)
..|.+.+++++|.|.+|+..|.+. |+.|.+...... .+...+.|++...+. ..+..+|.+.||.+.
T Consensus 2 ~~~~v~~~d~pG~l~~i~~~l~~~-~inI~~i~~~~~~~~~~~~v~i~v~~~~~-----------~~~~~~L~~~G~~v~ 69 (72)
T cd04883 2 SQIEVRVPDRPGQLADIAAIFKDR-GVNIVSVLVYPSKEEDNKILVFRVQTMNP-----------RPIIEDLRRAGYEVL 69 (72)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHc-CCCEEEEEEeccCCCCeEEEEEEEecCCH-----------HHHHHHHHHCCCeee
Confidence 357788899999999999999999 899987764433 234445555554221 267778888898875
No 50
>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=94.98 E-value=0.15 Score=37.50 Aligned_cols=65 Identities=15% Similarity=0.218 Sum_probs=44.6
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-C-eEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-E-RFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~-~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
.+.|.+++++|.|.+|+..|.+. |++|......... + .....|.+++. + -...+..+|...|+.+
T Consensus 3 ~~~v~~~d~~G~L~~l~~~l~~~-~i~i~~~~~~~~~~~~~~~~~i~v~~~---------~-~~~~~~~~L~~~G~~v 69 (69)
T cd04909 3 DLYVDVPDEPGVIAEVTQILGDA-GISIKNIEILEIREGIGGILRISFKTQ---------E-DRERAKEILKEAGYEV 69 (69)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHc-CCCceeeEeEEeecCCcEEEEEEECCH---------H-HHHHHHHHHHHcCCcC
Confidence 47788999999999999999999 8999887655542 1 22223333321 1 1246777777788864
No 51
>PRK05007 PII uridylyl-transferase; Provisional
Probab=94.74 E-value=0.16 Score=55.92 Aligned_cols=75 Identities=15% Similarity=0.170 Sum_probs=58.3
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCCcccc-CChHHHHHHHHHHHhhC
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDNDQIS-MQLPNLKLWVANALLNQ 313 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~~~~~-~~~~~Lk~~v~~Al~n~ 313 (324)
.+...|.|.|++++|+|.+|..+|..+ |++|+.|.|.|.++ .++-+|.+.-..+.... --.+.|++.|..||...
T Consensus 699 ~~~t~V~V~a~DrpGLfa~Ia~~La~~-~L~I~~A~I~T~~dg~alD~F~V~d~~g~~~~~~~~~~I~~~L~~aL~~~ 775 (884)
T PRK05007 699 RGGTEIFIWSPDRPYLFAAVCAELDRR-NLSVHDAQIFTSRDGMAMDTFIVLEPDGSPLSQDRHQVIRKALEQALTQS 775 (884)
T ss_pred CCeEEEEEEecCCcCHHHHHHHHHHHC-CCEEEEEEEEEcCCCeEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHcCC
Confidence 345789999999999999999999999 89999999988876 77777877655543111 12345888888888654
No 52
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=94.65 E-value=0.17 Score=55.58 Aligned_cols=74 Identities=7% Similarity=0.169 Sum_probs=58.4
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeee-cCCeEEEEEEEEecCCccccCC---hHHHHHHHHHHHhhC
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVA-ESERFVLTFTLNAKDNDQISMQ---LPNLKLWVANALLNQ 313 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst-~~~~~~~t~~vkv~~~~~~~~~---~~~Lk~~v~~Al~n~ 313 (324)
.+...|.|.|++++|+|++|..+|..+ |++|+.|.|.| .++.++-+|.|.-.++. .+. .+.|++.|..+|.+.
T Consensus 675 ~~~t~V~V~~~DrpGLfa~Ia~~L~~~-~L~I~~A~I~T~~~g~alD~F~V~d~~g~--~~~~~~~~~l~~~L~~aL~~~ 751 (854)
T PRK01759 675 RGGTEIFIYCQDQANLFLKVVSTIGAK-KLSIHDAQIITSQDGYVLDSFIVTELNGK--LLEFDRRRQLEQALTKALNTN 751 (854)
T ss_pred CCeEEEEEEecCCccHHHHHHHHHHHC-CCeEEEEEEEEccCCEEEEEEEEeCCCCC--CCCHHHHHHHHHHHHHHHcCC
Confidence 345789999999999999999999999 89999999977 77888888888654443 233 336778888888654
Q ss_pred C
Q 042465 314 G 314 (324)
Q Consensus 314 g 314 (324)
.
T Consensus 752 ~ 752 (854)
T PRK01759 752 K 752 (854)
T ss_pred C
Confidence 3
No 53
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=94.59 E-value=0.2 Score=55.21 Aligned_cols=74 Identities=16% Similarity=0.273 Sum_probs=56.5
Q ss_pred ceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec-CCeEEEEEEEEecCCccccCC---hHHHHHHHHHHHhhC
Q 042465 239 RGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE-SERFVLTFTLNAKDNDQISMQ---LPNLKLWVANALLNQ 313 (324)
Q Consensus 239 ~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~-~~~~~~t~~vkv~~~~~~~~~---~~~Lk~~v~~Al~n~ 313 (324)
+...|.|.|.+++|+|++|..+|..+ |++|+.|.|.|. ++.++-+|.|.-..+...... .+.|++.|..+|...
T Consensus 703 ~~t~V~V~~~DrpgLFa~i~g~L~~~-~lnI~~A~I~Tt~dg~alD~F~V~d~~g~~~~~~~~r~~~i~~~L~~~L~~~ 780 (895)
T PRK00275 703 GGTQIFIYAPDQHDFFAATVAAMDQL-NLNIHDARIITSSSQFTLDTYIVLDDDGEPIGDNPARIEQIREGLTEALRNP 780 (895)
T ss_pred CeEEEEEEeCCCCcHHHHHHHHHHHC-CCeEEEEEEEEcCCCeEEEEEEEeCCCCCCccchHHHHHHHHHHHHHHHcCC
Confidence 56789999999999999999999999 899999998555 456677787775554321222 345778888887653
No 54
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.28 E-value=0.24 Score=36.79 Aligned_cols=50 Identities=18% Similarity=0.209 Sum_probs=40.1
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec-CCeEEEEEEEEecCC
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE-SERFVLTFTLNAKDN 292 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~-~~~~~~t~~vkv~~~ 292 (324)
.+.|.+..++|+|.+|+++|.+. +.+|...+.... ++.+...|++.+.+.
T Consensus 2 ~l~i~~~d~~g~l~~I~~~la~~-~inI~~i~~~~~~~~~~~i~~~v~v~~~ 52 (76)
T cd04888 2 TLSLLLEHRPGVLSKVLNTIAQV-RGNVLTINQNIPIHGRANVTISIDTSTM 52 (76)
T ss_pred EEEEEecCCCchHHHHHHHHHHc-CCCEEEEEeCCCCCCeEEEEEEEEcCch
Confidence 47888999999999999999999 899999876543 355666777777553
No 55
>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=94.26 E-value=0.22 Score=35.70 Aligned_cols=62 Identities=15% Similarity=0.207 Sum_probs=43.9
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC--CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCccc
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES--ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQVL 318 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~--~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~~ 318 (324)
|.|.-+.++|.|.+++..|.+. |++|.+....... +...+. +.+.. ...+..+|.+.||.++
T Consensus 2 i~v~~~d~pG~L~~i~~~l~~~-~~nI~~i~~~~~~~~~~~~v~--~~ve~-----------~~~~~~~L~~~G~~v~ 65 (65)
T cd04882 2 LAVEVPDKPGGLHEILQILSEE-GINIEYMYAFVEKKGGKALLI--FRTED-----------IEKAIEVLQERGVELV 65 (65)
T ss_pred EEEEeCCCCcHHHHHHHHHHHC-CCChhheEEEccCCCCeEEEE--EEeCC-----------HHHHHHHHHHCCceEC
Confidence 5677789999999999999999 8999776654433 333333 34432 2567777888898763
No 56
>PRK03059 PII uridylyl-transferase; Provisional
Probab=94.05 E-value=0.21 Score=54.84 Aligned_cols=74 Identities=12% Similarity=0.169 Sum_probs=56.4
Q ss_pred ceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeee-cCCeEEEEEEEEecCCc-cccCChHHHHHHHHHHHhhC
Q 042465 239 RGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVA-ESERFVLTFTLNAKDND-QISMQLPNLKLWVANALLNQ 313 (324)
Q Consensus 239 ~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst-~~~~~~~t~~vkv~~~~-~~~~~~~~Lk~~v~~Al~n~ 313 (324)
+...|.|.|++++|+|++|.-+|..+ ||+|+.|.|.| .++.++-+|.|.-..+. ...--.+.|++.|..||.+.
T Consensus 677 ~~~~v~i~~~d~~gLFa~i~g~l~~~-~l~I~~A~i~t~~~g~~ld~f~V~~~~~~~~~~~~~~~i~~~l~~~l~~~ 752 (856)
T PRK03059 677 EGLQVMVYTPDQPDLFARICGYFDRA-GFSILDARVHTTRHGYALDTFQVLDPEEDVHYRDIINLVEHELAERLAEQ 752 (856)
T ss_pred CeEEEEEEecCCCcHHHHHHHHHHHC-CCceeeeEEEEcCCCeEEEEEEEeCCCCCCChHHHHHHHHHHHHHHHcCC
Confidence 55789999999999999999999999 89999999954 55677778877643332 01113566888888888653
No 57
>PRK05092 PII uridylyl-transferase; Provisional
Probab=93.98 E-value=0.36 Score=53.49 Aligned_cols=74 Identities=14% Similarity=0.145 Sum_probs=56.4
Q ss_pred ceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCCcc--ccCChHHHHHHHHHHHhhC
Q 042465 239 RGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDNDQ--ISMQLPNLKLWVANALLNQ 313 (324)
Q Consensus 239 ~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~~~--~~~~~~~Lk~~v~~Al~n~ 313 (324)
+...|.|.|.+++|+|.+|..+|..+ |++|+.|.|.|.. +.++-+|.|.-..+.. ..-..+.|+..|..+|.+.
T Consensus 731 ~~t~v~I~~~Dr~GLfa~i~~~L~~~-glnI~~A~I~t~~dg~alD~F~V~~~~g~~~~~~~~~~~l~~~L~~~l~~~ 807 (931)
T PRK05092 731 GVTEVTVLAADHPGLFSRIAGACAAA-GANIVDARIFTTTDGRALDTFWIQDAFGRDEDEPRRLARLAKAIEDALSGE 807 (931)
T ss_pred CeEEEEEEeCCCCcHHHHHHHHHHHC-CCcEEEEEEEEecCCeEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHcCC
Confidence 46899999999999999999999999 8999999998854 5556667776544421 1113667888888888543
No 58
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=93.92 E-value=0.033 Score=48.64 Aligned_cols=49 Identities=24% Similarity=0.417 Sum_probs=44.7
Q ss_pred CcccchHHHHHHHHHHHHHHHHHhcCCCC--CCCCcccHHHHHHHHHHHHH
Q 042465 133 RSRTLISEQKRRGKMKEKLYQLRALVPNI--TKMDKASLVGDAVSYVQELQ 181 (324)
Q Consensus 133 r~~h~~~ER~RR~~in~~~~~LrslvP~~--~K~dKasIL~~Ai~YIk~Lq 181 (324)
|--|++.||+|-..||+.|..||.++|.. .|.+|.--|.-|..||-.|=
T Consensus 79 rv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~ 129 (173)
T KOG4447|consen 79 RVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLY 129 (173)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhh
Confidence 55789999999999999999999999964 78899999999999999983
No 59
>PRK04374 PII uridylyl-transferase; Provisional
Probab=93.61 E-value=0.36 Score=53.13 Aligned_cols=74 Identities=11% Similarity=0.197 Sum_probs=58.0
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec-CCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhC
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE-SERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQ 313 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~-~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~ 313 (324)
.+...|.|.|..++|+|++|.-+|..+ |++|+.|.|.|. ++.++-+|.|.-..+. ..-....|+..|..+|.+.
T Consensus 688 ~~~~~v~v~~~d~~gLFa~i~g~l~~~-~lnI~~A~i~t~~~g~~ld~f~V~~~~~~-~~~~~~~i~~~l~~~l~~~ 762 (869)
T PRK04374 688 NDALEVFVYSPDRDGLFAAIVATLDRK-GYGIHRARVLDAPHDAIFDVFEVLPQDTY-ADGDPQRLAAALRQVLAGD 762 (869)
T ss_pred CCeEEEEEEeCCCccHHHHHHHHHHHC-CCeEEEEEEEEcCCCEEEEEEEEeCCCCC-ChHHHHHHHHHHHHHHcCC
Confidence 356789999999999999999999999 899999999875 5677778877644432 1223566888888888764
No 60
>PRK04435 hypothetical protein; Provisional
Probab=93.51 E-value=0.44 Score=41.30 Aligned_cols=56 Identities=14% Similarity=0.182 Sum_probs=46.2
Q ss_pred EeCceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec-CCeEEEEEEEEecCC
Q 042465 236 VEERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE-SERFVLTFTLNAKDN 292 (324)
Q Consensus 236 v~e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~-~~~~~~t~~vkv~~~ 292 (324)
..|+.+.|.+.+.+++|+|.+|+.+|.+. +++|...+.... ++....+|++.+.+.
T Consensus 65 ~~~r~vtL~i~l~Dr~GlLs~Il~~IA~~-~aNIltI~q~i~~~g~a~vs~tVevs~~ 121 (147)
T PRK04435 65 VKGKIITLSLLLEDRSGTLSKVLNVIAEA-GGNILTINQSIPLQGRANVTISIDTSSM 121 (147)
T ss_pred CCCcEEEEEEEEecCCCHHHHHHHHHHHc-CCCeEEEEEEcCCCCEEEEEEEEEeCCh
Confidence 44778999999999999999999999999 899999886543 456677788887653
No 61
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=93.49 E-value=0.68 Score=44.45 Aligned_cols=75 Identities=16% Similarity=0.210 Sum_probs=58.6
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeee--cCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVA--ESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst--~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
.+.|.|.|++|+|+...|.++|-++ |++|..++.++ .++.|...+.+.+.. ...+...|+..+...-...|.++
T Consensus 6 ~~vitv~G~DrpGIVa~Vt~~La~~-g~NI~d~s~~~~~~~g~F~m~i~v~~~~---~~~~~~~L~~~L~~l~~~l~l~i 81 (286)
T PRK06027 6 RYVLTLSCPDRPGIVAAVSNFLYEH-GGNIVDADQFVDPETGRFFMRVEFEGDG---LIFNLETLRADFAALAEEFEMDW 81 (286)
T ss_pred eEEEEEECCCCCcHHHHHHHHHHHC-CCCEEEceeEEcCCCCeEEEEEEEEeCC---CCCCHHHHHHHHHHHHHHhCCEE
Confidence 4679999999999999999999999 89999999988 777655555554421 23458889988887766667665
Q ss_pred c
Q 042465 318 L 318 (324)
Q Consensus 318 ~ 318 (324)
.
T Consensus 82 ~ 82 (286)
T PRK06027 82 R 82 (286)
T ss_pred E
Confidence 3
No 62
>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=93.25 E-value=0.56 Score=44.99 Aligned_cols=72 Identities=13% Similarity=0.164 Sum_probs=54.1
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC--CeEEEEEEEEecCCccccCChHHHHHHHHHHHh-hCCCcc
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES--ERFVLTFTLNAKDNDQISMQLPNLKLWVANALL-NQGFQV 317 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~--~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~-n~g~~~ 317 (324)
.|.|.|++++|+...|-..|-+. |++|+.++-+... +.|. +.+.+...+ ..++.+.|+.++..++. .-|.++
T Consensus 2 ~itv~g~D~~GIVA~Vt~~La~~-g~NI~d~sq~~~~~~~~F~--mr~~v~~~~-~~~~~~~l~~~l~~~~~~~~~l~i 76 (280)
T TIGR00655 2 ILLVSCPDQKGLVAAISTFIAKH-GANIISNDQHTDPETGRFF--MRVEFQLEG-FRLEESSLLAAFKSALAEKFEMTW 76 (280)
T ss_pred EEEEECCCCCChHHHHHHHHHHC-CCCEEeeeEEEcCCCCeEE--EEEEEEeCC-CCCCHHHHHHHHHHHHHHHhCCEE
Confidence 47899999999999999999999 8999999977643 5554 444554432 34788999999988443 335443
No 63
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=93.23 E-value=0.7 Score=44.40 Aligned_cols=76 Identities=13% Similarity=0.089 Sum_probs=57.9
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCccc
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQVL 318 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~~ 318 (324)
.+.|.|.|++++|+...|.+.|-++ |++|...+..+....-.+++.+.+... .+.+...|+..+...-..-|.++.
T Consensus 7 ~~vitv~G~DrpGIVa~VT~~La~~-~vNI~dls~~~~~~~~~F~m~~~~~~p--~~~~~~~L~~~L~~l~~~l~l~i~ 82 (286)
T PRK13011 7 TFVLTLSCPSAAGIVAAVTGFLAEH-GCYITELHSFDDRLSGRFFMRVEFHSE--EGLDEDALRAGFAPIAARFGMQWE 82 (286)
T ss_pred eEEEEEEeCCCCCHHHHHHHHHHhC-CCCEEEeeeeecCCCCeEEEEEEEecC--CCCCHHHHHHHHHHHHHHhCcEEE
Confidence 4679999999999999999999999 899999887643332334456666544 246799999999887766676654
No 64
>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=93.22 E-value=0.2 Score=36.72 Aligned_cols=49 Identities=16% Similarity=0.265 Sum_probs=38.3
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC--CeEEEEEEEEec
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES--ERFVLTFTLNAK 290 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~--~~~~~t~~vkv~ 290 (324)
++|+|.+..++|++.+|+..|.+. +.++.+.+..+.. +.....+.+.+.
T Consensus 1 ~yl~i~~~d~~g~l~~i~~~l~~~-~i~I~~~~~~~~~~~~~~~~~i~~~~~ 51 (79)
T cd04881 1 YYLRLTVKDKPGVLAKITGILAEH-GISIESVIQKEADGGETAPVVIVTHET 51 (79)
T ss_pred CEEEEEeCCCCcHHHHHHHHHHHc-CCCeEEEEEcccCCCCceeEEEEEccC
Confidence 478999999999999999999999 8999988765542 444455555543
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=93.17 E-value=0.38 Score=36.20 Aligned_cols=46 Identities=9% Similarity=0.261 Sum_probs=38.2
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecC
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKD 291 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~ 291 (324)
.|+|.|..++|+|.+|+.++.+. +..+.+.++.+. +. ..|.+.+.+
T Consensus 2 ~l~I~~~dr~Gll~dI~~~i~~~-~~nI~~~~~~~~-~~--i~l~i~v~~ 47 (74)
T cd04877 2 RLEITCEDRLGITQEVLDLLVEH-NIDLRGIEIDPK-GR--IYLNFPTIE 47 (74)
T ss_pred EEEEEEEccchHHHHHHHHHHHC-CCceEEEEEecC-Ce--EEEEeEecC
Confidence 48899999999999999999999 899999998764 43 556666654
No 66
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=92.73 E-value=0.68 Score=44.62 Aligned_cols=75 Identities=13% Similarity=0.155 Sum_probs=56.3
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEee--ecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCccc
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLV--AESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQVL 318 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vs--t~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~~ 318 (324)
+.|.|.|++++|+...|...|-+. |++|+.++-. +..+.|+.- +.+.......++...|+.++..+-..-|.++-
T Consensus 10 ~iitv~G~Dr~GIVA~Vs~~Lae~-g~NI~disq~~d~~~~~ffm~--i~~~~~~~~~~~~~~l~~~l~~l~~~l~l~~~ 86 (289)
T PRK13010 10 YVLTLACPSAPGIVAAVSGFLAEK-GCYIVELTQFDDDESGRFFMR--VSFHAQSAEAASVDTFRQEFQPVAEKFDMQWA 86 (289)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHC-CCCEEecccccccccCcEEEE--EEEEcCCCCCCCHHHHHHHHHHHHHHhCCeEE
Confidence 679999999999999999999999 8999999875 344444433 33332211357899999999987777676653
No 67
>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=92.19 E-value=0.8 Score=31.57 Aligned_cols=48 Identities=15% Similarity=0.270 Sum_probs=37.5
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecC
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKD 291 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~ 291 (324)
|+|.|..++|.+.+|+..|... +++|....+...+ +.....|++++..
T Consensus 1 l~v~~~~~~~~l~~i~~~l~~~-~~~i~~~~~~~~~~~~~~~~~~~~~~~ 49 (71)
T cd04876 1 IRVEAIDRPGLLADITTVIAEE-KINILSVNTRTDDDGLATIRLTLEVRD 49 (71)
T ss_pred CEEEEeccCcHHHHHHHHHHhC-CCCEEEEEeEECCCCEEEEEEEEEECC
Confidence 4678899999999999999999 7999998877655 4444556666544
No 68
>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=92.04 E-value=0.99 Score=29.33 Aligned_cols=35 Identities=14% Similarity=0.231 Sum_probs=30.2
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES 278 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~ 278 (324)
|.|.|+.++|.+.+|+.+|... ++.|.........
T Consensus 1 i~i~~~~~~~~l~~i~~~l~~~-~~~i~~~~~~~~~ 35 (60)
T cd02116 1 LTVSGPDRPGLLAKVLSVLAEA-GINITSIEQRTSG 35 (60)
T ss_pred CEEEecCCCchHHHHHHHHHHC-CCcEEEEEeEEcC
Confidence 4678899999999999999999 7999998876543
No 69
>PRK08577 hypothetical protein; Provisional
Probab=91.24 E-value=1.9 Score=36.51 Aligned_cols=53 Identities=13% Similarity=0.122 Sum_probs=42.8
Q ss_pred ceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC--CeEEEEEEEEecCC
Q 042465 239 RGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES--ERFVLTFTLNAKDN 292 (324)
Q Consensus 239 ~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~--~~~~~t~~vkv~~~ 292 (324)
+.+.|.|.+..++|+|.+|++.|.+. +.++.+.+..+.. +.+...+++.+.+.
T Consensus 55 ~~~~I~V~~~Dr~GvLa~I~~~l~~~-~inI~~i~~~~~~~~~~~~i~l~vev~~~ 109 (136)
T PRK08577 55 KLVEIELVVEDRPGVLAKITGLLAEH-GVDILATECEELKRGELAECVIIVDLSKS 109 (136)
T ss_pred cEEEEEEEEcCCCCHHHHHHHHHHHC-CCCEEEEEEEEecCCCEEEEEEEEEeCCc
Confidence 35889999999999999999999999 7999988766643 44556677777664
No 70
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=90.96 E-value=0.73 Score=41.76 Aligned_cols=72 Identities=11% Similarity=0.147 Sum_probs=56.5
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
.+.|.+.+++|+|+...|-++|.+. |.++..++.+..++.|-..+.+ .. .......|+..+...-...|...
T Consensus 8 ~lviTviG~DrpGIVa~vs~~l~~~-g~NI~ds~~t~lgg~Fa~i~lv--s~---~~~~~~~le~~L~~l~~~~~L~i 79 (190)
T PRK11589 8 YLVITALGADRPGIVNTITRHVSSC-GCNIEDSRLAMLGEEFTFIMLL--SG---SWNAITLIESTLPLKGAELDLLI 79 (190)
T ss_pred EEEEEEEcCCCChHHHHHHHHHHHc-CCCeeehhhHhhCCceEEEEEE--eC---ChhHHHHHHHHHHhhhhhcCeEE
Confidence 4679999999999999999999999 8999999999999976555544 22 23367778777766665556655
No 71
>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=90.63 E-value=1.1 Score=31.99 Aligned_cols=48 Identities=13% Similarity=0.199 Sum_probs=38.2
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec--CCeEEEEEEEEec
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE--SERFVLTFTLNAK 290 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~--~~~~~~t~~vkv~ 290 (324)
.+.|.+..++|+|.+|+..|.+. ++.|.+.+..+. ++...+.|.+.+.
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~-~~~i~~~~~~~~~~~~~~~~~~~~~~~ 51 (72)
T cd04878 2 TLSVLVENEPGVLNRISGLFARR-GFNIESLTVGPTEDPGISRITIVVEGD 51 (72)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhC-CCCEEEEEeeecCCCCeEEEEEEEECC
Confidence 46788899999999999999999 899999887654 3455666666653
No 72
>PRK07334 threonine dehydratase; Provisional
Probab=90.56 E-value=1.6 Score=43.62 Aligned_cols=69 Identities=17% Similarity=0.169 Sum_probs=53.4
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec-----CCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCC
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE-----SERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQG 314 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~-----~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g 314 (324)
.+.|+|.+..++|+|.+|+.+|.+. +++|.+.++.+. ++.....|+++|++- +.| ..|...|.+.|
T Consensus 326 ~v~l~I~~~dr~GlL~dI~~~is~~-~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~-------~~L-~~vi~~Lr~~g 396 (403)
T PRK07334 326 LARLRVDIRDRPGALARVTALIGEA-GANIIEVSHQRLFTDLPAKGAELELVIETRDA-------AHL-QEVIAALRAAG 396 (403)
T ss_pred EEEEEEEeCCCCCHHHHHHHHHhhC-CCceEEEEEEecccCCCCCeEEEEEEEEeCCH-------HHH-HHHHHHHHHcC
Confidence 3889999999999999999999999 799999998754 456677788888763 233 24555666677
Q ss_pred Ccc
Q 042465 315 FQV 317 (324)
Q Consensus 315 ~~~ 317 (324)
|..
T Consensus 397 ~~~ 399 (403)
T PRK07334 397 FEA 399 (403)
T ss_pred Cee
Confidence 754
No 73
>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=90.53 E-value=1.4 Score=31.60 Aligned_cols=35 Identities=17% Similarity=0.231 Sum_probs=30.9
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE 277 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~ 277 (324)
.|.|.+..++|.|.+|+..|.+. ++.|.+.+....
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~-~~~i~~~~~~~~ 36 (72)
T cd04874 2 ALSIIAEDKPGVLRDLTGVIAEH-GGNITYTQQFIE 36 (72)
T ss_pred eEEEEeCCCCChHHHHHHHHHhC-CCCEEEEEEecc
Confidence 47789999999999999999999 799998877655
No 74
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=90.33 E-value=0.5 Score=44.75 Aligned_cols=51 Identities=24% Similarity=0.389 Sum_probs=45.0
Q ss_pred cCcccchHHHHHHHHHHHHHHHHHhcCCC---CCCCCcccHHHHHHHHHHHHHH
Q 042465 132 HRSRTLISEQKRRGKMKEKLYQLRALVPN---ITKMDKASLVGDAVSYVQELQT 182 (324)
Q Consensus 132 ~r~~h~~~ER~RR~~in~~~~~LrslvP~---~~K~dKasIL~~Ai~YIk~Lq~ 182 (324)
+|.+=|..||+|=-.+|+.|..||.++|. ..|+.|...|.-|-+||-.|+.
T Consensus 72 rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 72 RRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSE 125 (254)
T ss_pred hcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcc
Confidence 46677889999999999999999999994 4789999999999999998853
No 75
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=89.83 E-value=0.42 Score=49.50 Aligned_cols=42 Identities=31% Similarity=0.531 Sum_probs=36.9
Q ss_pred chHHHHHHHHHHHHHHHHHhcCCC----CCCCCcccHHHHHHHHHH
Q 042465 137 LISEQKRRGKMKEKLYQLRALVPN----ITKMDKASLVGDAVSYVQ 178 (324)
Q Consensus 137 ~~~ER~RR~~in~~~~~LrslvP~----~~K~dKasIL~~Ai~YIk 178 (324)
.---||-|+++|.-+..|.+|+|- .+|+||.|||.=++.|++
T Consensus 30 SNPSKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 30 SNPSKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred CCcchhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHH
Confidence 345678889999999999999995 489999999999999975
No 76
>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=89.06 E-value=3.5 Score=30.81 Aligned_cols=47 Identities=9% Similarity=0.121 Sum_probs=36.3
Q ss_pred EEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecC
Q 042465 244 KLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKD 291 (324)
Q Consensus 244 ~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~ 291 (324)
.+..++++|.|.+|++.+.+. |+.+.+.......+ ...+.|.+.+..
T Consensus 3 ~~~l~d~pG~L~~vL~~f~~~-~vni~~I~Srp~~~~~~~~~f~id~~~ 50 (75)
T cd04880 3 VFSLKNKPGALAKALKVFAER-GINLTKIESRPSRKGLWEYEFFVDFEG 50 (75)
T ss_pred EEEeCCcCCHHHHHHHHHHHC-CCCEEEEEeeecCCCCceEEEEEEEEC
Confidence 445577999999999999999 89999987665544 455667777765
No 77
>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=88.46 E-value=1.7 Score=30.46 Aligned_cols=46 Identities=17% Similarity=0.249 Sum_probs=35.0
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEe
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNA 289 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv 289 (324)
|.|.++.++|.|.+++++|.+. |++|.+..+.... +.....|.+..
T Consensus 1 ~~v~~~d~~G~l~~i~~~l~~~-~inI~~~~~~~~~~~~~~~~~~v~~ 47 (56)
T cd04889 1 LSVFVENKPGRLAEVTEILAEA-GINIKAISIAETRGEFGILRLIFSD 47 (56)
T ss_pred CEEEeCCCCChHHHHHHHHHHc-CCCEeeEEEEEccCCcEEEEEEECC
Confidence 3567889999999999999999 8999887766655 45454444433
No 78
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=88.13 E-value=6.7 Score=29.71 Aligned_cols=59 Identities=8% Similarity=0.142 Sum_probs=42.3
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCCccccCChHHHHHHH
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDNDQISMQLPNLKLWV 306 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~~~~~~~~~~Lk~~v 306 (324)
+.+..+.++|.|.+|+..+.+. |+.+.+.......+ ...+.|.+.+... .+...++..+
T Consensus 4 l~~~~~d~~G~L~~il~~f~~~-~ini~~i~s~p~~~~~~~~~f~vd~~~~----~~~~~~~~~l 63 (80)
T cd04905 4 IVFTLPNKPGALYDVLGVFAER-GINLTKIESRPSKGGLWEYVFFIDFEGH----IEDPNVAEAL 63 (80)
T ss_pred EEEEECCCCCHHHHHHHHHHHC-CcCEEEEEEEEcCCCCceEEEEEEEECC----CCCHHHHHHH
Confidence 4555678899999999999999 89999887655543 4567777777643 2345555555
No 79
>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=88.12 E-value=2.1 Score=30.28 Aligned_cols=44 Identities=14% Similarity=0.154 Sum_probs=35.5
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC--CeEEEEEEE
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES--ERFVLTFTL 287 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~--~~~~~t~~v 287 (324)
+.|.+..++|.+.+|+..|.+. ++.|.+..+.... +....+|++
T Consensus 2 l~v~~~d~~g~l~~i~~~l~~~-~~nI~~~~~~~~~~~~~~~~~~~v 47 (71)
T cd04879 2 LLIVHKDVPGVIGKVGTILGEH-GINIAAMQVGRKEKGGIAYMVLDV 47 (71)
T ss_pred EEEEecCCCCHHHHHHHHHHhc-CCCeeeEEEeccCCCCEEEEEEEc
Confidence 5678899999999999999999 8999998877654 454555544
No 80
>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=87.99 E-value=4.7 Score=29.83 Aligned_cols=66 Identities=11% Similarity=0.141 Sum_probs=43.8
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeec--C-CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCccc
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE--S-ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQVL 318 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~--~-~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~~ 318 (324)
+.|.-+.+||.|.+|+..|.+. |++|++...... + +.-...+++.+...+ . .+.|..+|.+. +++.
T Consensus 2 l~v~~~d~pG~L~~l~~~i~~~-g~nI~~i~~~~~~~~~~~~~~~v~v~~e~~~-------~-~~~i~~~L~~~-~~~~ 70 (72)
T cd04884 2 FTFLLEDKPGTLKPVVDTLREF-NARIISILTAFEDAPDGMRRVFIRVTPMDRS-------K-ENELIEELKAK-FTVV 70 (72)
T ss_pred EEEEecCCCccHHHHHHHHHHC-CCeEEEEEeccccCCCCccEEEEEEEEecch-------H-HHHHHHHHhCc-ccEE
Confidence 4567789999999999999999 899998876654 2 233445555552211 1 34666666444 6553
No 81
>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=87.90 E-value=3.6 Score=29.20 Aligned_cols=33 Identities=18% Similarity=0.221 Sum_probs=29.4
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeee
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVA 276 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst 276 (324)
|.+.+..++|.+.+|+..|.+. +++|.+.....
T Consensus 2 l~i~~~d~~g~l~~i~~~l~~~-~~~I~~~~~~~ 34 (71)
T cd04903 2 LIVVHKDKPGAIAKVTSVLADH-EINIAFMRVSR 34 (71)
T ss_pred EEEEeCCCCChHHHHHHHHHHc-CcCeeeeEEEe
Confidence 6788899999999999999999 89998887665
No 82
>COG3830 ACT domain-containing protein [Signal transduction mechanisms]
Probab=87.74 E-value=1.9 Score=34.65 Aligned_cols=74 Identities=14% Similarity=0.148 Sum_probs=60.9
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCccc
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQVL 318 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~~ 318 (324)
+.|.|.-.+|+|+...|..+|-++ |.+|+..+=+...+.| |+.+-|..+. ...+...|+..+..+....|.++.
T Consensus 4 avITV~GkDr~GIva~is~vLAe~-~vNIldisQtvm~~~f--tm~~lV~~~~-~~~d~~~lr~~l~~~~~~lgv~V~ 77 (90)
T COG3830 4 AVITVIGKDRVGIVAAVSRVLAEH-GVNILDISQTVMDGFF--TMIMLVDISK-EVVDFAALRDELAAEGKKLGVDVR 77 (90)
T ss_pred EEEEEEcCCCCchhHHHHHHHHHc-CCcEEEHHHHHHhhhc--eeeeEEcCCh-HhccHHHHHHHHHHHHHhcCcEEE
Confidence 678999999999999999999999 8999998877777754 4555555553 567889999999999998887764
No 83
>PRK06382 threonine dehydratase; Provisional
Probab=87.35 E-value=2.9 Score=41.85 Aligned_cols=73 Identities=19% Similarity=0.163 Sum_probs=55.3
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEee----ec-CCeEEEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLV----AE-SERFVLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vs----t~-~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
++.+.+.|.-++++|.|.+|++.|.+. +.+|++.... .. .+...++|+++.++.+ ..+.|..+|..
T Consensus 328 ~~~~rl~v~v~D~pG~L~~l~~ii~~~-~~nI~~v~~~~~~~~~~~~~~~v~i~vet~~~~--------~~~~v~~~L~~ 398 (406)
T PRK06382 328 GQLVRIECNIPDRPGNLYRIANAIASN-GGNIYHAEVDNLRKETPPGFQSVTFTVNVRGQD--------HLDRILNALRE 398 (406)
T ss_pred CCEEEEEEEcCCCCCHHHHHHHHHhcC-CCcEEEEEEeeccccCCCCcEEEEEEEEeCCHH--------HHHHHHHHHHH
Confidence 556788899999999999999999999 7999887754 22 2355667777776322 23578888999
Q ss_pred CCCcccc
Q 042465 313 QGFQVLI 319 (324)
Q Consensus 313 ~g~~~~~ 319 (324)
.||.+..
T Consensus 399 ~Gy~~~~ 405 (406)
T PRK06382 399 MGYKFNI 405 (406)
T ss_pred CCCCeee
Confidence 9998754
No 84
>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=86.55 E-value=5.7 Score=29.26 Aligned_cols=65 Identities=11% Similarity=0.126 Sum_probs=44.3
Q ss_pred EEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCccc
Q 042465 244 KLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQVL 318 (324)
Q Consensus 244 ~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~~ 318 (324)
.|.-+.+||-|.++++.|.+ . .+|+..+....+ +...+.+.+++.+.+ -.+.+..+|...|+.+.
T Consensus 2 ~v~ipdkPG~l~~~~~~i~~-~-~nI~~~~~~~~~~~~~~v~v~ie~~~~~--------~~~~i~~~L~~~G~~~~ 67 (68)
T cd04885 2 AVTFPERPGALKKFLELLGP-P-RNITEFHYRNQGGDEARVLVGIQVPDRE--------DLAELKERLEALGYPYV 67 (68)
T ss_pred EEECCCCCCHHHHHHHHhCC-C-CcEEEEEEEcCCCCceEEEEEEEeCCHH--------HHHHHHHHHHHcCCCcc
Confidence 46678899999999999987 4 788877655433 234455566665432 23556668888888764
No 85
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=86.37 E-value=0.47 Score=50.39 Aligned_cols=47 Identities=30% Similarity=0.523 Sum_probs=40.6
Q ss_pred CcccchHHHHHHHHHHHHHHHHHhcCCCC----CCCCcccHHHHHHHHHHH
Q 042465 133 RSRTLISEQKRRGKMKEKLYQLRALVPNI----TKMDKASLVGDAVSYVQE 179 (324)
Q Consensus 133 r~~h~~~ER~RR~~in~~~~~LrslvP~~----~K~dKasIL~~Ai~YIk~ 179 (324)
|++..-+-|-||.|=|.-|.+|..+||-. ..+|||+|+.-||-|++-
T Consensus 47 kEkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 47 KEKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 55556678999999999999999999943 678999999999999864
No 86
>PRK08526 threonine dehydratase; Provisional
Probab=84.41 E-value=6.7 Score=39.43 Aligned_cols=76 Identities=17% Similarity=0.186 Sum_probs=58.0
Q ss_pred eCceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-----eEEEEEEEEecCCccccCChHHHHHHHHHHHh
Q 042465 237 EERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-----RFVLTFTLNAKDNDQISMQLPNLKLWVANALL 311 (324)
Q Consensus 237 ~e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-----~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~ 311 (324)
.++.+.+.|.-+++||.|.+++..+-+. +.+|+......... .....+.+++++.+ -.+.|..+|.
T Consensus 323 ~~r~~~~~~~~~d~pg~l~~~~~~~~~~-~~~i~~~~~~r~~~~~~~~~~~~~~~~e~~~~~--------~~~~~~~~l~ 393 (403)
T PRK08526 323 SYRKMKLHVTLVDKPGALMGLTDILKEA-NANIVKIDYDRFSTKLDYGDAMISITLETKGKE--------HQEEIRKILT 393 (403)
T ss_pred cCCEEEEEEEcCCCCCHHHHHHHHHccC-CCcEEEEEEEeccCCCCCccEEEEEEEEeCCHH--------HHHHHHHHHH
Confidence 3667899999999999999999999999 79999887755433 35555666666532 2356778888
Q ss_pred hCCCccccCC
Q 042465 312 NQGFQVLITP 321 (324)
Q Consensus 312 n~g~~~~~~~ 321 (324)
..|+.+...|
T Consensus 394 ~~g~~~~~~~ 403 (403)
T PRK08526 394 EKGFNFYEEF 403 (403)
T ss_pred HCCCCeEeCC
Confidence 8999887665
No 87
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=84.37 E-value=1 Score=45.26 Aligned_cols=42 Identities=31% Similarity=0.515 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCC----CCCCcccHHHHHHHHHHHH
Q 042465 139 SEQKRRGKMKEKLYQLRALVPNI----TKMDKASLVGDAVSYVQEL 180 (324)
Q Consensus 139 ~ER~RR~~in~~~~~LrslvP~~----~K~dKasIL~~Ai~YIk~L 180 (324)
.-|.||++-|.-|.+|..++|-. ...||++|+.-|..|||.-
T Consensus 8 aA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 8 AARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred HHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence 57899999999999999999943 5799999999999999754
No 88
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=84.37 E-value=1.5 Score=41.41 Aligned_cols=51 Identities=24% Similarity=0.320 Sum_probs=44.2
Q ss_pred cCcccchHHHHHHHHHHHHHHHHHhcCCCC---CCCCcccHHHHHHHHHHHHHH
Q 042465 132 HRSRTLISEQKRRGKMKEKLYQLRALVPNI---TKMDKASLVGDAVSYVQELQT 182 (324)
Q Consensus 132 ~r~~h~~~ER~RR~~in~~~~~LrslvP~~---~K~dKasIL~~Ai~YIk~Lq~ 182 (324)
+|.+-+..||+|=..||..|..||..||.. .|++|-.-|.-|-.||--|-.
T Consensus 174 rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~ 227 (285)
T KOG4395|consen 174 RRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGC 227 (285)
T ss_pred hhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHH
Confidence 366778999999999999999999999965 678888889999999987743
No 89
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=83.30 E-value=10 Score=28.57 Aligned_cols=47 Identities=11% Similarity=0.110 Sum_probs=37.1
Q ss_pred EEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecC
Q 042465 244 KLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKD 291 (324)
Q Consensus 244 ~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~ 291 (324)
-+..+.++|.|.+||..+... |+.+.+...-...+ ..-|.|.+.+..
T Consensus 4 ~f~l~~~pG~L~~vL~~f~~~-~iNlt~IeSRP~~~~~~~y~Ffvd~~~ 51 (74)
T cd04904 4 IFSLKEEVGALARALKLFEEF-GVNLTHIESRPSRRNGSEYEFFVDCEV 51 (74)
T ss_pred EEEeCCCCcHHHHHHHHHHHC-CCcEEEEECCCCCCCCceEEEEEEEEc
Confidence 344577899999999999999 89999988666554 456777777765
No 90
>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=82.85 E-value=11 Score=29.21 Aligned_cols=69 Identities=13% Similarity=0.141 Sum_probs=45.3
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcccc
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQVLI 319 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~~~ 319 (324)
.++.|.-+.+||-|.+++++|-. .+|......... +.....+.+++.++ .+.+ +.+..+|...|+.|..
T Consensus 2 ~vl~v~ipD~PG~L~~ll~~l~~---anI~~~~y~~~~~~~~~v~i~ie~~~~------~~~~-~~i~~~L~~~G~~~~~ 71 (85)
T cd04906 2 ALLAVTIPERPGSFKKFCELIGP---RNITEFNYRYADEKDAHIFVGVSVANG------AEEL-AELLEDLKSAGYEVVD 71 (85)
T ss_pred eEEEEecCCCCcHHHHHHHHhCC---CceeEEEEEccCCCeeEEEEEEEeCCc------HHHH-HHHHHHHHHCCCCeEE
Confidence 45788889999999999999982 455544433322 34445566677651 1222 4556688889998764
No 91
>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=82.11 E-value=6.4 Score=38.84 Aligned_cols=71 Identities=14% Similarity=0.137 Sum_probs=52.8
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec-----CCeEEEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE-----SERFVLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~-----~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
++.+.+.|.-++++|.|.+|++.+.+. +.+|++...... .+....++++++.+. .-.+.|..+|..
T Consensus 303 gr~~~l~v~l~D~pG~L~~v~~~i~~~-~~NI~~i~~~r~~~~~~~~~~~v~v~vet~~~--------~~~~~i~~~L~~ 373 (380)
T TIGR01127 303 GRKVRIETVLPDRPGALYHLLESIAEA-RANIVKIDHDRLSKEIPPGFAMVEITLETRGK--------EHLDEILKILRD 373 (380)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhcC-CCcEEEEEeeccccCCCCceEEEEEEEEeCCH--------HHHHHHHHHHHH
Confidence 556789999999999999999999999 799988765421 245556666666532 223578888888
Q ss_pred CCCcc
Q 042465 313 QGFQV 317 (324)
Q Consensus 313 ~g~~~ 317 (324)
.|+.+
T Consensus 374 ~G~~v 378 (380)
T TIGR01127 374 MGYNF 378 (380)
T ss_pred cCCcc
Confidence 88876
No 92
>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=80.72 E-value=2.4 Score=30.62 Aligned_cols=47 Identities=13% Similarity=0.199 Sum_probs=34.6
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEec
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAK 290 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~ 290 (324)
|-+.+..++|++.+|+..|.+. +..+...+....++.....|.+.+.
T Consensus 2 ~~~~~~d~~g~l~~i~~~l~~~-~~nI~~~~~~~~~~~a~~~~~~~~~ 48 (69)
T cd04901 2 ILHIHKNVPGVLGQINTILAEH-NINIAAQYLQTRGEIGYVVIDIDSE 48 (69)
T ss_pred EEEEecCCCcHHHHHHHHHHHc-CCCHHHHhccCCCCEEEEEEEcCCC
Confidence 3457788999999999999999 7998776655444555555555554
No 93
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=80.60 E-value=0.79 Score=48.76 Aligned_cols=66 Identities=23% Similarity=0.277 Sum_probs=53.7
Q ss_pred CcCcccchHHHHHHHHHHHHHHHHHhcCCCC-----CCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042465 131 DHRSRTLISEQKRRGKMKEKLYQLRALVPNI-----TKMDKASLVGDAVSYVQELQTTAKNLKAEIADLEA 196 (324)
Q Consensus 131 ~~r~~h~~~ER~RR~~in~~~~~LrslvP~~-----~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~~ 196 (324)
.++-.|..+|++||.+++-+|..|.+++-+. .|+.++.-+...++||..++.+...+.++-..|+.
T Consensus 650 ~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~~lr~ 720 (856)
T KOG3582|consen 650 NRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAHSLRK 720 (856)
T ss_pred CCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhhhhhh
Confidence 3477899999999999999999999998754 46777778999999999888877776666555543
No 94
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=80.10 E-value=11 Score=41.17 Aligned_cols=51 Identities=12% Similarity=0.197 Sum_probs=43.9
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec--CCeEEEEEEEEecCC
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE--SERFVLTFTLNAKDN 292 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~--~~~~~~t~~vkv~~~ 292 (324)
+.|.|.+..++|+|.+|..+|-+. ++.|.++++.+. ++.+...|+++|.+-
T Consensus 667 v~I~I~~~Dr~GlL~dIt~~is~~-~~nI~~v~~~~~~~~~~~~~~~~ieV~~~ 719 (743)
T PRK10872 667 LVVRVTANDRSGLLRDITTILANE-KVNVLGVASRSDTKQQLATIDMTIEIYNL 719 (743)
T ss_pred EEEEEEEcCCCCHHHHHHHHHHHC-CCCeEEEEeEEcCCCCEEEEEEEEEECCH
Confidence 578899999999999999999999 799999998765 356677888888774
No 95
>cd04931 ACT_PAH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe. In PAH, an autoregulatory sequence, N-terminal of the ACT domain, extends across the catalytic domain active site and regulates the enzyme by intrasteric regulation. It appears that the activation by L-Phe induces a conformational change that converts the enzyme to a high-affinity and high-activity state. Modulation of activity is achieved through inhibition by BH4 and activation by phosphorylation of serine residues of the autoregulatory region. The molecular basis for the cooperative activation process is not fully understood yet. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=79.61 E-value=23 Score=28.19 Aligned_cols=63 Identities=14% Similarity=0.161 Sum_probs=44.3
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCCccccCChHHHHHHHHHH
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDNDQISMQLPNLKLWVANA 309 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~A 309 (324)
.-|-+..+.++|.|.++|..+... |+.+.+...-...+ ..-|.|.+.+... ..+.++.++...
T Consensus 15 tslif~l~~~pGsL~~vL~~Fa~~-~INLt~IeSRP~~~~~~~Y~FfVDieg~-----~~~~~~~~l~~L 78 (90)
T cd04931 15 ISLIFSLKEEVGALAKVLRLFEEK-DINLTHIESRPSRLNKDEYEFFINLDKK-----SAPALDPIIKSL 78 (90)
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHC-CCCEEEEEeccCCCCCceEEEEEEEEcC-----CCHHHHHHHHHH
Confidence 345555678899999999999999 89999987655543 4457777777653 135555555443
No 96
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=79.08 E-value=10 Score=41.06 Aligned_cols=70 Identities=7% Similarity=0.134 Sum_probs=57.6
Q ss_pred ceEEEEEEe-cCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 239 RGFYLKLVS-NKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 239 ~~v~I~I~C-~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
.+..+.|.. ++++|+|+++.-.|--. |+.|.+|++.+ ++..+..|.|....+ ...+...|.+.+.+++-.
T Consensus 545 ~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~~~~~a~~~~-~~~~~~~~~v~~~~~--~~~~~~~~~~~~~~~~~~ 615 (693)
T PRK00227 545 EDGFFTVIWHGDYPRELVRVLALIAAK-GWNILSARMVA-NGPWSAEFDVRANGP--QDFDPQEFLQAYKSGVYS 615 (693)
T ss_pred cCCeEEEEecCCcccHHHHHHHHHHhc-CceeeEeEEec-CCceEEEEEEecCCC--CCCChHHHHHHHHHhhcC
Confidence 335666666 99999999999999988 89999999998 777778888877555 567889999999888743
No 97
>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=78.62 E-value=12 Score=40.23 Aligned_cols=51 Identities=16% Similarity=0.200 Sum_probs=44.2
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCC
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDN 292 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~ 292 (324)
+.|.|.+.+++|+|.+|+.+|-+. +..|.+.++.+.. +.+...|+++|.+-
T Consensus 611 v~I~I~~~dr~GlLadI~~~ia~~-~~nI~~v~~~~~~~~~~~~~~~ieV~~~ 662 (683)
T TIGR00691 611 VDINIEAVDRKGVLSDLTTAISEN-DSNIVSISTKTYGKREAILNITVEIKNY 662 (683)
T ss_pred EEEEEEEecCCCHHHHHHHHHHHC-CCCeEEEEeEEcCCCEEEEEEEEEECCH
Confidence 588899999999999999999999 8999999987764 56677788888774
No 98
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=78.52 E-value=13 Score=35.63 Aligned_cols=68 Identities=15% Similarity=0.167 Sum_probs=48.8
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHH
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANA 309 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~A 309 (324)
.+.+.|+|++++|+...|..-|-+. |..|+.++--+.-.+-.+..++.....+ .....+.|+..+...
T Consensus 7 ~~~LtvsCpd~~GiVaais~~l~~~-g~NI~~~~qf~D~~~g~FFmR~~f~~~~-~~~~~~~l~~~f~~~ 74 (287)
T COG0788 7 TFILTVSCPDQPGIVAAISGFLAEH-GCNIVDSDQFDDPETGRFFMRVEFEGEG-GPLDREALRAAFAPL 74 (287)
T ss_pred ceEEEEecCCCCCcHHHHHHHHHHc-CCceeecccccccccCeEEEEEEEecCC-CcccHHHHHHHHHHH
Confidence 4678999999999999999999999 8999998865332222333444444433 336777787777763
No 99
>PRK08198 threonine dehydratase; Provisional
Probab=78.11 E-value=15 Score=36.51 Aligned_cols=72 Identities=19% Similarity=0.192 Sum_probs=53.5
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec-----CCeEEEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE-----SERFVLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~-----~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
++.+.+.|.-+++||.|.+|+..|-+. |.+|+..+.... .+...+++.+++.+ .+. .+.+..+|..
T Consensus 325 gr~~~l~v~l~D~PG~L~~ll~~i~~~-g~NI~~i~~~~~~~~~~~~~~~v~v~ie~~~-------~~~-~~~l~~~L~~ 395 (404)
T PRK08198 325 GRYLKLRVRLPDRPGQLAKLLSIIAEL-GANVIDVDHDRFSPDLRLGEVEVELTLETRG-------PEH-IEEILDALRD 395 (404)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhhC-CCceEEEEEEEccCCCCCceEEEEEEEEeCC-------HHH-HHHHHHHHHH
Confidence 556789999999999999999999999 899988776542 24555666666633 222 2467777888
Q ss_pred CCCccc
Q 042465 313 QGFQVL 318 (324)
Q Consensus 313 ~g~~~~ 318 (324)
.|+.+.
T Consensus 396 ~G~~v~ 401 (404)
T PRK08198 396 AGYEVK 401 (404)
T ss_pred CCCeEE
Confidence 888765
No 100
>cd04929 ACT_TPH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxytryptamine (serotonin) and the first reaction in the synthesis of melatonin. Very little is known about the role of the ACT domain in TPH, which appears to be regulated by phosphorylation but not by its substrate or cofactor. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=78.09 E-value=21 Score=27.19 Aligned_cols=57 Identities=12% Similarity=0.088 Sum_probs=41.4
Q ss_pred EEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCCccccCChHHHHHHHHH
Q 042465 245 LVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDNDQISMQLPNLKLWVAN 308 (324)
Q Consensus 245 I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~ 308 (324)
+..+.++|.|.+++..++.. |+.+.+...-...+ ..-|.|-+.+.... ..+++++..
T Consensus 5 ~~l~~~~g~L~~iL~~f~~~-~inl~~IeSRP~~~~~~~y~F~id~e~~~------~~i~~~l~~ 62 (74)
T cd04929 5 FSLKNEVGGLAKALKLFQEL-GINVVHIESRKSKRRSSEFEIFVDCECDQ------RRLDELVQL 62 (74)
T ss_pred EEcCCCCcHHHHHHHHHHHC-CCCEEEEEeccCCCCCceEEEEEEEEcCH------HHHHHHHHH
Confidence 33467899999999999999 89999987655433 45677888886542 366666643
No 101
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=78.08 E-value=13 Score=40.20 Aligned_cols=51 Identities=22% Similarity=0.247 Sum_probs=44.0
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCC
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDN 292 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~ 292 (324)
+.|+|.+.+++|+|.+|+.+|-+. ++.|.++++.+.. +.+...|+++|.+-
T Consensus 627 v~i~I~~~dr~GlL~dI~~~i~~~-~~nI~~v~~~~~~~~~~~~~~~ieV~~~ 678 (702)
T PRK11092 627 AEIKVEMFNHQGALANLTAAINTT-GSNIQSLNTEEKDGRVYSAFIRLTARDR 678 (702)
T ss_pred EEEEEEEeCCCCHHHHHHHHHHHC-CCCeEEEEEEEcCCCEEEEEEEEEECCH
Confidence 578899999999999999999999 8999999987765 46677788888774
No 102
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=77.98 E-value=12 Score=27.49 Aligned_cols=42 Identities=12% Similarity=0.194 Sum_probs=29.7
Q ss_pred CCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecC
Q 042465 249 KGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKD 291 (324)
Q Consensus 249 ~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~ 291 (324)
.++|+|.+|+..+..- |++|.+-++....+--.+.+++.+.+
T Consensus 1 n~~GvL~Ri~~vf~rR-g~nI~sl~v~~~~~~~~~riti~v~~ 42 (63)
T PF13710_consen 1 NQPGVLNRITGVFRRR-GFNIESLSVGPTEDPGISRITIVVSG 42 (63)
T ss_dssp SSTTHHHHHHHHHHTT-T-EECEEEEEE-SSTTEEEEEEEEES
T ss_pred CCcHHHHHHHHHHhcC-CeEEeeEEeeecCCCCEEEEEEEEee
Confidence 3689999999999999 89999999988443223444444444
No 103
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=77.18 E-value=12 Score=32.99 Aligned_cols=47 Identities=13% Similarity=0.211 Sum_probs=37.5
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC--eEEEEEEEEe
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE--RFVLTFTLNA 289 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~--~~~~t~~vkv 289 (324)
.|.|.-+.++|.|.+|...|... |++|.+..+....+ ....+|++..
T Consensus 3 ~isI~ven~pGvL~rI~~lf~rr-g~NI~Sl~v~~t~~~~~sriti~V~~ 51 (157)
T TIGR00119 3 ILSVLVENEPGVLSRVAGLFTRR-GFNIESLTVGPTEDPDLSRMTIVVVG 51 (157)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhC-CceEEEEEEeecCCCCEEEEEEEEEC
Confidence 47788889999999999999999 89999998887763 3345555543
No 104
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=76.93 E-value=15 Score=33.29 Aligned_cols=75 Identities=9% Similarity=0.058 Sum_probs=54.9
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC----CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCc
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES----ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQ 316 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~----~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~ 316 (324)
+.|.|.-.++||++.+|.++|-+. |++|.+-+.-+.+ +.-++.+++.+.-+ .+.+...|+..+...-..-+.+
T Consensus 96 ~~v~v~G~DrPGIV~~vT~~la~~-~iNI~~L~T~~~~a~~~~~~lf~~~~~v~lP--~~~~~~~L~~~l~~l~~eL~vd 172 (190)
T PRK11589 96 VWVQVEVADSPHLIERFTALFDSH-HMNIAELVSRTQPAEGERPAQLHIQITAHSP--ASQDAANIEQAFKALCTELNAQ 172 (190)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHc-CCChhheEEeeecCCCCCcccEEEEEEEEcC--CCCCHHHHHHHHHHHHHHhCce
Confidence 668888899999999999999999 8999887766654 22244445555544 3456888888887766666665
Q ss_pred cc
Q 042465 317 VL 318 (324)
Q Consensus 317 ~~ 318 (324)
..
T Consensus 173 ~~ 174 (190)
T PRK11589 173 GS 174 (190)
T ss_pred EE
Confidence 43
No 105
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase
Probab=76.44 E-value=14 Score=43.33 Aligned_cols=71 Identities=15% Similarity=0.181 Sum_probs=55.9
Q ss_pred ceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEe---eecCC--eEEEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 239 RGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNL---VAESE--RFVLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 239 ~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~v---st~~~--~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
+.+.++|....++..|++||-+|+++ ||.|+...- .+.++ ..++.|.+....+ ...+...++..+..||.+
T Consensus 488 ~~~~lkiy~~~~~~~Ls~vlPilenl-Gl~V~~e~~~~i~~~~~~~~~i~~F~l~~~~~--~~~~~~~~~~~~~~a~~~ 563 (1528)
T PF05088_consen 488 GRLRLKIYHPGEPLPLSDVLPILENL-GLRVIDERPYEIRRADGRRVWIHDFGLQYPDG--DALDLDDIRERFEEAFEA 563 (1528)
T ss_pred CeEEEEEEcCCCCcCHHHHHHHHHhC-CCEEEEEecceeecCCCceEEEEEEEEecCCC--ccccHHHHHHHHHHHHHH
Confidence 45899999999999999999999999 999998753 33222 5577888887775 347788888888888764
No 106
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=76.08 E-value=12 Score=28.94 Aligned_cols=46 Identities=13% Similarity=0.230 Sum_probs=36.3
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC--eEEEEEEE
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE--RFVLTFTL 287 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~--~~~~t~~v 287 (324)
..|.|.-..+||+|.+|+..+..- |+.|.+-++....+ ....++++
T Consensus 4 ~~lsi~v~n~pGVL~Ri~~lf~rR-GfnI~sl~v~~t~~~~~sriti~v 51 (76)
T PRK11152 4 HQLTIKARFRPEVLERVLRVVRHR-GFQVCSMNMTQNTDAQNINIELTV 51 (76)
T ss_pred EEEEEEEECCccHHHHHHHHHhcC-CeeeeeEEeeecCCCCEEEEEEEE
Confidence 357777889999999999999999 99999999887544 33444444
No 107
>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=75.85 E-value=7.2 Score=28.28 Aligned_cols=46 Identities=11% Similarity=0.216 Sum_probs=34.1
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeec--CCeEEEEEEEEe
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE--SERFVLTFTLNA 289 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~--~~~~~~t~~vkv 289 (324)
+.+..+.++|.+.+|.+.|.+. |+.|.+..+... ++...+.|.++.
T Consensus 2 l~v~~~d~~G~l~~i~~~l~~~-~inI~~~~~~~~~~~~~~~~~i~v~~ 49 (73)
T cd04902 2 LVVRNTDRPGVIGKVGTILGEA-GINIAGMQVGRDEPGGEALMVLSVDE 49 (73)
T ss_pred EEEEeCCCCCHHHHHHHHHHHc-CcChhheEeeccCCCCEEEEEEEeCC
Confidence 3467889999999999999999 899987765443 355555555443
No 108
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=75.11 E-value=14 Score=32.66 Aligned_cols=47 Identities=11% Similarity=0.167 Sum_probs=37.2
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC--CeEEEEEEEEe
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES--ERFVLTFTLNA 289 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~--~~~~~t~~vkv 289 (324)
.|.|.-+.++|.|.+|...|... |++|.+..+.... +....+|++..
T Consensus 4 ~IsV~veN~pGvL~rI~~lf~rr-g~NI~Sl~v~~te~~~~sriti~V~~ 52 (161)
T PRK11895 4 TLSVLVENEPGVLSRVAGLFSRR-GYNIESLTVGPTEDPGLSRMTIVTSG 52 (161)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhC-CCcEEEEEeeecCCCCEEEEEEEEEC
Confidence 47778889999999999999999 8999998887765 34445555543
No 109
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=74.08 E-value=16 Score=28.28 Aligned_cols=48 Identities=17% Similarity=0.171 Sum_probs=36.8
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEe
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNA 289 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv 289 (324)
..|.+.-..++|+|.+|..++..- |+.|.+-++....+.-+.-+++.+
T Consensus 3 ~tisi~v~n~pGVL~Ri~~lf~rR-gfNI~Sl~vg~te~~~~sriti~~ 50 (76)
T PRK06737 3 HTFSLVIHNDPSVLLRISGIFARR-GYYISSLNLNERDTSGVSEMKLTA 50 (76)
T ss_pred EEEEEEEecCCCHHHHHHHHHhcc-CcceEEEEecccCCCCeeEEEEEE
Confidence 357788889999999999999999 999999988866643333344443
No 110
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=73.90 E-value=20 Score=28.42 Aligned_cols=48 Identities=13% Similarity=0.198 Sum_probs=38.3
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEec
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAK 290 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~ 290 (324)
.|.+.-..++|+|.+|..++-.. |+.|.+.++....+--+.-+++.+.
T Consensus 4 ~isvlVeN~~GVL~Rit~lFsRR-g~NI~SLtvg~Te~~~iSRmtivv~ 51 (84)
T PRK13562 4 ILKLQVADQVSTLNRITSAFVRL-QYNIDTLHVTHSEQPGISNMEIQVD 51 (84)
T ss_pred EEEEEEECCCCHHHHHHHHHhcc-CcCeeeEEecccCCCCceEEEEEEe
Confidence 47788889999999999999998 9999999988776644444555554
No 111
>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=72.28 E-value=28 Score=24.51 Aligned_cols=60 Identities=20% Similarity=0.257 Sum_probs=36.0
Q ss_pred EEEEEec---CCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHh
Q 042465 242 YLKLVSN---KGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALL 311 (324)
Q Consensus 242 ~I~I~C~---~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~ 311 (324)
.|.|.+. ..+|++.+|+++|.+. |+.|.-...++.+ . .+.+-+.... .+++.+++.++|.
T Consensus 3 ~isvvg~~~~~~~~~~~~i~~~l~~~-~I~v~~i~~~~s~--~--~is~~v~~~~-----~~~~~~~lh~~~~ 65 (66)
T cd04922 3 ILALVGDGMAGTPGVAATFFSALAKA-NVNIRAIAQGSSE--R--NISAVIDEDD-----ATKALRAVHERFF 65 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHC-CCCEEEEEecCcc--c--EEEEEEeHHH-----HHHHHHHHHHHHh
Confidence 3555553 4589999999999999 8998655433322 2 2333333322 3445556666554
No 112
>CHL00100 ilvH acetohydroxyacid synthase small subunit
Probab=69.04 E-value=25 Score=31.47 Aligned_cols=65 Identities=12% Similarity=0.208 Sum_probs=44.9
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHH
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANAL 310 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al 310 (324)
.|.|.-.++||+|.+|...|-.. |++|.+.++....+.-...+++.+...+ . .++.|+..+.+..
T Consensus 4 ~isvlv~n~PGVL~RIt~lFsrR-g~NIesLsv~~t~~~~~sr~TIvv~~~~--~-~ieqL~kQL~KLi 68 (174)
T CHL00100 4 TLSVLVEDESGVLTRIAGLFARR-GFNIESLAVGPAEQKGISRITMVVPGDD--R-TIEQLTKQLYKLV 68 (174)
T ss_pred EEEEEEeCcCCHHHHHHHHHHhC-CCCeeEEEeeEcCCCCccEEEEEEECCH--H-HHHHHHHHHHHHh
Confidence 57888899999999999999999 8999999887644333334444454432 1 1556665555543
No 113
>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=68.78 E-value=37 Score=23.89 Aligned_cols=60 Identities=13% Similarity=0.169 Sum_probs=36.0
Q ss_pred EEEEEec---CCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHh
Q 042465 242 YLKLVSN---KGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALL 311 (324)
Q Consensus 242 ~I~I~C~---~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~ 311 (324)
+|.|.+. ..++++.+++.+|.+. |+.|.-...+..+ ..++|.+.- . +.....+.++++|.
T Consensus 3 lisivg~~~~~~~~~~~~i~~~L~~~-~i~v~~i~~~~s~--~~isf~v~~--~-----d~~~~~~~lh~~~~ 65 (66)
T cd04916 3 LIMVVGEGMKNTVGVSARATAALAKA-GINIRMINQGSSE--ISIMIGVHN--E-----DADKAVKAIYEEFF 65 (66)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHC-CCCEEEEEecCcc--cEEEEEEeH--H-----HHHHHHHHHHHHHh
Confidence 3555553 4689999999999999 7888655433222 223333332 2 24555666666664
No 114
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=65.23 E-value=37 Score=29.43 Aligned_cols=54 Identities=17% Similarity=0.257 Sum_probs=43.9
Q ss_pred eCceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEe-eecCCeEEEEEEEEecC
Q 042465 237 EERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNL-VAESERFVLTFTLNAKD 291 (324)
Q Consensus 237 ~e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~v-st~~~~~~~t~~vkv~~ 291 (324)
.++.+.+.+.-.+|.|.|+++++++-.. +++|++.+= ....++.-.|+.+....
T Consensus 69 k~ri~TL~l~ledr~G~LS~vLd~iA~~-~~nvLTI~Q~ipl~g~Anvtlsi~~ss 123 (150)
T COG4492 69 KERIITLSLSLEDRVGILSDVLDVIARE-EINVLTIHQTIPLQGRANVTLSIDTSS 123 (150)
T ss_pred cceEEEEEEEEhhhhhhHHHHHHHHHHh-CCcEEEEecccccCceeeEEEEEEchh
Confidence 3556788899999999999999999999 799998763 45567777788777764
No 115
>COG3978 Acetolactate synthase (isozyme II), small (regulatory) subunit [Function unknown]
Probab=64.38 E-value=48 Score=26.23 Aligned_cols=63 Identities=13% Similarity=0.125 Sum_probs=44.6
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHH
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVAN 308 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~ 308 (324)
+.+.|....+|+.|.+|+++.+.- |+.|-..+.++.-+.-...|.+-|+... .++.|..-+.+
T Consensus 4 yqldl~ar~~pe~leRVLrvtrhR-GF~vcamnmt~~~da~~~nie~tV~s~R----~~~lL~~QLeK 66 (86)
T COG3978 4 YQLDLSARFNPETLERVLRVTRHR-GFRVCAMNMTAAVDAGNANIELTVDSDR----SVDLLTSQLEK 66 (86)
T ss_pred EEEeeeccCChHHHHHHHHHhhhc-CeEEEEeecccccccccceEEEEEcCCC----ChHHHHHHHHH
Confidence 456777888999999999999988 9999999999885443444455555442 24444444444
No 116
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=63.42 E-value=40 Score=37.14 Aligned_cols=56 Identities=13% Similarity=0.145 Sum_probs=45.5
Q ss_pred EeCceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCC
Q 042465 236 VEERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDN 292 (324)
Q Consensus 236 v~e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~ 292 (324)
...++..|.|.|+.+|.+|+.|..++... |++|+.|.|-|..+ ..+=||.|.--.+
T Consensus 680 ~~~~~teV~V~a~d~p~Lfa~v~~~~~~~-g~~i~dAqi~tt~dG~alDtfiv~~~~g 736 (867)
T COG2844 680 PHSGGTEVFVYAPDRPRLFAVVCAALSRR-GLSIVDAQIFTTRDGYALDTFIVLEPDG 736 (867)
T ss_pred ccCCceEEEEEcCCCccHHHHHHHHHccC-CCceeeeEEEEccCCceeeeEEEecCCC
Confidence 34567899999999999999999999999 99999999866665 4666776654443
No 117
>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=62.15 E-value=65 Score=26.75 Aligned_cols=49 Identities=8% Similarity=0.097 Sum_probs=37.7
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCC
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDN 292 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~ 292 (324)
|.+..+.++|.|.+||..+... |+.+.+...-+..+ ..-|.|.+.+...
T Consensus 44 lifsl~~~pGsL~~iL~~Fa~~-gINLt~IESRP~~~~~~eY~FfIdieg~ 93 (115)
T cd04930 44 LLFSLKEGFSSLSRILKVFETF-EAKIHHLESRPSRKEGGDLEVLVRCEVH 93 (115)
T ss_pred EEEEeCCCCcHHHHHHHHHHHC-CCCEEEEECCcCCCCCceEEEEEEEEeC
Confidence 4444477899999999999999 89999988666543 4457777787654
No 118
>COG2061 ACT-domain-containing protein, predicted allosteric regulator of homoserine dehydrogenase [Amino acid transport and metabolism]
Probab=59.77 E-value=58 Score=28.90 Aligned_cols=68 Identities=10% Similarity=0.142 Sum_probs=48.7
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec---CCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE---SERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~---~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
+.+-|.-+++||.|+++++-|-+. |.+|++.--+.- ++++-..+.+++.. +..-+++-.++..+|.-.
T Consensus 6 itldIEL~D~PGQLl~vLqPls~~-g~NiItIiH~r~kk~g~r~pV~i~~~~d~--------~~~~~~i~~~~e~~Gi~I 76 (170)
T COG2061 6 ITLDIELKDKPGQLLKVLQPLSKT-GANIITIIHSRDKKYGPRVPVQIVFEGDR--------EDKDAKIIRLLEEEGIII 76 (170)
T ss_pred EEEEEEecCCCcchhhhhcchhhc-CccEEEEEeecCcccCCceeEEEEEEecc--------cHHHHHHHHHHHhCCcEE
Confidence 346677889999999999999999 999988776665 56665556555543 233456666666777543
No 119
>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=59.36 E-value=53 Score=22.31 Aligned_cols=33 Identities=24% Similarity=0.315 Sum_probs=25.3
Q ss_pred EEEEEec---CCCChHHHHHHHHHccCCceEEEEEee
Q 042465 242 YLKLVSN---KGEGVAASLYEALESLTSFNVQNSNLV 275 (324)
Q Consensus 242 ~I~I~C~---~r~glL~~Il~aLesl~gL~V~sa~vs 275 (324)
.|.|.+. ..++.+.+++++|.+. ++.|.....+
T Consensus 2 ~i~i~g~~~~~~~~~~~~i~~~l~~~-~i~v~~i~~~ 37 (65)
T cd04892 2 LVSVVGAGMRGTPGVAARIFSALAEA-GINIIMISQG 37 (65)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHC-CCcEEEEEcC
Confidence 3566543 4588999999999999 7888877654
No 120
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=57.27 E-value=66 Score=27.47 Aligned_cols=62 Identities=15% Similarity=0.177 Sum_probs=46.9
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcc
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQV 317 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~ 317 (324)
.|.|..+.++|-|..++.+|.+. |+.+---++.-.++-.. +++-|..+ +--.+||...||-+
T Consensus 5 QISvFlENk~GRL~~~~~~L~ea-gINiRA~tiAdt~dFGI--iRmvV~~~-----------d~A~~~Lee~gF~V 66 (142)
T COG4747 5 QISVFLENKPGRLASVANKLKEA-GINIRAFTIADTGDFGI--IRMVVDRP-----------DEAHSVLEEAGFTV 66 (142)
T ss_pred EEEEEecCCcchHHHHHHHHHHc-CCceEEEEeccccCcce--EEEEcCCh-----------HHHHHHHHHCCcEE
Confidence 36788889999999999999999 99999888887776433 45566655 23456777777754
No 121
>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=55.02 E-value=25 Score=27.02 Aligned_cols=26 Identities=27% Similarity=0.363 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042465 170 VGDAVSYVQELQTTAKNLKAEIADLE 195 (324)
Q Consensus 170 L~~Ai~YIk~Lq~~~~~L~~~~~~l~ 195 (324)
+..||+-|.-||.++++|++++..|.
T Consensus 13 i~~aveti~~Lq~e~eeLke~n~~L~ 38 (72)
T PF06005_consen 13 IQQAVETIALLQMENEELKEKNNELK 38 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 67899999999999999999866654
No 122
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.91 E-value=22 Score=27.37 Aligned_cols=28 Identities=25% Similarity=0.299 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 042465 170 VGDAVSYVQELQTTAKNLKAEIADLEAS 197 (324)
Q Consensus 170 L~~Ai~YIk~Lq~~~~~L~~~~~~l~~~ 197 (324)
+..||+-|.-||-++++|++++..|...
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~~e 40 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLSQE 40 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhHHH
Confidence 6789999999999999999998877543
No 123
>TIGR02079 THD1 threonine dehydratase. This model represents threonine dehydratase, the first step in the pathway converting threonine into isoleucine. At least two other clades of biosynthetic threonine dehydratases have been characterized by models TIGR01124 and TIGR01127. Those sequences described by this model are exclusively found in species containg the rest of the isoleucine pathway and which are generally lacking in members of the those other two clades of threonine dehydratases. Members of this clade are also often gene clustered with other elements of the isoleucine pathway.
Probab=54.35 E-value=93 Score=31.25 Aligned_cols=73 Identities=5% Similarity=-0.037 Sum_probs=51.6
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeee-cC-CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCC
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVA-ES-ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGF 315 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst-~~-~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~ 315 (324)
++.+.+++.-+.+||-|.++++.+-.. +.+|.....-. .+ +.....+.+++++. + -.+.+..+|...|+
T Consensus 323 ~r~~~~~v~ipdrPGaL~~~l~~i~~~-~~NI~~~~y~~~~~~~~~~v~v~iE~~~~-------~-h~~~i~~~L~~~Gy 393 (409)
T TIGR02079 323 GLKHYFIVRFPQRPGALREFLNDVLGP-NDDITRFEYTKKSNRETGPALIGIELNDK-------E-DFAGLLERMAAADI 393 (409)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhcC-CCcEEEEEeeecCCCCeEEEEEEEEeCCH-------H-HHHHHHHHHHHCCC
Confidence 667899999999999999999966666 46888776542 12 33455566666542 2 23566778888999
Q ss_pred cccc
Q 042465 316 QVLI 319 (324)
Q Consensus 316 ~~~~ 319 (324)
.|..
T Consensus 394 ~~~~ 397 (409)
T TIGR02079 394 HYED 397 (409)
T ss_pred CeEE
Confidence 8753
No 124
>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=53.20 E-value=64 Score=21.34 Aligned_cols=25 Identities=32% Similarity=0.409 Sum_probs=20.7
Q ss_pred CCChHHHHHHHHHccCCceEEEEEee
Q 042465 250 GEGVAASLYEALESLTSFNVQNSNLV 275 (324)
Q Consensus 250 r~glL~~Il~aLesl~gL~V~sa~vs 275 (324)
.+|.+.+++++|.+. ++.|.....+
T Consensus 13 ~~~~~~~i~~~l~~~-~i~i~~i~~~ 37 (60)
T cd04868 13 TPGVAAKIFSALAEA-GINVDMISQS 37 (60)
T ss_pred CCCHHHHHHHHHHHC-CCcEEEEEcC
Confidence 589999999999999 7888766543
No 125
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=49.75 E-value=13 Score=32.87 Aligned_cols=43 Identities=16% Similarity=0.198 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCC--CCCcccHHHHHHHHHHHHH
Q 042465 139 SEQKRRGKMKEKLYQLRALVPNIT--KMDKASLVGDAVSYVQELQ 181 (324)
Q Consensus 139 ~ER~RR~~in~~~~~LrslvP~~~--K~dKasIL~~Ai~YIk~Lq 181 (324)
.|+.|..++++.+.-|+.|+|+.. ++.+.--|.-+-+||++|.
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~d 73 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSLD 73 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhHH
Confidence 588999999999999999999763 3333333666777776664
No 126
>PRK12483 threonine dehydratase; Reviewed
Probab=49.46 E-value=1.3e+02 Score=31.39 Aligned_cols=73 Identities=18% Similarity=0.170 Sum_probs=51.5
Q ss_pred eCceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCC
Q 042465 237 EERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGF 315 (324)
Q Consensus 237 ~e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~ 315 (324)
.++.+.+.|.-+.+||-|.++++.|-+. +|+.......+ ......+.+++++ .+.+.+.|..+|...|+
T Consensus 342 ~~r~~~~~v~~~d~pG~l~~~~~~l~~~---ni~~~~~~~~~~~~~~v~v~ie~~~-------~~~~~~~i~~~l~~~g~ 411 (521)
T PRK12483 342 EQREAIIAVTIPEQPGSFKAFCAALGKR---QITEFNYRYADAREAHLFVGVQTHP-------RHDPRAQLLASLRAQGF 411 (521)
T ss_pred cCCEEEEEEEeCCCCCHHHHHHHHhhhc---CeEEEEEEecCCCeeEEEEEEEeCC-------hhhhHHHHHHHHHHCCC
Confidence 3567899999999999999999988876 45554443322 2344555566654 34555788888888999
Q ss_pred cccc
Q 042465 316 QVLI 319 (324)
Q Consensus 316 ~~~~ 319 (324)
.+..
T Consensus 412 ~~~d 415 (521)
T PRK12483 412 PVLD 415 (521)
T ss_pred CeEE
Confidence 8753
No 127
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=47.90 E-value=6 Score=42.42 Aligned_cols=60 Identities=13% Similarity=0.224 Sum_probs=50.4
Q ss_pred cCcccchHHHHHHHHHHHHHHHHHhcCCC-----CCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042465 132 HRSRTLISEQKRRGKMKEKLYQLRALVPN-----ITKMDKASLVGDAVSYVQELQTTAKNLKAEIADL 194 (324)
Q Consensus 132 ~r~~h~~~ER~RR~~in~~~~~LrslvP~-----~~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l 194 (324)
.++.|...+||||-.+.++|..|-.|.|- ..+.++++||. +.|+.+++.-+.+.+....+
T Consensus 787 v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~~~k 851 (856)
T KOG3582|consen 787 VSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKIEGK 851 (856)
T ss_pred eecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhhhhh
Confidence 47788999999999999999999999883 25779999998 88899988888877765543
No 128
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=46.93 E-value=33 Score=37.13 Aligned_cols=61 Identities=11% Similarity=0.147 Sum_probs=48.9
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
..++|-...++|+|..|+.+|. +|.-+.++|.|.+++-.|-+. . +..-..+...|..+|.+
T Consensus 632 ~~~e~r~~dr~g~l~~~~~~l~-----~~~~~~~~~~g~~~~~~~~~~--~----~~~r~~~~~~~~~~~~~ 692 (693)
T PRK00227 632 NILEVRTEDRRGALGALLGVLP-----DLLWITASTPGATMIVQAALK--P----GFDRATVERDVTRVLAG 692 (693)
T ss_pred cEEEEEeCccccHHHHHHHHhh-----hhhhHhhcCCCcceEEEEEec--C----cccHHHHHHHHHHHHhc
Confidence 5788999999999999999998 466789999998887777666 1 23567788888888764
No 129
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=46.48 E-value=85 Score=29.78 Aligned_cols=57 Identities=25% Similarity=0.346 Sum_probs=37.3
Q ss_pred Ccccc-hHHHHHHHHHHHHHHHHHhcCCCCCCCCcccHHHHHHHH-HHHHHHHHHHHHHHHHHHhh
Q 042465 133 RSRTL-ISEQKRRGKMKEKLYQLRALVPNITKMDKASLVGDAVSY-VQELQTTAKNLKAEIADLEA 196 (324)
Q Consensus 133 r~~h~-~~ER~RR~~in~~~~~LrslvP~~~K~dKasIL~~Ai~Y-Ik~Lq~~~~~L~~~~~~l~~ 196 (324)
|-.|. .-||.-|.|++.+..+=-+ .||---=.+-++| |+.|..+.+.|+.+.+.|+.
T Consensus 60 RL~HLS~EEK~~RrKLKNRVAAQta-------RDrKKaRm~eme~~i~dL~een~~L~~en~~Lr~ 118 (292)
T KOG4005|consen 60 RLDHLSWEEKVQRRKLKNRVAAQTA-------RDRKKARMEEMEYEIKDLTEENEILQNENDSLRA 118 (292)
T ss_pred hhcccCHHHHHHHHHHHHHHHHhhh-------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56674 7788888899988765422 2222222234556 88888888888888777754
No 130
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=46.18 E-value=96 Score=25.21 Aligned_cols=50 Identities=16% Similarity=0.133 Sum_probs=38.6
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEec
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAK 290 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~ 290 (324)
-..|.|.-..++|+|.+|.-.+-.- |+.|.+.++....+.-+.-+++-+.
T Consensus 8 ~~tisvlv~N~pGVL~RIaglFsRR-gyNIeSLtvg~te~~~iSRmtivv~ 57 (96)
T PRK08178 8 NVILELTVRNHPGVMSHVCGLFARR-AFNVEGILCLPIQDGDKSRIWLLVN 57 (96)
T ss_pred CEEEEEEEECCcCHHHHHHHHHhcC-CcCeeeEEEeecCCCCceEEEEEEc
Confidence 3568888899999999999999887 9999998887776544444444444
No 131
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=45.28 E-value=39 Score=26.51 Aligned_cols=28 Identities=25% Similarity=0.299 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 042465 170 VGDAVSYVQELQTTAKNLKAEIADLEAS 197 (324)
Q Consensus 170 L~~Ai~YIk~Lq~~~~~L~~~~~~l~~~ 197 (324)
+..||+-|.-||.++++|++++..|...
T Consensus 13 IqqAvdtI~LLqmEieELKekn~~L~~e 40 (79)
T PRK15422 13 VQQAIDTITLLQMEIEELKEKNNSLSQE 40 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6789999999999999999998887654
No 132
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=44.53 E-value=72 Score=34.69 Aligned_cols=51 Identities=16% Similarity=0.247 Sum_probs=42.0
Q ss_pred EEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCC
Q 042465 241 FYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDN 292 (324)
Q Consensus 241 v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~ 292 (324)
+.|.|...+++|+|.+|+++|-+. +..|.+++..+.. +.+...|++.|.+-
T Consensus 628 ~~i~v~~~~r~glL~~i~~~i~~~-~~ni~~v~~~~~~~~~~~~~~~i~v~n~ 679 (701)
T COG0317 628 VDIEIRAYDRSGLLRDVSQVLANE-KINVLGVNTRSDKDQFATMQFTIEVKNL 679 (701)
T ss_pred EEEEEEEccccchHHHHHHHHHhC-CCceEEeeccccCCceEEEEEEEEECcH
Confidence 677888899999999999999999 6999999988764 45556677777663
No 133
>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=44.02 E-value=1.1e+02 Score=21.48 Aligned_cols=27 Identities=19% Similarity=0.271 Sum_probs=21.5
Q ss_pred CCCChHHHHHHHHHccCCceEEEEEeee
Q 042465 249 KGEGVAASLYEALESLTSFNVQNSNLVA 276 (324)
Q Consensus 249 ~r~glL~~Il~aLesl~gL~V~sa~vst 276 (324)
.++|.+.+++++|.+. |++|.-...++
T Consensus 13 ~~~~~~~~if~~L~~~-~I~v~~i~q~~ 39 (66)
T cd04919 13 NMIGIAGRMFTTLADH-RINIEMISQGA 39 (66)
T ss_pred CCcCHHHHHHHHHHHC-CCCEEEEEecC
Confidence 4589999999999999 89986554433
No 134
>smart00338 BRLZ basic region leucin zipper.
Probab=43.40 E-value=32 Score=25.18 Aligned_cols=25 Identities=24% Similarity=0.322 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc
Q 042465 174 VSYVQELQTTAKNLKAEIADLEASS 198 (324)
Q Consensus 174 i~YIk~Lq~~~~~L~~~~~~l~~~~ 198 (324)
-.||..|+.+++.|+.++..|...+
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~~ 49 (65)
T smart00338 25 KAEIEELERKVEQLEAENERLKKEI 49 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3688888888888888887776543
No 135
>PRK08639 threonine dehydratase; Validated
Probab=42.91 E-value=1.9e+02 Score=29.16 Aligned_cols=74 Identities=9% Similarity=0.057 Sum_probs=49.2
Q ss_pred eCceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC--CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCC
Q 042465 237 EERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES--ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQG 314 (324)
Q Consensus 237 ~e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~--~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g 314 (324)
.++.+.+++.-+.+||.|.++++.+-+. +.+|+........ +.....+.+++++. +.+ +.+..+|...|
T Consensus 333 ~~r~~~~~v~ipdrPGaL~~~l~~i~~~-~~NI~~~~~~~~~~~~~~~v~v~iE~~~~-------~h~-~~i~~~L~~~G 403 (420)
T PRK08639 333 EGLKHYFIVNFPQRPGALREFLDDVLGP-NDDITRFEYLKKNNRETGPVLVGIELKDA-------EDY-DGLIERMEAFG 403 (420)
T ss_pred cCCEEEEEEEeCCCCCHHHHHHHHHhcC-CCcEEEEEEeecCCCCceEEEEEEEeCCH-------HHH-HHHHHHHHHCC
Confidence 3667899999999999999999955555 3577766543211 22234455666542 222 45667888899
Q ss_pred Ccccc
Q 042465 315 FQVLI 319 (324)
Q Consensus 315 ~~~~~ 319 (324)
+.|..
T Consensus 404 y~~~~ 408 (420)
T PRK08639 404 PSYID 408 (420)
T ss_pred CceEE
Confidence 98754
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=42.13 E-value=28 Score=22.65 Aligned_cols=17 Identities=47% Similarity=0.657 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHh
Q 042465 140 EQKRRGKMKEKLYQLRA 156 (324)
Q Consensus 140 ER~RR~~in~~~~~Lrs 156 (324)
=|+||+.++.++..||.
T Consensus 13 Lrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 13 LRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 47889999999999985
No 137
>COG2716 GcvR Glycine cleavage system regulatory protein [Amino acid transport and metabolism]
Probab=41.44 E-value=35 Score=30.71 Aligned_cols=63 Identities=17% Similarity=0.093 Sum_probs=48.4
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHH
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVAN 308 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~ 308 (324)
-++|......+||+...|.++.-+. |-.++.+.++..|+-|.. .+++..+- -++..|+..+..
T Consensus 5 ~LvItavg~d~pgl~~~lar~v~s~-Gcn~leSRla~~g~~~a~--i~lisgs~---dav~~le~~l~~ 67 (176)
T COG2716 5 YLVITAVGADRPGLVNTLARAVASS-GCNWLESRLAMLGEEFAG--IMLISGSW---DAVTLLEATLPL 67 (176)
T ss_pred EEEEEEecCCCcHHHHHHHHHHHhc-CCcchHHHHHHhhcceeE--EEEEeeCH---HHHHHHHHHhhc
Confidence 3678888999999999999999999 999999999999997654 44554432 235566655543
No 138
>PRK11899 prephenate dehydratase; Provisional
Probab=40.06 E-value=1.7e+02 Score=28.06 Aligned_cols=62 Identities=6% Similarity=-0.031 Sum_probs=45.2
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCCccccCChHHHHHHHHHH
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDNDQISMQLPNLKLWVANA 309 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~A 309 (324)
|-+..+.++|.|.++|.++... |++......-...+ ..-|.|.+.+... ...+.++.+|...
T Consensus 197 l~~~~~~~pGaL~~vL~~Fa~~-gINLtkIeSRP~~~~~~~Y~F~id~eg~----~~d~~v~~aL~~l 259 (279)
T PRK11899 197 FVFRVRNIPAALYKALGGFATN-GVNMTKLESYMVGGSFTATQFYADIEGH----PEDRNVALALEEL 259 (279)
T ss_pred EEEEeCCCCChHHHHHHHHHHc-CCCeeeEEeeecCCCCceEEEEEEEECC----CCCHHHHHHHHHH
Confidence 3344468999999999999999 89998887766654 4678888888764 2344566666554
No 139
>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=38.35 E-value=1.5e+02 Score=21.21 Aligned_cols=30 Identities=17% Similarity=0.296 Sum_probs=23.2
Q ss_pred EEEEec---CCCChHHHHHHHHHccCCceEEEEE
Q 042465 243 LKLVSN---KGEGVAASLYEALESLTSFNVQNSN 273 (324)
Q Consensus 243 I~I~C~---~r~glL~~Il~aLesl~gL~V~sa~ 273 (324)
|.|.+. ..+|++.+++++|... |+.|....
T Consensus 4 isvvG~~~~~~~gi~~~if~aL~~~-~I~v~~~~ 36 (64)
T cd04937 4 VTIIGSRIRGVPGVMAKIVGALSKE-GIEILQTA 36 (64)
T ss_pred EEEECCCccCCcCHHHHHHHHHHHC-CCCEEEEE
Confidence 445543 4699999999999999 89997443
No 140
>PRK05974 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed
Probab=37.62 E-value=1.5e+02 Score=22.70 Aligned_cols=56 Identities=25% Similarity=0.283 Sum_probs=35.9
Q ss_pred CCCChH----HHHHHHHHccCCce-EEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhC
Q 042465 249 KGEGVA----ASLYEALESLTSFN-VQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQ 313 (324)
Q Consensus 249 ~r~glL----~~Il~aLesl~gL~-V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~ 313 (324)
-++|++ ..|.++|..| |+. |.++.+.. .|.+.+.... .+...+.++.+....|.|-
T Consensus 9 ~k~gv~Dp~G~ai~~~l~~l-g~~~v~~Vr~~k-------~~~l~~~~~~-~~~a~~~v~~i~~~lL~Np 69 (80)
T PRK05974 9 LKEGVLDPQGQAIKGALGSL-GYDGVEDVRQGK-------YFELELEGES-EEKAEADLKEMCEKLLANP 69 (80)
T ss_pred ECCCCcChHHHHHHHHHHHc-CCCCcceEEEEE-------EEEEEEcCCc-hhhhHHHHHHHHHHhcCCc
Confidence 455543 5688899999 897 77766443 2334443322 4566777888888888773
No 141
>cd04871 ACT_PSP_2 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_2 CD includes the second 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=37.22 E-value=45 Score=25.82 Aligned_cols=69 Identities=10% Similarity=0.135 Sum_probs=50.2
Q ss_pred EEEEecC-CCChHHHHHHHHHccCCceEEEEEeeecCCeE---------EEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 243 LKLVSNK-GEGVAASLYEALESLTSFNVQNSNLVAESERF---------VLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 243 I~I~C~~-r~glL~~Il~aLesl~gL~V~sa~vst~~~~~---------~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
|.|.-.+ ..|.+..|-+.|-++ |++|.+.+- ..+++ .+++.+.|... ..+.+.|+.++...=..
T Consensus 2 vtvlg~~~~a~~ia~Vs~~lA~~-~~NI~~I~~--l~~~~~~~~~~~~~~~~~e~~v~~~---~~~~~~lr~~L~~la~e 75 (84)
T cd04871 2 VTLLGRPLTAEQLAAVTRVVADQ-GLNIDRIRR--LSGRVPLEEQDDSPKACVEFSVRGQ---PADLEALRAALLELASE 75 (84)
T ss_pred EEEEcCcCCHHHHHHHHHHHHHc-CCCHHHHHH--hhccccccccCCCCcEEEEEEEeCC---CCCHHHHHHHHHHHhcc
Confidence 4555666 789999999999999 888876442 33333 45667777643 36899999999977777
Q ss_pred CCCcc
Q 042465 313 QGFQV 317 (324)
Q Consensus 313 ~g~~~ 317 (324)
.|.++
T Consensus 76 lgvDI 80 (84)
T cd04871 76 LNVDI 80 (84)
T ss_pred cCceE
Confidence 77765
No 142
>PF14566 PTPlike_phytase: Inositol hexakisphosphate; PDB: 1U24_A 2PSZ_B 3MOZ_A 3D1H_B 2B4P_B 3D1Q_A 2B4O_A 3MMJ_B 1U25_A 1U26_B ....
Probab=37.04 E-value=9.6 Score=32.82 Aligned_cols=31 Identities=26% Similarity=0.672 Sum_probs=21.4
Q ss_pred ccccCCCChhhHhhhhcCCCCCCccccCCCc
Q 042465 17 HEFIDDQNFDQFIDLIRGENEDPFATFDCRV 47 (324)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~ 47 (324)
|-+-++..||+||++||--++++-.-|+|..
T Consensus 103 ~~~P~~~~iD~fi~~v~~~p~~~~l~fhC~~ 133 (149)
T PF14566_consen 103 HQAPDPEDIDAFINFVKSLPKDTWLHFHCQA 133 (149)
T ss_dssp TS---HHHHHHHHHHHHTS-TT-EEEEE-SS
T ss_pred cCCCCHHHHHHHHHHHHhCCCCCeEEEECCC
Confidence 5567889999999999999888866698864
No 143
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=36.68 E-value=69 Score=30.36 Aligned_cols=50 Identities=16% Similarity=0.328 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhcCCCCCC---------------------CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042465 144 RGKMKEKLYQLRALVPNITK---------------------MDKASLVGDAVSYVQELQTTAKNLKAEIADLEA 196 (324)
Q Consensus 144 R~~in~~~~~LrslvP~~~K---------------------~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~~ 196 (324)
|.-|...|..|+.. +...| |-.+.||.++. ||.|+.||++|+.++.+.+.
T Consensus 6 ~qLI~~lf~RL~~a-e~~prD~eAe~lI~~~~~~qP~A~Y~laQ~vlvQE~A--L~~a~~ri~eLe~ql~q~~~ 76 (247)
T PF09849_consen 6 RQLIDDLFSRLKQA-EAQPRDPEAEALIAQALARQPDAPYYLAQTVLVQEQA--LKQAQARIQELEAQLQQAQA 76 (247)
T ss_pred HHHHHHHHHHHHhc-cCCCCCHHHHHHHHHHHHhCCchHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhhcc
Confidence 35677777777775 22222 33333444432 78888888888888866443
No 144
>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=36.15 E-value=1.4e+02 Score=20.79 Aligned_cols=24 Identities=21% Similarity=0.260 Sum_probs=21.1
Q ss_pred CCCChHHHHHHHHHccCCceEEEEE
Q 042465 249 KGEGVAASLYEALESLTSFNVQNSN 273 (324)
Q Consensus 249 ~r~glL~~Il~aLesl~gL~V~sa~ 273 (324)
..+|.+.+|+++|+.. +++|....
T Consensus 12 ~~~~~~~~if~~l~~~-~i~v~~i~ 35 (62)
T cd04890 12 GEVGFLRKIFEILEKH-GISVDLIP 35 (62)
T ss_pred cccCHHHHHHHHHHHc-CCeEEEEe
Confidence 4689999999999999 79988774
No 145
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=35.22 E-value=83 Score=23.45 Aligned_cols=53 Identities=21% Similarity=0.333 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042465 139 SEQKRRGKMKEKLYQLRALVPNITKMDKASLVGDAVSYVQELQTTAKNLKAEIADLEA 196 (324)
Q Consensus 139 ~ER~RR~~in~~~~~LrslvP~~~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~~ 196 (324)
+|=+-+..|.+-+...++-. ..-.+=|.+|=...+.|+.+++.|+.+++.+++
T Consensus 8 ~EirakQ~~~eEL~kvk~~n-----~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r~ 60 (61)
T PF08826_consen 8 AEIRAKQAIQEELTKVKSAN-----LAFESKLQEAEKRNRELEQEIERLKKEMEELRS 60 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34455555555555444321 112234899999999999999999999988764
No 146
>PRK15385 magnesium transport protein MgtC; Provisional
Probab=35.08 E-value=3.4e+02 Score=25.37 Aligned_cols=52 Identities=17% Similarity=0.188 Sum_probs=37.9
Q ss_pred ceEEEEEEecCCCC--hHHHHHHHHHccCCceEEEEEeeec--CCeEEEEEEEEecC
Q 042465 239 RGFYLKLVSNKGEG--VAASLYEALESLTSFNVQNSNLVAE--SERFVLTFTLNAKD 291 (324)
Q Consensus 239 ~~v~I~I~C~~r~g--lL~~Il~aLesl~gL~V~sa~vst~--~~~~~~t~~vkv~~ 291 (324)
..+.++|.|...+. +...+++.|++. ++.+.+..+... .+.+..++.+....
T Consensus 141 ~~~~~~v~~~~~~~~~vr~~L~~~l~~~-~~~~~~l~~~~~~~~~~~ei~a~l~~~~ 196 (225)
T PRK15385 141 KRYILKVTCNKEDESAVRQWLLNIVKEA-AICLQGLGSVPAQEQGYKEIRAELVGHA 196 (225)
T ss_pred eEEEEEEEEcCcchhHHHHHHHHHHHhC-CCceEEeEeeecCCCCeEEEEEEEEecC
Confidence 34778999988654 688899999998 699999988654 34555555555544
No 147
>PRK09224 threonine dehydratase; Reviewed
Probab=34.02 E-value=2.7e+02 Score=28.88 Aligned_cols=72 Identities=15% Similarity=0.140 Sum_probs=48.7
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCc
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQ 316 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~ 316 (324)
++.+++.|.-+.+||-|.++++.|-. .+|...+....+ +.....+.+++.+.+ .=.+.+..+|...|+.
T Consensus 326 ~re~~l~v~iPerPGaL~~f~~~l~~---~nItef~yr~~~~~~a~V~vgie~~~~~-------~~~~~i~~~L~~~gy~ 395 (504)
T PRK09224 326 QREALLAVTIPEEPGSFLKFCELLGG---RNVTEFNYRYADAKEAHIFVGVQLSRGQ-------EERAEIIAQLRAHGYP 395 (504)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHhcc---CcEEEEEEEecCCCeEEEEEEEEeCChh-------hHHHHHHHHHHHcCCC
Confidence 56789999999999999999998873 456655544322 234445566666532 1124566677888888
Q ss_pred ccc
Q 042465 317 VLI 319 (324)
Q Consensus 317 ~~~ 319 (324)
+..
T Consensus 396 ~~~ 398 (504)
T PRK09224 396 VVD 398 (504)
T ss_pred eEE
Confidence 764
No 148
>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=33.97 E-value=1.6e+02 Score=20.39 Aligned_cols=32 Identities=25% Similarity=0.308 Sum_probs=23.5
Q ss_pred EEEEEec---CCCChHHHHHHHHHccCCceEEEEEe
Q 042465 242 YLKLVSN---KGEGVAASLYEALESLTSFNVQNSNL 274 (324)
Q Consensus 242 ~I~I~C~---~r~glL~~Il~aLesl~gL~V~sa~v 274 (324)
.|.|.+. ..++++.+++++|.+. ++.|.-...
T Consensus 3 ~isivg~~~~~~~~~~~~i~~~L~~~-~I~v~~i~q 37 (66)
T cd04924 3 VVAVVGSGMRGTPGVAGRVFGALGKA-GINVIMISQ 37 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHC-CCCEEEEEe
Confidence 3455543 4589999999999999 788865543
No 149
>cd04933 ACT_AK1-AT_1 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the first of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine. This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. Like the Escherichia coli AKIII (LysC), Arabidopsis AK1 binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. A loop in common is involved in the binding of both Lys and S-adenosylmethionine providing an explanation for the synergistic inhibition by these effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.82 E-value=2.2e+02 Score=21.88 Aligned_cols=66 Identities=20% Similarity=0.248 Sum_probs=38.7
Q ss_pred EEEEEe---cCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCc-cccCChHHHHHHHHHHHhhCC
Q 042465 242 YLKLVS---NKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDND-QISMQLPNLKLWVANALLNQG 314 (324)
Q Consensus 242 ~I~I~C---~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~-~~~~~~~~Lk~~v~~Al~n~g 314 (324)
+|+|.. +..+|.+.+|+++|+.. |++|-.... ..+. +.|++.-.+.. ...+. ..|+ .+.+.|.+.|
T Consensus 3 ~i~i~~~~~~~~~g~~a~IF~~La~~-~InVDmI~q--s~~s--ISftV~~sd~~~~~~~~-~~l~-~~~~~~~~~~ 72 (78)
T cd04933 3 MLDITSTRMLGQYGFLAKVFSIFETL-GISVDVVAT--SEVS--ISLTLDPSKLWSRELIQ-QELD-HVVEELEKDA 72 (78)
T ss_pred EEEEEcCCCCCccCHHHHHHHHHHHc-CCcEEEEEe--cCCE--EEEEEEhhhhhhhhhHH-HHHH-HHHHHHHHcC
Confidence 455554 34699999999999999 788877643 2233 34444433210 01111 2454 6666666666
No 150
>PF02185 HR1: Hr1 repeat; InterPro: IPR000861 The HR1 repeat was first described as a three times repeated homology region of the N-terminal non-catalytic part of protein kinase PRK1(PKN) []. The first two of these repeats were later shown to bind the small G protein rho [, ] known to activate PKN in its GTP-bound form. Similar rho-binding domains also occur in a number of other protein kinases and in the rho-binding proteins rhophilin and rhotekin. Recently, the structure of the N-terminal HR1 repeat complexed with RhoA has been determined by X-ray crystallography []. It forms an antiparallel coiled-coil fold termed an ACC finger. This entry includes domains found within rho-associated protein kinases.; GO: 0007165 signal transduction, 0005622 intracellular; PDB: 1CXZ_B 3O0Z_C 2RMK_B 1URF_A.
Probab=33.48 E-value=1.8e+02 Score=21.60 Aligned_cols=49 Identities=22% Similarity=0.296 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhcCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 042465 146 KMKEKLYQLRALVPNITKMDKASLVGDAVSYVQELQTTAKNLKAEIADLEASS 198 (324)
Q Consensus 146 ~in~~~~~LrslvP~~~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~~~~ 198 (324)
++.+....|..++ ..++..++.+|-.-+.....++..|+.+++.+....
T Consensus 15 ki~~Gae~m~~~~----~t~~~~~~~~~~~~l~~s~~kI~~L~~~L~~l~~~~ 63 (70)
T PF02185_consen 15 KIKEGAENMLQAY----STDKKKVLSEAESQLRESNQKIELLREQLEKLQQRS 63 (70)
T ss_dssp HHHHHHHHHHHHH----CCHHCH-HHHHHHHHHHHHHHHHHHHHHHHHHHCCH
T ss_pred HHHHHHHHHHHHH----ccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3444455554443 345555888888999999999999999998886543
No 151
>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=33.39 E-value=82 Score=23.03 Aligned_cols=34 Identities=24% Similarity=0.262 Sum_probs=26.8
Q ss_pred ceEEEEEEec----CCCChHHHHHHHHHccCCceEEEEE
Q 042465 239 RGFYLKLVSN----KGEGVAASLYEALESLTSFNVQNSN 273 (324)
Q Consensus 239 ~~v~I~I~C~----~r~glL~~Il~aLesl~gL~V~sa~ 273 (324)
+-..|+|.++ ..+|++.++..+|-+. |+.|...+
T Consensus 5 ~~~~i~v~g~g~~~~~~Gv~a~i~~~La~~-~I~i~~is 42 (65)
T PF13840_consen 5 DWAKISVVGPGLRFDVPGVAAKIFSALAEA-GINIFMIS 42 (65)
T ss_dssp EEEEEEEEEECGTTTSHHHHHHHHHHHHHT-TS-ECEEE
T ss_pred CEEEEEEEccccCCCcccHHHHHHHHHHHC-CCCEEEEE
Confidence 3456777776 3699999999999999 89998777
No 152
>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=33.37 E-value=1.7e+02 Score=21.39 Aligned_cols=69 Identities=17% Similarity=0.216 Sum_probs=38.5
Q ss_pred EEEEEe---cCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCc
Q 042465 242 YLKLVS---NKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQ 316 (324)
Q Consensus 242 ~I~I~C---~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~ 316 (324)
.|+|.. ...+|++.+++++|.+. ++.|.-.+.++.+. -++|.+.-.+. .-....|..++...+.++-++
T Consensus 3 ~I~vvg~~~~~~~~~~~~i~~~L~~~-~I~v~~i~~~~~~~--~isf~v~~~d~---~~~~~~l~~~~~~~~~~~~~~ 74 (80)
T cd04921 3 LINIEGTGMVGVPGIAARIFSALARA-GINVILISQASSEH--SISFVVDESDA---DKALEALEEEFALEIKAGLIK 74 (80)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHC-CCcEEEEEecCCcc--eEEEEEeHHHH---HHHHHHHHHHHHhhhhhCccc
Confidence 355543 34689999999999999 79887665443222 23344433221 112344555554444555444
No 153
>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=33.25 E-value=61 Score=23.65 Aligned_cols=21 Identities=29% Similarity=0.624 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 042465 175 SYVQELQTTAKNLKAEIADLE 195 (324)
Q Consensus 175 ~YIk~Lq~~~~~L~~~~~~l~ 195 (324)
.||..|+.++..|+.++..|.
T Consensus 26 ~~~~~Le~~~~~L~~en~~L~ 46 (64)
T PF00170_consen 26 QYIEELEEKVEELESENEELK 46 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHH
Confidence 455555555555555554443
No 154
>TIGR01124 ilvA_2Cterm threonine ammonia-lyase, biosynthetic, long form. Forms scoring between the trusted and noise cutoff tend to branch with this subgroup of threonine ammonia-lyase phylogenetically but have only a single copy of the C-terminal domain.
Probab=32.54 E-value=3e+02 Score=28.54 Aligned_cols=71 Identities=14% Similarity=0.128 Sum_probs=48.4
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCc
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQ 316 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~ 316 (324)
++.+++.|.-+.+||.|.+++++|-.- +|+..+....+ +...+.+.+++.+. +.+ +.+..+|...|++
T Consensus 323 ~re~~l~V~iPerPGal~~f~~~i~~~---nItef~yr~~~~~~a~v~vgie~~~~-------~~~-~~l~~~L~~~Gy~ 391 (499)
T TIGR01124 323 QREALLAVTIPEQPGSFLKFCELLGNR---NITEFNYRYADRKDAHIFVGVQLSNP-------QER-QEILARLNDGGYS 391 (499)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHhhhc---ceEEEEEEecCCCeEEEEEEEEeCCH-------HHH-HHHHHHHHHcCCC
Confidence 567999999999999999999999863 56555544332 23444556666532 222 4555677788888
Q ss_pred ccc
Q 042465 317 VLI 319 (324)
Q Consensus 317 ~~~ 319 (324)
+..
T Consensus 392 ~~d 394 (499)
T TIGR01124 392 VVD 394 (499)
T ss_pred eEE
Confidence 754
No 155
>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=32.41 E-value=1.9e+02 Score=20.79 Aligned_cols=27 Identities=19% Similarity=0.132 Sum_probs=21.3
Q ss_pred CCCChHHHHHHHHHccCCceEEEEEeee
Q 042465 249 KGEGVAASLYEALESLTSFNVQNSNLVA 276 (324)
Q Consensus 249 ~r~glL~~Il~aLesl~gL~V~sa~vst 276 (324)
+.+|++.+++++|.+. |+.|.-....+
T Consensus 12 ~~~~~~~~i~~aL~~~-~I~v~~i~~g~ 38 (65)
T cd04918 12 RSSLILERAFHVLYTK-GVNVQMISQGA 38 (65)
T ss_pred CCccHHHHHHHHHHHC-CCCEEEEEecC
Confidence 3478999999999999 79996555443
No 156
>PF02120 Flg_hook: Flagellar hook-length control protein FliK; InterPro: IPR021136 This entry represents the C-terminal domain of the flagellar hook-length control protein FliK. This entry also includes YscP of the Yersinia type III secretion system, and equivalent proteins in other pathogenic bacterial type III secretion systems. During flagellar morphogenesis in Salmonella typhimurium and Escherichia coli, flagellar hook-length control protein (FliK) controls the length of the hook by directly measuring the hook length [, ]. It is considered unlikely that FliK functions as a molecular ruler for determining hook length, but that it is more likely to be employing a novel mechanism. The deduced amino acid sequences of FliK proteins from S. typhimurium and E. coli have molecular masses of 41,748 and 39,246 Da, respectively, and are fairly hydrophilic []. Sequence comparison reveals around 50% identity, with greatest conservation in the C-terminal region, with 71% identity in the last 154 amino acids - mutagenesis of this conserved region completely abolishes motility. The central and C-terminal regions are rich in proline and glutamine respectively; it is thought that they may constitute distinct domains [].; PDB: 2RRL_A.
Probab=31.80 E-value=1.7e+02 Score=21.91 Aligned_cols=46 Identities=11% Similarity=0.203 Sum_probs=32.4
Q ss_pred ceeeEEEEeCceEEEEEEecCC------CChHHHHHHHHHccCCceEEEEEeee
Q 042465 229 MQMDVFQVEERGFYLKLVSNKG------EGVAASLYEALESLTSFNVQNSNLVA 276 (324)
Q Consensus 229 ~~VeV~~v~e~~v~I~I~C~~r------~glL~~Il~aLesl~gL~V~sa~vst 276 (324)
+.|.+. +.++.+.|.|.+... ..-+..|.++|... |+.|.+.++..
T Consensus 27 v~v~l~-~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~-G~~~~~~~v~~ 78 (85)
T PF02120_consen 27 VEVKLR-LQGGNLSVQFTAENPETKELLRQNLPELKERLQAQ-GLEVVNLSVSQ 78 (85)
T ss_dssp EEEEEE-EETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTT-T-EEEEEEEES
T ss_pred EEEEEE-EeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHC-CCCeEEEEEEE
Confidence 456664 567789999999754 34567888899999 99999888764
No 157
>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=31.39 E-value=93 Score=27.25 Aligned_cols=26 Identities=27% Similarity=0.296 Sum_probs=20.4
Q ss_pred cCcccchHHHHHHHHHHHHHHHHHhc
Q 042465 132 HRSRTLISEQKRRGKMKEKLYQLRAL 157 (324)
Q Consensus 132 ~r~~h~~~ER~RR~~in~~~~~Lrsl 157 (324)
.|+.....||+||.=....|.-||..
T Consensus 11 ErEnnk~RERrRRAIaakIfaGLR~~ 36 (150)
T PF05687_consen 11 ERENNKRRERRRRAIAAKIFAGLRAH 36 (150)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 36677789999997667778888876
No 158
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=29.98 E-value=78 Score=22.37 Aligned_cols=22 Identities=18% Similarity=0.410 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhc
Q 042465 177 VQELQTTAKNLKAEIADLEASS 198 (324)
Q Consensus 177 Ik~Lq~~~~~L~~~~~~l~~~~ 198 (324)
|..|++++..|+.++..|+...
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~~f 22 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQAAF 22 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHH
Confidence 4578888888888888887654
No 159
>COG1828 PurS Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component [Nucleotide transport and metabolism]
Probab=29.80 E-value=2.2e+02 Score=22.60 Aligned_cols=49 Identities=18% Similarity=0.226 Sum_probs=34.2
Q ss_pred HHHHHHHHccCCce-EEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 255 ASLYEALESLTSFN-VQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 255 ~~Il~aLesl~gL~-V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
.-|-+||..| |.. |..+.+.. .|.+.+...+ .+.....|+.+..+.|.|
T Consensus 20 ~ti~~aL~~l-g~~~V~~vR~gK-------~~el~ld~~~-~e~a~~~v~~mcekLLaN 69 (83)
T COG1828 20 ETIEKALHRL-GYNEVSDVRVGK-------VIELELDAES-EEKAEEEVKEMCEKLLAN 69 (83)
T ss_pred HHHHHHHHHc-CCcccceeeeee-------EEEEEecCcc-hhHHHHHHHHHHHHHhCC
Confidence 4578999999 877 88877543 2344454433 445678888998888877
No 160
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=29.58 E-value=1e+02 Score=23.44 Aligned_cols=28 Identities=25% Similarity=0.424 Sum_probs=23.6
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042465 168 SLVGDAVSYVQELQTTAKNLKAEIADLE 195 (324)
Q Consensus 168 sIL~~Ai~YIk~Lq~~~~~L~~~~~~l~ 195 (324)
.-|++|+.-+..|+.+++.|+++++.+.
T Consensus 40 ~~l~~a~~e~~~Lk~E~e~L~~el~~~r 67 (69)
T PF14197_consen 40 RQLGDAYEENNKLKEENEALRKELEELR 67 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3488999999999999999999877654
No 161
>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=29.35 E-value=2.5e+02 Score=21.14 Aligned_cols=57 Identities=18% Similarity=0.180 Sum_probs=35.3
Q ss_pred cCCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhC
Q 042465 248 NKGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQ 313 (324)
Q Consensus 248 ~~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~ 313 (324)
+..+|.+.+|+++|... |++|-.... +. .-++|++.-... .. -+.|+.++.+-|.+-
T Consensus 12 ~~~~g~~~~IF~~La~~-~I~VDmI~~---s~-~~iSftv~~~d~---~~-~~~~~~~l~~~l~~~ 68 (75)
T cd04932 12 LHAQGFLAKVFGILAKH-NISVDLITT---SE-ISVALTLDNTGS---TS-DQLLTQALLKELSQI 68 (75)
T ss_pred CCCcCHHHHHHHHHHHc-CCcEEEEee---cC-CEEEEEEecccc---ch-hHHHHHHHHHHHHhc
Confidence 45699999999999999 788877653 22 234444443221 11 145656666666653
No 162
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=29.04 E-value=1.8e+02 Score=21.20 Aligned_cols=40 Identities=20% Similarity=0.362 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCcccHHHHHHHHHHHHHHHHHHH
Q 042465 141 QKRRGKMKEKLYQLRALVPNITKMDKASLVGDAVSYVQELQTTAKNL 187 (324)
Q Consensus 141 R~RR~~in~~~~~LrslvP~~~K~dKasIL~~Ai~YIk~Lq~~~~~L 187 (324)
|..|=.....+..+..++ .+.| .++|.+||+.+-...+..
T Consensus 17 R~~RHD~~NhLqvI~gll----qlg~---~~~a~eYi~~~~~~~~~~ 56 (62)
T PF14689_consen 17 RAQRHDFLNHLQVIYGLL----QLGK---YEEAKEYIKELSKDLQQE 56 (62)
T ss_dssp HHHHHHHHHHHHHHHHHH----HTT----HHHHHHHHHHHHHHHHHH
T ss_pred HHHhHHHHHHHHHHHHHH----HCCC---HHHHHHHHHHHHHHHHHH
Confidence 555666677788888876 2233 678999999998887766
No 163
>PRK14637 hypothetical protein; Provisional
Probab=28.86 E-value=2.5e+02 Score=24.39 Aligned_cols=60 Identities=8% Similarity=0.060 Sum_probs=42.5
Q ss_pred CCCChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccC-ChHHHHHHHHHHHh
Q 042465 249 KGEGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISM-QLPNLKLWVANALL 311 (324)
Q Consensus 249 ~r~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~-~~~~Lk~~v~~Al~ 311 (324)
+.-|....+-.+++++ |++++...+...+..-++.+.+. ..++..+ +++.+.++|..+|-
T Consensus 6 ~~~~~~~~v~p~~~~~-g~eLvdve~~~~~~~~~lrV~ID--~~~gV~iddC~~vSr~Is~~LD 66 (151)
T PRK14637 6 KDLGYFSECEPVVEGL-GCKLVDLSRRVQQAQGRVRAVIY--SAGGVGLDDCARVHRILVPRLE 66 (151)
T ss_pred ccccHHHHHHHHHHhc-CCEEEEEEEEecCCCcEEEEEEE--CCCCCCHHHHHHHHHHHHHHhc
Confidence 4467888888999999 99999999988776544444443 2222444 67777888777774
No 164
>PRK14646 hypothetical protein; Provisional
Probab=28.36 E-value=2.6e+02 Score=24.42 Aligned_cols=56 Identities=11% Similarity=0.208 Sum_probs=37.3
Q ss_pred HHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccC-ChHHHHHHHHHHHh
Q 042465 255 ASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISM-QLPNLKLWVANALL 311 (324)
Q Consensus 255 ~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~-~~~~Lk~~v~~Al~ 311 (324)
.-+-.+++++ |++++.+.+...++.-++.+.+.-.++.+..+ +++.+.++|..+|-
T Consensus 11 ~li~p~~~~~-G~eLvdve~~~~~~~~~LrV~IDk~~g~gVtldDC~~vSr~is~~LD 67 (155)
T PRK14646 11 ILLEKVANEF-DLKICSLNIQTNQNPIVIKIIIKKTNGDDISLDDCALFNTPASEEIE 67 (155)
T ss_pred HHHHHHHHHc-CCEEEEEEEEeCCCCeEEEEEEECCCCCCccHHHHHHHHHHHHHHhC
Confidence 3455667888 99999999998777555555544322212334 67778888888775
No 165
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=27.94 E-value=1.4e+02 Score=21.15 Aligned_cols=28 Identities=18% Similarity=0.226 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 042465 170 VGDAVSYVQELQTTAKNLKAEIADLEAS 197 (324)
Q Consensus 170 L~~Ai~YIk~Lq~~~~~L~~~~~~l~~~ 197 (324)
-..+-.+|+.|-+++..+.++++.|+..
T Consensus 18 Q~~v~~~lq~Lt~kL~~vs~RLe~LEn~ 45 (47)
T PF10393_consen 18 QNKVTSALQSLTQKLDAVSKRLEALENR 45 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4567789999999999999999988764
No 166
>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=27.41 E-value=2e+02 Score=19.51 Aligned_cols=31 Identities=26% Similarity=0.453 Sum_probs=23.5
Q ss_pred EEEEe---cCCCChHHHHHHHHHccCCceEEEEEe
Q 042465 243 LKLVS---NKGEGVAASLYEALESLTSFNVQNSNL 274 (324)
Q Consensus 243 I~I~C---~~r~glL~~Il~aLesl~gL~V~sa~v 274 (324)
|.|.+ ...++++.+++++|.+. ++.|...+.
T Consensus 3 v~v~g~~~~~~~~~~~~i~~~L~~~-~i~v~~i~~ 36 (63)
T cd04923 3 VSIVGAGMRSHPGVAAKMFKALAEA-GINIEMIST 36 (63)
T ss_pred EEEECCCCCCCccHHHHHHHHHHHC-CCCEEEEEc
Confidence 45544 24589999999999999 788877653
No 167
>KOG3540 consensus Beta amyloid precursor protein [General function prediction only]
Probab=26.66 E-value=1.9e+02 Score=30.19 Aligned_cols=55 Identities=18% Similarity=0.219 Sum_probs=33.0
Q ss_pred chHHHHHHHHHHHHHHHHHhcCC--CCCCCCcccHHHHHHHHHHHHHHHHHHHHHHH
Q 042465 137 LISEQKRRGKMKEKLYQLRALVP--NITKMDKASLVGDAVSYVQELQTTAKNLKAEI 191 (324)
Q Consensus 137 ~~~ER~RR~~in~~~~~LrslvP--~~~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~ 191 (324)
...|-++|++|++-+.+-..+=- ..+|.+|..+...=-..++.|+++....++++
T Consensus 256 mrleekhr~rmd~VmkEW~~ae~qaKnPKAekqalnqhFQ~~v~sLEee~a~erqql 312 (615)
T KOG3540|consen 256 MRLEEKHRKRMDKVMKEWEEAETQAKNPKAEKQALNQHFQKTVSSLEEEAARERQQL 312 (615)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677788888877666544311 12567776666555556666666655554443
No 168
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=25.98 E-value=86 Score=22.06 Aligned_cols=53 Identities=21% Similarity=0.377 Sum_probs=32.5
Q ss_pred CChHHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCc
Q 042465 251 EGVAASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQ 316 (324)
Q Consensus 251 ~glL~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~ 316 (324)
+++..+|-++|..+.| |.++.+....+++... .... .+++.. |..+|.+.|++
T Consensus 10 ~~C~~~v~~~l~~~~G--V~~v~vd~~~~~v~v~----~~~~---~~~~~~----i~~~i~~~Gy~ 62 (62)
T PF00403_consen 10 EGCAKKVEKALSKLPG--VKSVKVDLETKTVTVT----YDPD---KTSIEK----IIEAIEKAGYE 62 (62)
T ss_dssp HHHHHHHHHHHHTSTT--EEEEEEETTTTEEEEE----ESTT---TSCHHH----HHHHHHHTTSE
T ss_pred HHHHHHHHHHHhcCCC--CcEEEEECCCCEEEEE----EecC---CCCHHH----HHHHHHHhCcC
Confidence 4688999999999974 6666666555654333 3222 245544 45555556653
No 169
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=25.80 E-value=1e+02 Score=21.77 Aligned_cols=21 Identities=24% Similarity=0.338 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 042465 175 SYVQELQTTAKNLKAEIADLE 195 (324)
Q Consensus 175 ~YIk~Lq~~~~~L~~~~~~l~ 195 (324)
.|+..|+.++..|+.++..|.
T Consensus 25 ~~~~~le~~~~~L~~en~~L~ 45 (54)
T PF07716_consen 25 QREEELEQEVQELEEENEQLR 45 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555554443
No 170
>COG1591 Holliday junction resolvase - archaeal type [DNA replication, recombination, and repair]
Probab=25.70 E-value=2.9e+02 Score=23.92 Aligned_cols=58 Identities=17% Similarity=0.182 Sum_probs=40.3
Q ss_pred CChHHHHHHHHHccCCceEEEEEe-----------eecCCeEEEEEEEEecCCccccCChHHHHHHHHHH
Q 042465 251 EGVAASLYEALESLTSFNVQNSNL-----------VAESERFVLTFTLNAKDNDQISMQLPNLKLWVANA 309 (324)
Q Consensus 251 ~glL~~Il~aLesl~gL~V~sa~v-----------st~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~A 309 (324)
...=-.|+..|++. |+.|+.+-. ...++..+++|.+|..-....-++.+.+..-+.-|
T Consensus 7 ~~~EReLv~~L~e~-GfAvvR~paSG~sk~p~pDivA~~g~~~l~iE~K~~~~~kiYl~~e~ve~L~~FA 75 (137)
T COG1591 7 SRFERELVRILWER-GFAVVRAPASGGSKRPLPDIVAGNGGVYLAIEVKSRRETKIYLDKEQVEKLVEFA 75 (137)
T ss_pred chHHHHHHHHHHhc-CceEEEcccCCCCCCCCCCEEecCCCEEEEEEEEeccCCcEEEcHHHHHHHHHHH
Confidence 44455788999999 999999822 22234567888888877655566777777666544
No 171
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=25.64 E-value=66 Score=23.42 Aligned_cols=17 Identities=24% Similarity=0.499 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q 042465 177 VQELQTTAKNLKAEIAD 193 (324)
Q Consensus 177 Ik~Lq~~~~~L~~~~~~ 193 (324)
++.++++++++++++++
T Consensus 50 ~~~~~k~l~~le~e~~~ 66 (68)
T PF06305_consen 50 IRRLRKELKKLEKELEQ 66 (68)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 34444444444444433
No 172
>PRK14645 hypothetical protein; Provisional
Probab=25.58 E-value=3.2e+02 Score=23.88 Aligned_cols=58 Identities=16% Similarity=0.221 Sum_probs=37.8
Q ss_pred HHHHHHHHHccCCceEEEEEeeecCCeEEEEEEEEecCCccccC-ChHHHHHHHHHHHhh
Q 042465 254 AASLYEALESLTSFNVQNSNLVAESERFVLTFTLNAKDNDQISM-QLPNLKLWVANALLN 312 (324)
Q Consensus 254 L~~Il~aLesl~gL~V~sa~vst~~~~~~~t~~vkv~~~~~~~~-~~~~Lk~~v~~Al~n 312 (324)
-.-|-.+++++ |++++...+...++.-++.+.+.-..+++..+ +++.+.++|..+|-.
T Consensus 12 ~~li~~~~~~~-G~elvdve~~~~~~~~ilrV~ID~~~~~~v~lddC~~vSr~is~~LD~ 70 (154)
T PRK14645 12 QQLAEGALEPL-GYEVLEVQVQRSGGKRIVLVRIDRKDEQPVTVEDLERASRALEAELDR 70 (154)
T ss_pred HHHHHHHHHHc-CCEEEEEEEEeCCCCeEEEEEEECCCCCCcCHHHHHHHHHHHHHHhcc
Confidence 33445667788 99999999987776444444444222222444 677888888888853
No 173
>PLN02550 threonine dehydratase
Probab=25.45 E-value=2.2e+02 Score=30.35 Aligned_cols=71 Identities=7% Similarity=0.098 Sum_probs=48.7
Q ss_pred CceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCc
Q 042465 238 ERGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQ 316 (324)
Q Consensus 238 e~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~ 316 (324)
++.+++.|.-+.+||.|.++++.|-.. +|+..+....+ +...+.+.+++++.+ -.+.|..+|...|++
T Consensus 415 ~r~~~~~v~ipd~pG~l~~~~~~l~~~---ni~~~~~~~~~~~~~~v~v~ie~~~~~--------~~~~i~~~l~~~g~~ 483 (591)
T PLN02550 415 QQEAVLATFMPEEPGSFKRFCELVGPM---NITEFKYRYSSEKEALVLYSVGVHTEQ--------ELQALKKRMESAQLR 483 (591)
T ss_pred CCEEEEEEEcCCCCCHHHHHHHHhhhh---cceEEEEEecCCCceEEEEEEEeCCHH--------HHHHHHHHHHHCCCC
Confidence 344788899999999999999988875 45555544322 344555666665432 235677788889998
Q ss_pred ccc
Q 042465 317 VLI 319 (324)
Q Consensus 317 ~~~ 319 (324)
+..
T Consensus 484 ~~~ 486 (591)
T PLN02550 484 TVN 486 (591)
T ss_pred eEe
Confidence 864
No 174
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=24.80 E-value=2.9e+02 Score=21.42 Aligned_cols=50 Identities=20% Similarity=0.422 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHhcCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 042465 145 GKMKEKLYQLRALVPNITKMDKASLVGDAVSYVQELQTTAKNLKAEIADLEA 196 (324)
Q Consensus 145 ~~in~~~~~LrslvP~~~K~dKasIL~~Ai~YIk~Lq~~~~~L~~~~~~l~~ 196 (324)
..|+.+|...|++|-..+-+++. +.+--.+|+.|+++++..++-+..+..
T Consensus 31 ~~lk~Klq~ar~~i~~lpgi~~s--~eeq~~~i~~Le~~i~~k~~~L~~~~~ 80 (83)
T PF07544_consen 31 GSLKHKLQKARAAIRELPGIDRS--VEEQEEEIEELEEQIRKKREVLQKFKE 80 (83)
T ss_pred HHHHHHHHHHHHHHHhCCCccCC--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555566666665433333332 455567788888888877777666543
No 175
>PRK11898 prephenate dehydratase; Provisional
Probab=24.28 E-value=4.6e+02 Score=24.99 Aligned_cols=63 Identities=8% Similarity=-0.039 Sum_probs=42.9
Q ss_pred EEEEEecC-CCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCCccccCChHHHHHHHHHH
Q 042465 242 YLKLVSNK-GEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDNDQISMQLPNLKLWVANA 309 (324)
Q Consensus 242 ~I~I~C~~-r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~A 309 (324)
.|-+..+. ++|.|.++|..+... |+++.+...-...+ ..-|.|-+.+... ...+.++.++...
T Consensus 198 slif~l~~~~pGsL~~~L~~F~~~-~INLt~IeSRP~~~~~~~y~F~vd~eg~----~~~~~~~~al~~L 262 (283)
T PRK11898 198 SLVLTLPNNLPGALYKALSEFAWR-GINLTRIESRPTKTGLGTYFFFIDVEGH----IDDVLVAEALKEL 262 (283)
T ss_pred EEEEEeCCCCccHHHHHHHHHHHC-CCCeeeEecccCCCCCccEEEEEEEEcc----CCCHHHHHHHHHH
Confidence 34455555 599999999999999 89999887665543 3456677777553 2344566666443
No 176
>PRK14623 hypothetical protein; Provisional
Probab=23.28 E-value=3.6e+02 Score=22.18 Aligned_cols=20 Identities=15% Similarity=0.232 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 042465 174 VSYVQELQTTAKNLKAEIAD 193 (324)
Q Consensus 174 i~YIk~Lq~~~~~L~~~~~~ 193 (324)
..-.+.+|++.++++++++.
T Consensus 7 mkqaqkmQ~km~~~Qeel~~ 26 (106)
T PRK14623 7 MGKLKEAQQKVEATKKRLDT 26 (106)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 34445555555555555543
No 177
>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=23.23 E-value=3.1e+02 Score=20.21 Aligned_cols=31 Identities=19% Similarity=0.286 Sum_probs=24.2
Q ss_pred EEEEEe---cCCCChHHHHHHHHHccCCceEEEEE
Q 042465 242 YLKLVS---NKGEGVAASLYEALESLTSFNVQNSN 273 (324)
Q Consensus 242 ~I~I~C---~~r~glL~~Il~aLesl~gL~V~sa~ 273 (324)
+|.|.+ ...+|++.+|+++|.+. ++.|....
T Consensus 3 ~Vsi~g~~l~~~~g~~~~if~~L~~~-~I~v~~i~ 36 (75)
T cd04912 3 LLNIKSNRMLGAHGFLAKVFEIFAKH-GLSVDLIS 36 (75)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHc-CCeEEEEE
Confidence 455543 34599999999999999 79997765
No 178
>PRK14626 hypothetical protein; Provisional
Probab=23.04 E-value=3.7e+02 Score=22.16 Aligned_cols=25 Identities=12% Similarity=0.279 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 042465 170 VGDAVSYVQELQTTAKNLKAEIADL 194 (324)
Q Consensus 170 L~~Ai~YIk~Lq~~~~~L~~~~~~l 194 (324)
+.+-+.-.+.+|++.++++++++..
T Consensus 7 ~~~mmkqaq~mQ~km~~~qeeL~~~ 31 (110)
T PRK14626 7 LAELMKQMQSIKENVEKAKEELKKE 31 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3344455566666666666666544
No 179
>PLN02705 beta-amylase
Probab=22.24 E-value=1.2e+02 Score=32.44 Aligned_cols=28 Identities=29% Similarity=0.382 Sum_probs=19.4
Q ss_pred CCcCcccchHHHHHHHHHHHHHHHHHhc
Q 042465 130 GDHRSRTLISEQKRRGKMKEKLYQLRAL 157 (324)
Q Consensus 130 ~~~r~~h~~~ER~RR~~in~~~~~Lrsl 157 (324)
...|......||+||.=....|.-||..
T Consensus 82 ~~e~e~~~~rer~rrai~~ki~aglr~~ 109 (681)
T PLN02705 82 EKEKERTKLRERHRRAITSRMLAGLRQY 109 (681)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHhc
Confidence 3347777889999996656666666654
No 180
>PF02700 PurS: Phosphoribosylformylglycinamidine (FGAM) synthase; InterPro: IPR003850 Phosphoribosylformylglycinamidine(FGAM) synthetase, 6.3.5.3 from EC, catalyses the fourth step in the de novo purine biosynthetic pathway []. 5-phosphoribosylformylglycinamide (FGAR) + glutamine + ATP = FGAM + glutamate + ADP + Pi In eukaryotes and many bacterial systems (including Escherichia coli and Salmonella typhimurium), the FGAM synthetase is encoded by the large form of PurL (lgPurL), which contains an N-terminal ATPase domain and a C-terminal glutamine-binding domain. In archaeal and other bacterial systems, however, FGAM synthetase is encoded by separate genes, making it a multisubunit (rather than multidomain) enzyme. The protein is composed of the small form of PurL (smPurL), which is homologus to the ATPase domain of lgPurL, PurQ which is homologous to the glutamine-binding domain of of lgPurL, and PurS, whose function is not known. This entry represents the PurS subunit of the multisubunit FGAM synthetase. Recent studies showed that disruption of the purS gene in Bacillus subtilis resulted in a purine auxotrophic phenotype, due to defective FGAM synthetase activity. Therefore, the PurS protein appears to be required for the function of the PurL and PurQ subunits of the FGAM synthetase, but the molecular mechanism for the functional role of PurS is currently not known. For additional information please see [, ].; GO: 0016879 ligase activity, forming carbon-nitrogen bonds; PDB: 2ZW2_B 3D54_B 1VQ3_B 1GTD_A 2YX5_A 2CUW_A 1TWJ_B 1T4A_B 2DGB_B.
Probab=21.98 E-value=2.2e+02 Score=22.07 Aligned_cols=49 Identities=18% Similarity=0.262 Sum_probs=31.4
Q ss_pred HHHHHHHHccCCce-EEEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhh
Q 042465 255 ASLYEALESLTSFN-VQNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLN 312 (324)
Q Consensus 255 ~~Il~aLesl~gL~-V~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n 312 (324)
.-|.++|..| |+. |..+.+.. ++.|.+...+ .+.....++......|.|
T Consensus 19 ~ai~~al~~l-G~~~v~~Vr~GK-----~~~l~~~~~~---~e~a~~~v~~i~~~LLaN 68 (80)
T PF02700_consen 19 EAIKRALHRL-GYDGVKDVRVGK-----YIELELEADD---EEEAEEQVEEICEKLLAN 68 (80)
T ss_dssp HHHHHHHHHT-T-TTEEEEEEEE-----EEEEEEE-SS---HHHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHHHc-CCcccCcEEEEE-----EEEEEEeCCC---HHHHHHHHHHHHHHhcCC
Confidence 4688999999 998 88888553 2344444432 344567778887777776
No 181
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=21.87 E-value=4.8e+02 Score=22.38 Aligned_cols=62 Identities=15% Similarity=0.186 Sum_probs=38.9
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceE--EEEEeeecCCeEEEEEEEEecCCccccCChHHHHHHHHHHHhhCCCcccc
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNV--QNSNLVAESERFVLTFTLNAKDNDQISMQLPNLKLWVANALLNQGFQVLI 319 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V--~sa~vst~~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~Al~n~g~~~~~ 319 (324)
+-|..+++||-|++|+++|-.. ++.+ +-|-++.- +..+ +.+.+.+- ....+||.+.|.-+++
T Consensus 72 laVEmeD~PG~l~~I~~vl~d~-diNldYiYAFv~ek-~KAl--li~r~ed~-----------d~~~~aLed~gi~~~~ 135 (142)
T COG4747 72 LAVEMEDVPGGLSRIAEVLGDA-DINLDYIYAFVTEK-QKAL--LIVRVEDI-----------DRAIKALEDAGIKLIG 135 (142)
T ss_pred EEEEecCCCCcHHHHHHHHhhc-CcCceeeeeeeecC-ceEE--EEEEhhHH-----------HHHHHHHHHcCCeecC
Confidence 5567789999999999999988 4544 44444433 3322 23334332 2445677777777665
No 182
>PF11619 P53_C: Transcription factor P53 - C terminal domain; InterPro: IPR024631 The p53 tumour suppressor [, , , , ] is a protein found in increased amounts in a wide variety of transformed cells. It is also detectable in many proliferating non-transformed cells, but it is undetectable or present at low levels in resting cells. It is frequently mutated or inactivated in many types of cancer. p53 seems to act as a tumour suppressor in some, but probably not all, tumour types. p53 has been implicated in cell cycle regulation, particularly in the monitoring of genomic DNA integrity prior to replication; for this reason it has been dubbed `guardian of the genome'. p53 is a sequence-specific DNA-binding protein and transcription factor. The structure of p53 comprises 4 domains: an N-terminal transactivation domain; a central DNA-binding domain; an oligomerisation domain; and a C-terminal, basic, regulatory domain [, ]. The structure of the oligomerisation domain consists of a dimer of dimers, each dimer consisting of 2 anti-parallel alpha-helices and an anti-parallel beta-sheet. The sheets lie on opposite sides of the tetramer and the helices form an unusual 4-helix bundle [, ]. While the majority of p53 mutations found in human cancers are located in the DNA-binding domain, some are also found in the oligomerisation domain. This entry represents the C-terminal domain of Drosophila transcription factor p53. While the rest of the protein is quite conserved between the different transcription factors such as p53 and p73, the C-terminal domain is highly divergent. The Drosophila p53 structure is characterised by an additional N-terminal beta-strand and a C-terminal helix [].; PDB: 2RP4_B.
Probab=21.59 E-value=1.1e+02 Score=23.20 Aligned_cols=35 Identities=14% Similarity=0.166 Sum_probs=26.4
Q ss_pred eeeEEEEeCceEEEEEEecCCCChHHHHHHHHHcc
Q 042465 230 QMDVFQVEERGFYLKLVSNKGEGVAASLYEALESL 264 (324)
Q Consensus 230 ~VeV~~v~e~~v~I~I~C~~r~glL~~Il~aLesl 264 (324)
+-+|.....+++.+-|.|++++-+|-.|=-++++-
T Consensus 6 dW~Vsrt~dGdYrL~itcp~Ke~LlqSIEgmi~~~ 40 (71)
T PF11619_consen 6 DWEVSRTLDGDYRLVITCPKKEWLLQSIEGMIKEA 40 (71)
T ss_dssp S-EEEEETTTCEEEEEEESSHHHHHHHHHHHHHHH
T ss_pred cceeeeccCCceEEEEecCcHHHHHHHHHHHHHHH
Confidence 45666666788999999999997777776666654
No 183
>PRK14624 hypothetical protein; Provisional
Probab=21.29 E-value=4.1e+02 Score=22.21 Aligned_cols=20 Identities=10% Similarity=0.353 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 042465 177 VQELQTTAKNLKAEIADLEA 196 (324)
Q Consensus 177 Ik~Lq~~~~~L~~~~~~l~~ 196 (324)
+..|-++.+++++++++++.
T Consensus 8 m~~~mkqAq~mQ~km~~~Qe 27 (115)
T PRK14624 8 MSEALSNMGNIREKMEEVKK 27 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444443
No 184
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=21.23 E-value=2.4e+02 Score=27.86 Aligned_cols=31 Identities=35% Similarity=0.487 Sum_probs=26.7
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 042465 167 ASLVGDAVSYVQELQTTAKNLKAEIADLEAS 197 (324)
Q Consensus 167 asIL~~Ai~YIk~Lq~~~~~L~~~~~~l~~~ 197 (324)
.+=|+++-+-|..|+++++.|+++++.|++.
T Consensus 288 RsElDe~~krL~ELrR~vr~L~k~l~~l~~~ 318 (320)
T TIGR01834 288 RSELDEAHQRIQQLRREVKSLKKRLGDLEAN 318 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 3458899999999999999999999988764
No 185
>cd04898 ACT_ACR-like_4 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.09 E-value=2.3e+02 Score=22.12 Aligned_cols=62 Identities=15% Similarity=0.102 Sum_probs=40.4
Q ss_pred EEEecCCCChHHHHHHHHHccCCceEEEEEeeecC--CeEEEEEEEEecCCccccCChHHHHHHHH
Q 042465 244 KLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES--ERFVLTFTLNAKDNDQISMQLPNLKLWVA 307 (324)
Q Consensus 244 ~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~--~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~ 307 (324)
+++-..||-+|.++.-||..| +.-|-+|.|.... ++-.-...+...++... +.....+++|.
T Consensus 4 ElsGkGRPrVfyDvTlALK~L-~i~IFsaeIgR~~~~~r~wEvyR~LL~e~~~~-~~~~~~r~~i~ 67 (77)
T cd04898 4 ELSGKGRPRVFYDITLALKKL-GICIFSAEIGRHSTGDRQWEVYRVLLLEHDRL-KLGGRQRSKVV 67 (77)
T ss_pred cccCCCCcceeeehHHHHHHh-ccEEEehhhhhhhcCCeeEEEEEEeecCCCcc-ccchHHHHHHH
Confidence 344455799999999999999 7999999986443 44444445555554423 44333344444
No 186
>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=20.81 E-value=3e+02 Score=19.14 Aligned_cols=25 Identities=32% Similarity=0.391 Sum_probs=20.9
Q ss_pred cCCCChHHHHHHHHHccCCceEEEEE
Q 042465 248 NKGEGVAASLYEALESLTSFNVQNSN 273 (324)
Q Consensus 248 ~~r~glL~~Il~aLesl~gL~V~sa~ 273 (324)
+..+|.+.+++++|.+. |+.|.-..
T Consensus 10 ~~~~g~~~~i~~~L~~~-~I~i~~i~ 34 (75)
T cd04913 10 PDKPGVAAKIFGALAEA-NINVDMIV 34 (75)
T ss_pred CCCCcHHHHHHHHHHHc-CCeEEEEE
Confidence 56699999999999999 79886443
No 187
>TIGR01268 Phe4hydrox_tetr phenylalanine-4-hydroxylase, tetrameric form. The member of this family from Drosophila has been described as having both phenylalanine-4-hydroxylase and tryptophan 5-monoxygenase activity (PubMed:1371286). However, a Drosophila member of the tryptophan 5-monoxygenase clade has subsequently been discovered.
Probab=20.77 E-value=5.3e+02 Score=26.57 Aligned_cols=48 Identities=10% Similarity=0.109 Sum_probs=35.8
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecC-CeEEEEEEEEecC
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAES-ERFVLTFTLNAKD 291 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~-~~~~~t~~vkv~~ 291 (324)
|-+..+.++|.|.+||+.+... |+++.+...-... ...-|.|-+.+..
T Consensus 19 LiFsL~d~pGaL~~vL~vFa~~-gINLthIESRPsk~~~~eY~FFVD~eg 67 (436)
T TIGR01268 19 LIFSLKEEAGALAETLKLFQAH-DVNLTHIESRPSKTHPGEYEFFVEFDE 67 (436)
T ss_pred EEEEcCCCCcHHHHHHHHHHHC-CCCeeEEecccCCCCCccEEEEEEEec
Confidence 4444477899999999999999 8999998765443 2345667777754
No 188
>TIGR01270 Trp_5_monoox tryptophan 5-monooxygenase, tetrameric. This model describes tryptophan 5-monooxygenase, a member of the family of tetrameric, biopterin-dependent aromatic amino acid hydroxylases found in metazoans. It is closely related to tetrameric phenylalanine-4-hydroxylase and tyrosine 3-monooxygenase, and more distantly related to the monomeric phenylalanine-4-hydroxylase found in some Gram-negative bacteria.
Probab=20.76 E-value=4.7e+02 Score=27.16 Aligned_cols=50 Identities=4% Similarity=-0.017 Sum_probs=37.1
Q ss_pred EEEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEE-EEEEEEecCC
Q 042465 242 YLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFV-LTFTLNAKDN 292 (324)
Q Consensus 242 ~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~-~t~~vkv~~~ 292 (324)
-|-+..+.++|.|.++|+.++.. |+++.+...-.... ..- +.|.+.+...
T Consensus 33 SLIFsL~d~pGaL~~vL~vFa~~-gINLThIESRPsk~~~~e~Y~FfVD~Eg~ 84 (464)
T TIGR01270 33 SIIFSLSNVVGDLSKAIAIFQDR-HINILHLESRDSKDGTSKTMDVLVDVELF 84 (464)
T ss_pred EEEEECCCCchHHHHHHHHHHHC-CCCEEEEECCcCCCCCCccEEEEEEEEcC
Confidence 34455577899999999999999 89999988655543 334 6777777643
No 189
>COG0077 PheA Prephenate dehydratase [Amino acid transport and metabolism]
Probab=20.67 E-value=4.8e+02 Score=25.21 Aligned_cols=62 Identities=10% Similarity=0.006 Sum_probs=43.7
Q ss_pred EEEEecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCCccccCChHHHHHHHHHH
Q 042465 243 LKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDNDQISMQLPNLKLWVANA 309 (324)
Q Consensus 243 I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~A 309 (324)
|-+.-+.+||.|+++|..|... |++......-.... -.-|.|.+.+.... ....+++++...
T Consensus 197 l~f~~~n~PGaL~~~L~~Fa~~-gINlTkIESRP~k~~~~~Y~F~iD~eg~~----~~~~v~~AL~el 259 (279)
T COG0077 197 LIFSVPNKPGALYKALGVFAKR-GINLTKIESRPLKTGLGEYLFFIDIEGHI----DDPLVKEALEEL 259 (279)
T ss_pred EEEEcCCCCchHHHHHHHHHHc-CcceeeEeecccCCCCeeEEEEEEEecCc----CcHhHHHHHHHH
Confidence 3344458999999999999999 88888877655554 34677888886643 336666666543
No 190
>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=20.54 E-value=2.9e+02 Score=18.74 Aligned_cols=24 Identities=33% Similarity=0.513 Sum_probs=20.7
Q ss_pred CCCChHHHHHHHHHccCCceEEEEE
Q 042465 249 KGEGVAASLYEALESLTSFNVQNSN 273 (324)
Q Consensus 249 ~r~glL~~Il~aLesl~gL~V~sa~ 273 (324)
..++++.+++.+|.+. ++.|...+
T Consensus 12 ~~~~~~~~i~~~L~~~-~i~v~~i~ 35 (63)
T cd04936 12 SHPGVAAKMFEALAEA-GINIEMIS 35 (63)
T ss_pred CCccHHHHHHHHHHHC-CCcEEEEE
Confidence 4589999999999999 79887766
No 191
>COG2716 GcvR Glycine cleavage system regulatory protein [Amino acid transport and metabolism]
Probab=20.41 E-value=2.8e+02 Score=25.01 Aligned_cols=68 Identities=9% Similarity=0.099 Sum_probs=42.9
Q ss_pred eEEEEEEecCCCChHHHHHHHHHccCCceEEEEEeeec--CCeEEEEEEEEecCCccccCChHHHHHHHHH
Q 042465 240 GFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLVAE--SERFVLTFTLNAKDNDQISMQLPNLKLWVAN 308 (324)
Q Consensus 240 ~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vst~--~~~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~ 308 (324)
.+.++|...+|+|++-++.+.|..+ |+++.+-...+. .+.----|++++.-.--..++...|+..+..
T Consensus 92 ~v~v~v~a~DrpgIv~~~T~lf~~~-~inie~L~~~~~~a~~s~~~lfha~it~~lPa~~~i~~l~~~f~a 161 (176)
T COG2716 92 PVWVYVDANDRPGIVEEFTALFDGH-GINIENLVSRTYPAPGSSAPLFHAQITARLPANLSISALRDAFEA 161 (176)
T ss_pred eEEEEEEecCCccHHHHHHHHHHhc-CCchhhceeeeeecCCCCccceehhhhccCCCcCcHHHHHHHHHH
Confidence 4778899999999999999999999 787765432222 1111111333333221145778888877654
No 192
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=20.16 E-value=3.3e+02 Score=20.00 Aligned_cols=53 Identities=19% Similarity=0.311 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCCCc--ccHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042465 142 KRRGKMKEKLYQLRALVPNITKMDK--ASLVGDAVSYVQELQTTAKNLKAEIADL 194 (324)
Q Consensus 142 ~RR~~in~~~~~LrslvP~~~K~dK--asIL~~Ai~YIk~Lq~~~~~L~~~~~~l 194 (324)
+...++...+..+...+-+..-..| ..|+...-.-+..++.+++.|+..++.|
T Consensus 11 Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 11 KELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3456788888888887776654444 4578888888888888888888877765
No 193
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=20.12 E-value=1.6e+02 Score=22.80 Aligned_cols=24 Identities=17% Similarity=0.472 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 042465 172 DAVSYVQELQTTAKNLKAEIADLE 195 (324)
Q Consensus 172 ~Ai~YIk~Lq~~~~~L~~~~~~l~ 195 (324)
+++.-|.+|-.+++.|++++..|+
T Consensus 60 ~gi~lil~LLd~i~~L~~el~~L~ 83 (84)
T PF13591_consen 60 EGIALILDLLDRIEQLRRELRELR 83 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 577888888888888888888775
No 194
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=20.09 E-value=2.9e+02 Score=21.25 Aligned_cols=46 Identities=22% Similarity=0.347 Sum_probs=33.5
Q ss_pred ccceeeEEEEeC-ceEEEEEEecCCCChHHHHHHHHHccCCceEEEEEee
Q 042465 227 IIMQMDVFQVEE-RGFYLKLVSNKGEGVAASLYEALESLTSFNVQNSNLV 275 (324)
Q Consensus 227 ~~~~VeV~~v~e-~~v~I~I~C~~r~glL~~Il~aLesl~gL~V~sa~vs 275 (324)
..+.++|....+ +.+.|.|.+... +-+.+.+.+|+.+. .|+++++.
T Consensus 26 ~~~gvEVh~~~~~GKiVVtiE~~~~-~~~~~~~~~i~~l~--GVlsa~lv 72 (79)
T PF03927_consen 26 AIPGVEVHAVDEDGKIVVTIEAESS-EEEVDLIDAINALP--GVLSASLV 72 (79)
T ss_dssp CSTTEEEEEEETTTEEEEEEEESSH-HHHHHHHHHHCCST--TEEEEEES
T ss_pred cCCCcEEEeeCCCCeEEEEEEeCCh-HHHHHHHHHHHcCC--CceEEEEE
Confidence 345678876665 567778887754 57788899999996 58888753
No 195
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=20.04 E-value=95 Score=31.93 Aligned_cols=24 Identities=21% Similarity=0.389 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhc
Q 042465 175 SYVQELQTTAKNLKAEIADLEASS 198 (324)
Q Consensus 175 ~YIk~Lq~~~~~L~~~~~~l~~~~ 198 (324)
+-|+.||.+++.|++++.+|++..
T Consensus 25 ~~i~~L~~ql~aLq~~v~eL~~~l 48 (514)
T PF11336_consen 25 DQIKALQAQLQALQDQVNELRAKL 48 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457778888888888887777654
No 196
>PRK10622 pheA bifunctional chorismate mutase/prephenate dehydratase; Provisional
Probab=20.03 E-value=5.6e+02 Score=25.72 Aligned_cols=58 Identities=9% Similarity=0.069 Sum_probs=42.5
Q ss_pred ecCCCChHHHHHHHHHccCCceEEEEEeeecCC-eEEEEEEEEecCCccccCChHHHHHHHHHH
Q 042465 247 SNKGEGVAASLYEALESLTSFNVQNSNLVAESE-RFVLTFTLNAKDNDQISMQLPNLKLWVANA 309 (324)
Q Consensus 247 C~~r~glL~~Il~aLesl~gL~V~sa~vst~~~-~~~~t~~vkv~~~~~~~~~~~~Lk~~v~~A 309 (324)
-++++|.|.++|..|... |++......-...+ ..-|.|-+.+.+.. ..+.++.++...
T Consensus 304 ~~~~pGaL~~~L~~Fa~~-giNLtkIeSRP~~~~~~~Y~Ffid~eg~~----~d~~~~~aL~~l 362 (386)
T PRK10622 304 TGQQAGALVEALLVLRNH-NLIMTKLESRPIHGNPWEEMFYLDVQANL----RSAEMQKALKEL 362 (386)
T ss_pred cCCCCcHHHHHHHHHHHc-CCCeeEEEeeecCCCCceEEEEEEEeCCC----CCHHHHHHHHHH
Confidence 368999999999999999 89888877655554 46788888887642 234566665554
Done!