Query 007097
Match_columns 618
No_of_seqs 299 out of 1040
Neff 5.5
Searched_HMMs 46136
Date Thu Mar 28 18:53:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007097.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007097hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14215 bHLH-MYC_N: bHLH-MYC 100.0 1.2E-43 2.5E-48 340.8 9.9 139 2-160 25-163 (163)
2 cd00083 HLH Helix-loop-helix d 98.9 1.6E-09 3.5E-14 86.5 4.7 50 421-470 5-60 (60)
3 smart00353 HLH helix loop heli 98.9 2.2E-09 4.8E-14 84.1 4.8 45 426-470 2-52 (53)
4 PF00010 HLH: Helix-loop-helix 98.8 5E-09 1.1E-13 83.1 4.1 45 422-466 3-55 (55)
5 cd04897 ACT_ACR_3 ACT domain-c 98.0 4.3E-05 9.3E-10 65.1 10.1 68 550-617 3-74 (75)
6 cd04927 ACT_ACR-like_2 Second 97.9 8.3E-05 1.8E-09 63.0 10.0 69 549-617 1-73 (76)
7 cd04895 ACT_ACR_1 ACT domain-c 97.9 0.00012 2.5E-09 62.0 9.7 66 550-615 3-68 (72)
8 cd04896 ACT_ACR-like_3 ACT dom 97.8 0.00018 3.9E-09 61.3 9.8 67 550-616 2-73 (75)
9 cd04900 ACT_UUR-like_1 ACT dom 97.6 0.00049 1.1E-08 57.4 9.9 65 550-614 3-72 (73)
10 KOG1318 Helix loop helix trans 97.5 0.00016 3.4E-09 79.0 5.9 50 421-470 234-290 (411)
11 cd04925 ACT_ACR_2 ACT domain-c 97.3 0.0016 3.6E-08 54.7 9.5 67 550-616 2-73 (74)
12 cd04899 ACT_ACR-UUR-like_2 C-t 97.3 0.0023 5E-08 52.1 9.7 65 550-614 2-69 (70)
13 cd04926 ACT_ACR_4 C-terminal 97.1 0.0054 1.2E-07 51.2 9.8 67 550-617 3-69 (72)
14 KOG1319 bHLHZip transcription 97.0 0.00075 1.6E-08 66.2 4.5 60 422-481 64-133 (229)
15 cd04928 ACT_TyrKc Uncharacteri 96.9 0.0095 2.1E-07 50.0 9.3 64 550-615 3-67 (68)
16 PF13740 ACT_6: ACT domain; PD 96.7 0.0096 2.1E-07 50.2 8.5 66 548-616 2-67 (76)
17 KOG2483 Upstream transcription 96.7 0.0027 5.7E-08 65.0 5.8 62 416-477 55-122 (232)
18 PF01842 ACT: ACT domain; Int 96.6 0.016 3.5E-07 46.0 8.4 61 550-615 2-65 (66)
19 PF13291 ACT_4: ACT domain; PD 96.4 0.012 2.6E-07 49.6 7.0 51 548-598 6-58 (80)
20 KOG3561 Aryl-hydrocarbon recep 96.3 0.0029 6.3E-08 74.4 4.0 48 421-468 21-75 (803)
21 cd04873 ACT_UUR-ACR-like ACT d 96.3 0.045 9.8E-07 43.9 9.7 49 550-598 2-50 (70)
22 PRK00194 hypothetical protein; 96.3 0.025 5.5E-07 48.7 8.5 67 548-615 3-69 (90)
23 cd04872 ACT_1ZPV ACT domain pr 96.2 0.026 5.5E-07 48.7 8.3 67 549-616 2-68 (88)
24 cd04875 ACT_F4HF-DF N-terminal 96.2 0.031 6.8E-07 46.5 8.3 65 551-616 2-68 (74)
25 PRK05007 PII uridylyl-transfer 96.1 0.026 5.6E-07 68.1 10.6 71 546-616 806-879 (884)
26 KOG0561 bHLH transcription fac 96.1 0.0035 7.5E-08 65.6 2.5 47 427-473 67-118 (373)
27 cd04893 ACT_GcvR_1 ACT domains 96.0 0.049 1.1E-06 46.0 9.0 65 549-616 2-66 (77)
28 cd04869 ACT_GcvR_2 ACT domains 96.0 0.054 1.2E-06 45.4 9.2 64 551-616 2-71 (81)
29 KOG4304 Transcriptional repres 96.0 0.004 8.7E-08 64.5 2.6 51 421-471 33-94 (250)
30 PRK00275 glnD PII uridylyl-tra 95.6 0.066 1.4E-06 64.8 11.2 79 538-616 802-886 (895)
31 cd04870 ACT_PSP_1 CT domains f 95.5 0.081 1.8E-06 44.3 8.1 65 550-616 1-65 (75)
32 PRK01759 glnD PII uridylyl-tra 95.5 0.066 1.4E-06 64.5 10.4 70 546-615 781-853 (854)
33 cd04887 ACT_MalLac-Enz ACT_Mal 95.4 0.07 1.5E-06 43.8 7.4 61 551-613 2-63 (74)
34 cd04886 ACT_ThrD-II-like C-ter 95.2 0.1 2.2E-06 41.7 7.5 61 551-613 1-66 (73)
35 PRK05092 PII uridylyl-transfer 95.1 0.12 2.5E-06 63.0 11.0 79 538-616 831-915 (931)
36 cd04888 ACT_PheB-BS C-terminal 95.1 0.096 2.1E-06 43.1 7.4 64 550-614 2-66 (76)
37 PRK04374 PII uridylyl-transfer 94.9 0.16 3.4E-06 61.4 11.1 79 538-616 784-867 (869)
38 PRK03381 PII uridylyl-transfer 94.8 0.13 2.9E-06 61.3 10.4 70 547-616 598-667 (774)
39 KOG3960 Myogenic helix-loop-he 94.7 0.056 1.2E-06 55.6 5.6 57 423-479 121-182 (284)
40 PRK04435 hypothetical protein; 94.6 0.16 3.5E-06 48.5 8.4 70 544-614 65-135 (147)
41 TIGR01693 UTase_glnD [Protein- 94.6 0.17 3.6E-06 61.0 10.4 70 546-615 777-849 (850)
42 PRK03059 PII uridylyl-transfer 94.5 0.19 4.2E-06 60.6 10.7 68 547-616 785-855 (856)
43 KOG4029 Transcription factor H 94.5 0.039 8.5E-07 56.2 4.1 56 421-476 110-172 (228)
44 TIGR01693 UTase_glnD [Protein- 94.2 0.23 5E-06 59.8 10.5 71 546-616 666-741 (850)
45 PRK03381 PII uridylyl-transfer 94.2 0.28 6.1E-06 58.6 11.0 67 547-615 706-772 (774)
46 PLN03217 transcription factor 94.1 0.047 1E-06 47.5 3.2 48 433-480 23-76 (93)
47 cd04877 ACT_TyrR N-terminal AC 94.0 0.16 3.4E-06 42.4 6.2 59 550-613 2-60 (74)
48 PRK01759 glnD PII uridylyl-tra 93.9 0.34 7.4E-06 58.5 11.0 79 538-616 665-749 (854)
49 KOG2588 Predicted DNA-binding 93.6 0.045 9.7E-07 65.1 2.8 65 416-480 272-340 (953)
50 PRK05007 PII uridylyl-transfer 93.3 0.49 1.1E-05 57.4 11.1 79 538-616 689-773 (884)
51 PRK03059 PII uridylyl-transfer 93.1 0.47 1E-05 57.4 10.5 70 547-616 677-750 (856)
52 cd04876 ACT_RelA-SpoT ACT dom 93.1 0.38 8.3E-06 36.8 6.6 61 551-613 1-62 (71)
53 PRK00275 glnD PII uridylyl-tra 93.0 0.45 9.7E-06 57.8 10.1 70 547-616 703-778 (895)
54 cd02116 ACT ACT domains are co 92.3 0.56 1.2E-05 33.9 6.3 34 551-584 1-34 (60)
55 cd04874 ACT_Af1403 N-terminal 92.2 0.96 2.1E-05 36.0 8.1 60 550-613 2-62 (72)
56 cd04881 ACT_HSDH-Hom ACT_HSDH_ 92.0 1.2 2.5E-05 36.0 8.4 48 549-596 1-50 (79)
57 COG2844 GlnD UTP:GlnB (protein 91.8 0.61 1.3E-05 55.3 8.8 77 538-615 779-857 (867)
58 PRK06027 purU formyltetrahydro 91.7 1 2.2E-05 47.8 9.7 68 548-616 6-75 (286)
59 PRK13011 formyltetrahydrofolat 91.7 0.9 2E-05 48.1 9.3 67 548-616 7-75 (286)
60 PRK08577 hypothetical protein; 91.6 1.2 2.6E-05 41.7 9.1 67 547-614 55-123 (136)
61 PRK05092 PII uridylyl-transfer 91.5 1.1 2.4E-05 54.7 11.0 69 547-615 731-804 (931)
62 cd04879 ACT_3PGDH-like ACT_3PG 91.3 1 2.2E-05 35.5 7.2 59 551-614 2-62 (71)
63 cd04878 ACT_AHAS N-terminal AC 91.1 1.2 2.6E-05 35.2 7.5 61 550-613 2-64 (72)
64 cd04880 ACT_AAAH-PDT-like ACT 90.2 1.7 3.8E-05 36.0 7.9 62 552-613 3-66 (75)
65 TIGR00655 PurU formyltetrahydr 90.0 1.9 4.1E-05 45.6 9.8 63 550-613 2-66 (280)
66 PRK04374 PII uridylyl-transfer 89.9 1.4 3E-05 53.5 9.8 70 547-616 689-760 (869)
67 cd04903 ACT_LSD C-terminal ACT 89.9 1.5 3.2E-05 34.7 7.0 58 551-613 2-61 (71)
68 cd04905 ACT_CM-PDT C-terminal 89.8 3 6.6E-05 35.1 9.2 63 550-614 3-66 (80)
69 PRK07334 threonine dehydratase 89.3 1.4 3.1E-05 48.6 8.6 65 547-613 325-394 (403)
70 PRK13010 purU formyltetrahydro 88.4 2.3 5E-05 45.2 9.1 68 548-615 9-78 (289)
71 PF13185 GAF_2: GAF domain; PD 88.0 0.57 1.2E-05 42.1 3.8 51 93-147 72-127 (148)
72 cd04884 ACT_CBS C-terminal ACT 86.9 3.7 7.9E-05 33.7 7.7 62 551-614 2-66 (72)
73 cd04894 ACT_ACR-like_1 ACT dom 85.8 4.7 0.0001 33.6 7.4 65 550-614 2-67 (69)
74 cd04908 ACT_Bt0572_1 N-termina 85.6 5.3 0.00011 32.3 7.9 57 550-613 3-59 (66)
75 cd04882 ACT_Bt0572_2 C-termina 85.2 3.8 8.3E-05 32.2 6.8 56 551-613 2-59 (65)
76 cd04909 ACT_PDH-BS C-terminal 84.3 4.6 0.0001 32.6 7.0 34 550-583 3-36 (69)
77 cd04904 ACT_AAAH ACT domain of 82.5 9.8 0.00021 31.8 8.4 59 552-614 4-63 (74)
78 cd04883 ACT_AcuB C-terminal AC 82.1 10 0.00022 30.6 8.2 59 550-613 3-63 (72)
79 COG3830 ACT domain-containing 81.3 3.4 7.3E-05 36.7 5.3 66 549-615 4-69 (90)
80 cd04901 ACT_3PGDH C-terminal A 81.2 1.9 4.1E-05 34.6 3.5 57 552-613 3-59 (69)
81 cd04889 ACT_PDH-BS-like C-term 81.0 5 0.00011 31.1 5.8 44 551-594 1-45 (56)
82 TIGR01817 nifA Nif-specific re 80.4 2.1 4.6E-05 48.8 4.9 76 83-160 68-152 (534)
83 cd04931 ACT_PAH ACT domain of 80.2 13 0.00028 32.8 8.6 50 549-598 15-65 (90)
84 PRK10872 relA (p)ppGpp synthet 79.9 5.6 0.00012 47.6 8.1 64 548-613 666-731 (743)
85 KOG3558 Hypoxia-inducible fact 78.3 1.7 3.6E-05 50.7 3.1 38 427-464 53-97 (768)
86 PRK11589 gcvR glycine cleavage 78.0 6.1 0.00013 39.6 6.7 65 547-614 7-71 (190)
87 cd04902 ACT_3PGDH-xct C-termin 77.1 8.4 0.00018 31.0 6.2 59 551-614 2-62 (73)
88 TIGR00691 spoT_relA (p)ppGpp s 77.0 7 0.00015 46.4 7.9 63 548-612 610-673 (683)
89 PF13710 ACT_5: ACT domain; PD 76.9 8.6 0.00019 31.5 6.2 56 557-615 1-58 (63)
90 PRK11092 bifunctional (p)ppGpp 76.8 7.1 0.00015 46.4 7.8 64 548-613 626-690 (702)
91 cd04922 ACT_AKi-HSDH-ThrA_2 AC 76.4 19 0.0004 28.4 7.9 59 550-615 3-64 (66)
92 KOG3560 Aryl-hydrocarbon recep 74.6 2.8 6.1E-05 47.7 3.5 40 425-464 31-76 (712)
93 cd04916 ACT_AKiii-YclM-BS_2 AC 74.1 22 0.00048 27.9 7.8 59 550-615 3-64 (66)
94 TIGR00119 acolac_sm acetolacta 74.0 13 0.00028 36.2 7.5 63 550-615 3-67 (157)
95 PRK13562 acetolactate synthase 73.6 11 0.00024 33.1 6.2 64 550-615 4-69 (84)
96 PRK11152 ilvM acetolactate syn 73.5 19 0.00041 30.9 7.6 62 550-615 5-68 (76)
97 cd04919 ACT_AK-Hom3_2 ACT doma 73.5 25 0.00055 27.8 8.0 53 556-615 12-64 (66)
98 cd04892 ACT_AK-like_2 ACT doma 72.6 22 0.00048 27.1 7.4 34 550-583 2-38 (65)
99 PRK11061 fused phosphoenolpyru 72.2 5.5 0.00012 47.7 5.4 63 82-146 66-133 (748)
100 COG4492 PheB ACT domain-contai 71.9 17 0.00036 34.7 7.3 68 546-614 70-138 (150)
101 cd04885 ACT_ThrD-I Tandem C-te 71.7 22 0.00048 28.9 7.4 59 552-613 2-61 (68)
102 PRK11895 ilvH acetolactate syn 70.2 18 0.00039 35.4 7.6 63 550-615 4-68 (161)
103 cd04929 ACT_TPH ACT domain of 69.6 30 0.00066 29.2 8.0 57 554-614 6-63 (74)
104 CHL00100 ilvH acetohydroxyacid 66.3 26 0.00056 34.8 7.8 64 550-616 4-69 (174)
105 cd04932 ACT_AKiii-LysC-EC_1 AC 66.2 50 0.0011 27.9 8.6 43 550-594 3-48 (75)
106 PRK00227 glnD PII uridylyl-tra 65.1 27 0.00058 41.7 9.0 67 549-616 547-614 (693)
107 cd04924 ACT_AK-Arch_2 ACT doma 64.8 48 0.001 25.9 7.9 59 550-615 3-64 (66)
108 KOG3559 Transcriptional regula 64.4 5.5 0.00012 44.0 3.0 38 427-464 8-52 (598)
109 cd04868 ACT_AK-like ACT domain 63.0 30 0.00065 25.7 6.2 36 558-593 13-48 (60)
110 cd04918 ACT_AK1-AT_2 ACT domai 62.8 45 0.00097 26.9 7.4 52 557-615 12-63 (65)
111 cd04937 ACT_AKi-DapG-BS_2 ACT 62.2 48 0.001 26.5 7.5 50 557-615 13-62 (64)
112 cd04912 ACT_AKiii-LysC-EC-like 61.7 37 0.00079 28.3 6.9 62 550-613 3-67 (75)
113 PRK06737 acetolactate synthase 61.7 39 0.00084 29.1 7.1 63 550-615 4-68 (76)
114 smart00065 GAF Domain present 61.1 15 0.00033 31.0 4.7 60 82-143 50-114 (149)
115 PRK08198 threonine dehydratase 61.1 40 0.00087 37.1 9.1 66 546-613 325-395 (404)
116 PRK11589 gcvR glycine cleavage 60.9 36 0.00078 34.1 7.9 65 549-615 96-166 (190)
117 PRK06382 threonine dehydratase 60.2 40 0.00086 37.3 8.9 67 545-613 327-398 (406)
118 COG0788 PurU Formyltetrahydrof 60.1 41 0.00089 35.7 8.3 68 547-616 6-76 (287)
119 PF01590 GAF: GAF domain; Int 59.4 15 0.00033 33.0 4.6 64 82-145 50-131 (154)
120 TIGR01127 ilvA_1Cterm threonin 59.3 40 0.00086 36.8 8.6 67 545-613 302-373 (380)
121 cd04930 ACT_TH ACT domain of t 59.3 57 0.0012 30.0 8.3 60 551-614 44-104 (115)
122 COG2844 GlnD UTP:GlnB (protein 57.7 47 0.001 40.2 9.2 56 541-596 677-733 (867)
123 cd04923 ACT_AK-LysC-DapG-like_ 56.8 66 0.0014 24.7 7.3 56 551-615 3-61 (63)
124 cd04933 ACT_AK1-AT_1 ACT domai 54.0 78 0.0017 27.1 7.8 43 550-594 3-48 (78)
125 cd04935 ACT_AKiii-DAPDC_1 ACT 53.5 47 0.001 28.0 6.3 56 556-613 12-67 (75)
126 cd04906 ACT_ThrD-I_1 First of 50.3 1.1E+02 0.0023 26.2 8.1 62 549-613 2-64 (85)
127 KOG3910 Helix loop helix trans 49.3 12 0.00026 42.4 2.5 53 420-472 526-585 (632)
128 PF07009 DUF1312: Protein of u 49.0 22 0.00048 32.4 3.9 49 82-133 52-100 (113)
129 cd04936 ACT_AKii-LysC-BS-like_ 48.9 1E+02 0.0022 23.6 7.3 51 556-615 11-61 (63)
130 COG0317 SpoT Guanosine polypho 48.4 55 0.0012 39.1 7.8 51 548-598 627-678 (701)
131 PRK08178 acetolactate synthase 46.9 83 0.0018 28.4 7.0 64 548-615 8-73 (96)
132 PF05088 Bac_GDH: Bacterial NA 46.9 87 0.0019 40.7 9.7 70 547-616 488-562 (1528)
133 cd04890 ACT_AK-like_1 ACT doma 46.8 65 0.0014 25.3 5.9 37 556-594 11-47 (62)
134 KOG3898 Transcription factor N 46.4 13 0.00027 39.0 2.0 43 426-468 78-126 (254)
135 KOG4447 Transcription factor T 42.9 15 0.00033 35.6 1.9 48 421-468 79-131 (173)
136 PRK11899 prephenate dehydratas 42.7 1.5E+02 0.0032 31.6 9.3 64 551-616 197-261 (279)
137 cd04915 ACT_AK-Ectoine_2 ACT d 41.5 93 0.002 25.3 6.1 50 558-614 14-63 (66)
138 cd04934 ACT_AK-Hom3_1 CT domai 41.5 1.4E+02 0.0031 25.0 7.4 60 550-613 3-65 (73)
139 cd04921 ACT_AKi-HSDH-ThrA-like 39.2 1.1E+02 0.0023 25.2 6.3 44 550-593 3-49 (80)
140 COG3978 Acetolactate synthase 38.1 2E+02 0.0044 25.3 7.6 63 549-615 4-68 (86)
141 cd04920 ACT_AKiii-DAPDC_2 ACT 36.2 1.6E+02 0.0034 23.7 6.6 34 542-581 3-36 (63)
142 PRK08526 threonine dehydratase 36.0 1.5E+02 0.0033 33.0 8.6 67 545-613 323-394 (403)
143 PF02120 Flg_hook: Flagellar h 34.7 1.4E+02 0.003 25.0 6.4 49 537-585 26-80 (85)
144 PRK15429 formate hydrogenlyase 34.6 57 0.0012 38.6 5.2 60 85-144 253-318 (686)
145 PRK15385 magnesium transport p 34.2 2.4E+02 0.0052 29.2 9.0 63 547-611 141-209 (225)
146 PRK05022 anaerobic nitric oxid 34.1 41 0.00089 38.4 3.9 77 83-160 65-152 (509)
147 PF13840 ACT_7: ACT domain ; P 33.8 87 0.0019 25.5 4.8 35 546-580 4-42 (65)
148 PF13492 GAF_3: GAF domain; PD 31.0 57 0.0012 28.2 3.5 63 83-156 49-116 (129)
149 cd04913 ACT_AKii-LysC-BS-like_ 27.9 2.5E+02 0.0055 21.9 6.6 27 556-582 10-36 (75)
150 PRK09034 aspartate kinase; Rev 26.8 2.6E+02 0.0057 31.5 8.6 68 541-615 378-448 (454)
151 PRK11898 prephenate dehydratas 26.3 3.3E+02 0.0072 28.8 8.8 63 550-614 198-262 (283)
152 PRK10622 pheA bifunctional cho 26.0 3.6E+02 0.0078 30.0 9.3 59 556-616 305-364 (386)
153 PRK06291 aspartate kinase; Pro 23.9 3.6E+02 0.0079 30.5 9.1 67 542-615 392-461 (465)
154 cd04891 ACT_AK-LysC-DapG-like_ 23.6 2.2E+02 0.0049 21.1 5.3 27 556-582 9-35 (61)
155 PRK06291 aspartate kinase; Pro 23.6 2.8E+02 0.006 31.4 8.1 51 543-593 316-369 (465)
156 TIGR00656 asp_kin_monofn aspar 22.7 2.9E+02 0.0063 30.3 7.8 51 542-592 254-307 (401)
157 PF11619 P53_C: Transcription 22.7 94 0.002 26.2 3.0 34 538-571 5-39 (71)
158 cd04911 ACT_AKiii-YclM-BS_1 AC 22.1 1.2E+02 0.0026 26.2 3.7 37 557-595 13-49 (76)
159 PRK08210 aspartate kinase I; R 21.1 3.9E+02 0.0085 29.4 8.5 66 541-615 332-400 (403)
160 PRK00227 glnD PII uridylyl-tra 21.0 1.5E+02 0.0032 35.7 5.4 60 549-616 632-691 (693)
161 PLN02551 aspartokinase 20.6 5E+02 0.011 30.1 9.4 67 542-615 439-507 (521)
162 PRK07431 aspartate kinase; Pro 20.2 4.3E+02 0.0093 30.8 8.9 65 542-615 342-409 (587)
No 1
>PF14215 bHLH-MYC_N: bHLH-MYC and R2R3-MYB transcription factors N-terminal
Probab=100.00 E-value=1.2e-43 Score=340.76 Aligned_cols=139 Identities=52% Similarity=0.842 Sum_probs=127.4
Q ss_pred CCceeeeCCccccCccccccccccccCCchhhhhHHHHHHHHHHHhhccCCcccccCCCCCCCCCCCCCCceeeEEEeee
Q 007097 2 VPRVLEWGDGYYNGDIKTRKTMQAMELTPDKIGLQRSKQLRELYESLLKGESELAYKRPSAALSPEDLTDAEWYYLVCMS 81 (618)
Q Consensus 2 q~g~L~WgdGyy~g~~k~rk~~~~~~~~~~~~~~~r~~~lreL~~sl~~g~~~~~~~~~~~~~~~e~~td~Ewfyl~sm~ 81 (618)
++.+|+||||||||++++++.. + + .+++|+++||+||.++. .+++.+++|+|+||||++||+
T Consensus 25 ~~~~L~W~DG~~~g~~~~~~~~---~--~--~~~~~~~~l~~l~~~~~-----------~~~~~~~~v~~~e~f~~~s~~ 86 (163)
T PF14215_consen 25 DNSVLVWGDGYCNGPKETRKNG---E--E--EQEQRSKVLRELHSSFS-----------SYALSPEEVTDTEWFYLVSMS 86 (163)
T ss_pred CCCeeeEcceeecCCcccccch---h--h--ccchhhhHHHHHhhhcc-----------ccccccchhHHHHHHhhceee
Confidence 3469999999999999888765 1 2 34899999999995444 235679999999999999999
Q ss_pred eeecCCCCccceeeeCCCcEEEeCCCCCCCchhhhHHHhhhcCCcEEEEeeeCCceeEeeccccccCChhHHHHHHHHh
Q 007097 82 FVFSSGQGLPGRALANSETIWLCNAQCADSKVFSRSLLAKSASIQTVICFPHLDGVIELGVTELVPEDPSLLQHIKASL 160 (618)
Q Consensus 82 ~~F~~G~GlpG~a~~~g~~~Wl~~~~~~~~~~~~R~~~a~~agIQTvvciP~~~GVvELGSte~v~Ed~~lv~~ik~~F 160 (618)
|+| |+|+|||||++|+|+||++++.++.+.|+|+++||++|||||||||+++||||||||++|+||++||++||++|
T Consensus 87 ~sf--g~G~~G~a~~sg~~~Wi~~~~~~~~~~~~r~~~aq~~~~~Tiv~IPv~~GVvELGSt~~I~Ed~~~v~~vk~~F 163 (163)
T PF14215_consen 87 YSF--GEGIPGRAAASGQHIWISGANELDSSYCERAWLAQFAGIQTIVCIPVPNGVVELGSTEKIPEDSNLVQRVKSLF 163 (163)
T ss_pred EEe--cCCccEEEeecCccEEEeCCCccccccchhhhhhcccccceEEEEEecCCEEEeeeeeeeccCHHHHHHHHhhC
Confidence 999 99999999999999999999999999999999999999999999999999999999999999999999999998
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=98.89 E-value=1.6e-09 Score=86.53 Aligned_cols=50 Identities=32% Similarity=0.585 Sum_probs=46.4
Q ss_pred ccchhhHHHHhH---HHhHHHhHhcCCCC---CCccccchHHHHHHHHHHHHHHHH
Q 007097 421 CEEHISSDKRTE---NEKFMVLRSMVPYI---SEVDKASILSDTIKYLKKLEARVE 470 (618)
Q Consensus 421 ~~~h~~~ER~RR---n~~f~~LrslvP~~---~k~dKaSIL~daI~Yik~L~~~v~ 470 (618)
...|...||+|| |..|..|+++||.. .|+||++||..||+||+.|+.+++
T Consensus 5 r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 5 REAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 457999999999 99999999999988 899999999999999999998763
No 3
>smart00353 HLH helix loop helix domain.
Probab=98.88 E-value=2.2e-09 Score=84.07 Aligned_cols=45 Identities=36% Similarity=0.602 Sum_probs=41.6
Q ss_pred hHHHHhH---HHhHHHhHhcCCC---CCCccccchHHHHHHHHHHHHHHHH
Q 007097 426 SSDKRTE---NEKFMVLRSMVPY---ISEVDKASILSDTIKYLKKLEARVE 470 (618)
Q Consensus 426 ~~ER~RR---n~~f~~LrslvP~---~~k~dKaSIL~daI~Yik~L~~~v~ 470 (618)
..||+|| |+.|..|+++||. ..|++|++||..||+||+.|+.+++
T Consensus 2 ~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 2 ARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 5799998 9999999999994 5789999999999999999999886
No 4
>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=98.79 E-value=5e-09 Score=83.08 Aligned_cols=45 Identities=36% Similarity=0.639 Sum_probs=42.1
Q ss_pred cchhhHHHHhH---HHhHHHhHhcCCCC-----CCccccchHHHHHHHHHHHH
Q 007097 422 EEHISSDKRTE---NEKFMVLRSMVPYI-----SEVDKASILSDTIKYLKKLE 466 (618)
Q Consensus 422 ~~h~~~ER~RR---n~~f~~LrslvP~~-----~k~dKaSIL~daI~Yik~L~ 466 (618)
..|+..||+|| |..|..|+.+||.. .|++|++||..||+||++||
T Consensus 3 ~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 3 QKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 47999999999 99999999999976 78899999999999999997
No 5
>cd04897 ACT_ACR_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.04 E-value=4.3e-05 Score=65.11 Aligned_cols=68 Identities=7% Similarity=0.159 Sum_probs=57.5
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccC----HHHHHHHHHHHhhh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAP----AGIIEQALWKIAGK 617 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s----~~~IkqAL~~vi~~ 617 (618)
+|+|.|+.|||||.+|..+|.+++|+|.+|.|+|.++...-+|..+-.....++ .+.|+++|..++.+
T Consensus 3 vveV~~~DRpGLL~~i~~~l~~~~l~I~~A~I~T~gera~D~FyV~d~~g~kl~~~~~~~~l~~~L~~al~~ 74 (75)
T cd04897 3 VVTVQCRDRPKLLFDVVCTLTDMDYVVFHATIDTDGDDAHQEYYIRHKDGRTLSTEGERQRVIKCLEAAIER 74 (75)
T ss_pred EEEEEeCCcCcHHHHHHHHHHhCCeEEEEEEEeecCceEEEEEEEEcCCCCccCCHHHHHHHHHHHHHHHhc
Confidence 589999999999999999999999999999999999999889888755333332 35778888887764
No 6
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.94 E-value=8.3e-05 Score=63.03 Aligned_cols=69 Identities=20% Similarity=0.222 Sum_probs=57.1
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec-CCceEEEEEEEEeCCCcc---cCHHHHHHHHHHHhhh
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN-LDGVLTLALKSTFRGAAI---APAGIIEQALWKIAGK 617 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~-~dg~l~~ti~aKv~~~~~---~s~~~IkqAL~~vi~~ 617 (618)
++|+|.|+.|+|+|.+|..+|..+||.|++|++++ .+|....+|.+.-.+... .-..+|+++|.++++.
T Consensus 1 ~~~ei~~~Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V~d~~~~~~~~~~~~~l~~~L~~~L~~ 73 (76)
T cd04927 1 FLLKLFCSDRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFITDARELLHTKKRREETYDYLRAVLGD 73 (76)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEEeCCCCCCCCHHHHHHHHHHHHHHHch
Confidence 47999999999999999999999999999999995 899998898886443221 1345688888888875
No 7
>cd04895 ACT_ACR_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.88 E-value=0.00012 Score=62.02 Aligned_cols=66 Identities=15% Similarity=0.096 Sum_probs=52.8
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
+|+|.++.|+|+|.+|.++|.++||+|+.|.|++.++.+.-+|.+.-.....+.-.+-.+.|++.+
T Consensus 3 viev~a~DRpGLL~~i~~~l~~~gl~I~~AkIsT~Gerv~DvFyV~d~~g~kl~d~~~~~~l~~~L 68 (72)
T cd04895 3 LVKVDSARKPGILLEAVQVLTDLDLCITKAYISSDGGWFMDVFHVTDQLGNKLTDDSLIAYIEKSL 68 (72)
T ss_pred EEEEEECCcCCHHHHHHHHHHHCCcEEEEEEEeecCCeEEEEEEEECCCCCCCCCHHHHHHHHHHh
Confidence 689999999999999999999999999999999999999999988755433444334444444443
No 8
>cd04896 ACT_ACR-like_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.81 E-value=0.00018 Score=61.34 Aligned_cols=67 Identities=15% Similarity=0.095 Sum_probs=54.9
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEee--cCCceEEEEEEEEeCCCcccC---HHHHHHHHHHHhh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSS--NLDGVLTLALKSTFRGAAIAP---AGIIEQALWKIAG 616 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS--~~dg~l~~ti~aKv~~~~~~s---~~~IkqAL~~vi~ 616 (618)
+|+|.|+.|+|+|.+|..+|..++|+|+.|.|+ +.+....-+|.....+.+..+ ...|+++|..++-
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 LLQIRCVDQKGLLYDILRTSKDCNIQISYGRFSSKVKGYREVDLFIVQSDGKKIMDPKKQAALCARLREEMV 73 (75)
T ss_pred EEEEEeCCcccHHHHHHHHHHHCCeEEEEEEEecCcccCEEEEEEEEeCCCCccCCHHHHHHHHHHHHHHhc
Confidence 589999999999999999999999999999999 999888888888554543222 4567777777653
No 9
>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=97.64 E-value=0.00049 Score=57.42 Aligned_cols=65 Identities=17% Similarity=0.102 Sum_probs=50.1
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCCCcccCH----HHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRGAAIAPA----GIIEQALWKI 614 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~~~~~s~----~~IkqAL~~v 614 (618)
.|.|.|+.|+|+|.+|..+|..++|+|+.|.+.+. ||.+.-+|...-........ ..|+++|.++
T Consensus 3 ~i~v~~~Dr~gLl~~i~~~l~~~~l~I~~A~i~T~~~~~v~D~F~v~~~~~~~~~~~~~~~~l~~~L~~~ 72 (73)
T cd04900 3 EVFIYTPDRPGLFARIAGALDQLGLNILDARIFTTRDGYALDTFVVLDPDGEPIGERERLARIREALEDA 72 (73)
T ss_pred EEEEEecCCCCHHHHHHHHHHHCCCCeEEeEEEEeCCCeEEEEEEEECCCCCCCChHHHHHHHHHHHHhh
Confidence 57899999999999999999999999999998765 79998888887433322322 3455555443
No 10
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=97.47 E-value=0.00016 Score=79.00 Aligned_cols=50 Identities=20% Similarity=0.486 Sum_probs=45.1
Q ss_pred ccchhhHHHHhH---HHhHHHhHhcCCCC----CCccccchHHHHHHHHHHHHHHHH
Q 007097 421 CEEHISSDKRTE---NEKFMVLRSMVPYI----SEVDKASILSDTIKYLKKLEARVE 470 (618)
Q Consensus 421 ~~~h~~~ER~RR---n~~f~~LrslvP~~----~k~dKaSIL~daI~Yik~L~~~v~ 470 (618)
..+|.+.||||| |+++..|..|||.. .|..|.+||.-+.+||++|++..+
T Consensus 234 rd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q 290 (411)
T KOG1318|consen 234 RDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ 290 (411)
T ss_pred HhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence 458999999999 99999999999986 355699999999999999998776
No 11
>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=97.35 E-value=0.0016 Score=54.65 Aligned_cols=67 Identities=18% Similarity=0.191 Sum_probs=54.7
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCC-Cccc-C---HHHHHHHHHHHhh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRG-AAIA-P---AGIIEQALWKIAG 616 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~-~~~~-s---~~~IkqAL~~vi~ 616 (618)
+|+|.++.|+|+|.+|..+|..+++.|+.+++++.++.+..+|.+.-.. .... . ...|+++|.+++.
T Consensus 2 ~~~v~~~Dr~gLl~~i~~~l~~~~lnI~~A~i~t~~~~~~d~f~V~d~~~~~~~~~~~~~~~i~~~L~~~l~ 73 (74)
T cd04925 2 AIELTGTDRPGLLSEVFAVLADLHCNVVEARAWTHNGRLACVIYVRDEETGAPIDDPIRLASIEDRLDNVLR 73 (74)
T ss_pred EEEEEECCCCCHHHHHHHHHHHCCCcEEEEEEEEECCEEEEEEEEEcCcCCCCCCCHHHHHHHHHHHHHHhc
Confidence 5899999999999999999999999999999999999999999886432 2212 2 4577777777653
No 12
>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=97.31 E-value=0.0023 Score=52.06 Aligned_cols=65 Identities=17% Similarity=0.129 Sum_probs=50.5
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCH---HHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPA---GIIEQALWKI 614 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~---~~IkqAL~~v 614 (618)
.|.|.|+.++|+|.+|+.+|.++++.|.++++.+.++.....|.+.-......+. ..|+++|.++
T Consensus 2 ~l~v~~~d~~gll~~i~~~l~~~~~~I~~~~~~~~~~~~~~~f~i~~~~~~~~~~~~~~~i~~~l~~~ 69 (70)
T cd04899 2 VLELTALDRPGLLADVTRVLAELGLNIHSAKIATLGERAEDVFYVTDADGQPLDPERQEALRAALGEA 69 (70)
T ss_pred EEEEEEcCCccHHHHHHHHHHHCCCeEEEEEEEecCCEEEEEEEEECCCCCcCCHHHHHHHHHHHHhh
Confidence 5889999999999999999999999999999998877888888887543322332 2355555443
No 13
>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=97.08 E-value=0.0054 Score=51.18 Aligned_cols=67 Identities=15% Similarity=0.070 Sum_probs=52.7
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHhhh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIAGK 617 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~~ 617 (618)
.|.|.++.++|+|.+|..+|.+++|.|+++.+.+.++....+|+..-........ +..++|++.|+.
T Consensus 3 ri~V~~~D~~Gll~~i~~~l~~~~lnI~sa~i~t~~~~~~d~f~v~~~~~~~~~~-~~~~~l~~~l~~ 69 (72)
T cd04926 3 RLELRTEDRVGLLSDVTRVFRENGLTVTRAEISTQGDMAVNVFYVTDANGNPVDP-KTIEAVRQEIGP 69 (72)
T ss_pred EEEEEECCccCHHHHHHHHHHHCCcEEEEEEEecCCCeEEEEEEEECCCCCcCCH-HHHHHHHHHhcc
Confidence 4778899999999999999999999999999998888878888886433333333 455567777664
No 14
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=97.01 E-value=0.00075 Score=66.15 Aligned_cols=60 Identities=22% Similarity=0.392 Sum_probs=51.5
Q ss_pred cchhhHHHHhH---HHhHHHhHhcCCCC-------CCccccchHHHHHHHHHHHHHHHHHHHhccccCCC
Q 007097 422 EEHISSDKRTE---NEKFMVLRSMVPYI-------SEVDKASILSDTIKYLKKLEARVEELESCMYSVDS 481 (618)
Q Consensus 422 ~~h~~~ER~RR---n~~f~~LrslvP~~-------~k~dKaSIL~daI~Yik~L~~~v~~Le~~~~~l~~ 481 (618)
..|.-+||+|| |.-+..|+.|||-. .|.-||.||..+|+||..|...+.+-+.+...|..
T Consensus 64 ~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k 133 (229)
T KOG1319|consen 64 RAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRK 133 (229)
T ss_pred HHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36999999999 99999999999964 36779999999999999999998888777765543
No 15
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. This CD includes a novel, yet uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=96.86 E-value=0.0095 Score=49.96 Aligned_cols=64 Identities=16% Similarity=0.088 Sum_probs=53.6
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEee-cCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSS-NLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS-~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.|-|.|+.|+|+|.+|..+|..++|.|+.|++- +.||..+.+|.+.-.+ .-....+.++|++.+
T Consensus 3 eI~V~~~Dr~gLFa~iag~L~~~~LnI~~A~i~tt~dG~~LDtF~V~d~~--~~~~~~~~~~~~~~~ 67 (68)
T cd04928 3 EITFAAGDKPKLLSQLSSLLGDLGLNIAEAHAFSTDDGLALDIFVVTGWK--RGETAALGHALQKEI 67 (68)
T ss_pred EEEEEECCCcchHHHHHHHHHHCCCceEEEEEEEcCCCeEEEEEEEecCC--ccchHHHHHHHHHhh
Confidence 467889999999999999999999999999986 5789998899887432 245678888888876
No 16
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=96.72 E-value=0.0096 Score=50.22 Aligned_cols=66 Identities=18% Similarity=0.215 Sum_probs=56.4
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
.++|.+.++.|||++..|..+|.++|..+..++.++.++.|.+.+.+.+.. .+.+.|+.+|.++..
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~~---~~~~~l~~~L~~l~~ 67 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIPE---DSLERLESALEELAE 67 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEESH---HHHHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeCc---ccHHHHHHHHHHHHH
Confidence 478999999999999999999999999999999999999999999988862 377899999988754
No 17
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=96.69 E-value=0.0027 Score=65.04 Aligned_cols=62 Identities=21% Similarity=0.329 Sum_probs=50.2
Q ss_pred CCcccccchhhHHHHhH---HHhHHHhHhcCCCC-CCc--cccchHHHHHHHHHHHHHHHHHHHhccc
Q 007097 416 ESDNFCEEHISSDKRTE---NEKFMVLRSMVPYI-SEV--DKASILSDTIKYLKKLEARVEELESCMY 477 (618)
Q Consensus 416 ~~~~~~~~h~~~ER~RR---n~~f~~LrslvP~~-~k~--dKaSIL~daI~Yik~L~~~v~~Le~~~~ 477 (618)
.+......|+.-||+|| .+.|..|+-+||.+ ... +.++||..|+.||+.|+.+....+..++
T Consensus 55 ~~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~e 122 (232)
T KOG2483|consen 55 SAASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQDIE 122 (232)
T ss_pred CCCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHHHH
Confidence 45566789999999999 89999999999986 222 3589999999999999987765554443
No 18
>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=96.56 E-value=0.016 Score=46.04 Aligned_cols=61 Identities=13% Similarity=0.188 Sum_probs=47.0
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCc---eEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDG---VLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg---~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.|.|.|+.|+|+|.+|..+|.++++.|.++.+....+ .+...+... ......+.++|+++.
T Consensus 2 ~v~v~~~drpG~l~~v~~~la~~~inI~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~l~~~~ 65 (66)
T PF01842_consen 2 RVRVIVPDRPGILADVTEILADHGINIDSISQSSDKDGVGIVFIVIVVD-----EEDLEKLLEELEALP 65 (66)
T ss_dssp EEEEEEETSTTHHHHHHHHHHHTTEEEEEEEEEEESSTTEEEEEEEEEE-----GHGHHHHHHHHHHHT
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCHHHeEEEecCCCceEEEEEEECC-----CCCHHHHHHHHHccc
Confidence 5889999999999999999999999999999877654 222222222 245678888888875
No 19
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=96.39 E-value=0.012 Score=49.62 Aligned_cols=51 Identities=20% Similarity=0.296 Sum_probs=44.1
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC--CceEEEEEEEEeCC
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL--DGVLTLALKSTFRG 598 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~--dg~l~~ti~aKv~~ 598 (618)
.+.|+|.|..|+|+|.+|..+|.+.++.+.++++... ++.+.+.|..++++
T Consensus 6 ~~~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d 58 (80)
T PF13291_consen 6 PVRLRIEAEDRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKD 58 (80)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESS
T ss_pred EEEEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECC
Confidence 4678999999999999999999999999999999884 78999999999875
No 20
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=96.34 E-value=0.0029 Score=74.37 Aligned_cols=48 Identities=25% Similarity=0.337 Sum_probs=44.0
Q ss_pred ccchhhHHHHhH---HHhHHHhHhcCCCC----CCccccchHHHHHHHHHHHHHH
Q 007097 421 CEEHISSDKRTE---NEKFMVLRSMVPYI----SEVDKASILSDTIKYLKKLEAR 468 (618)
Q Consensus 421 ~~~h~~~ER~RR---n~~f~~LrslvP~~----~k~dKaSIL~daI~Yik~L~~~ 468 (618)
..+|..+||||| |..+..|.+|||.. -|+||.+||..||.+||.++..
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 558999999999 89999999999975 5999999999999999999874
No 21
>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=96.30 E-value=0.045 Score=43.93 Aligned_cols=49 Identities=20% Similarity=0.186 Sum_probs=42.5
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCC
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRG 598 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~ 598 (618)
.|.|.|+.++|+|.+|+.+|.++++.|.++.+.+.++.....|++.-..
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~~~v~~~~ 50 (70)
T cd04873 2 VVEVYAPDRPGLLADITRVLADLGLNIHDARISTTGERALDVFYVTDSD 50 (70)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEECCC
Confidence 4788999999999999999999999999999888766777778777543
No 22
>PRK00194 hypothetical protein; Validated
Probab=96.26 E-value=0.025 Score=48.74 Aligned_cols=67 Identities=10% Similarity=0.223 Sum_probs=56.5
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.+.|.+.|+.++|++.+|.+.|.++|+.|...+..+..+.+...+.+.+... ..++..+++.|.++-
T Consensus 3 ~~~ltv~g~DrpGiva~vt~~la~~g~nI~~~~~~~~~~~~~~~~~v~~~~~-~~~~~~l~~~l~~l~ 69 (90)
T PRK00194 3 KAIITVIGKDKVGIIAGVSTVLAELNVNILDISQTIMDGYFTMIMLVDISES-KKDFAELKEELEELG 69 (90)
T ss_pred eEEEEEEcCCCCCHHHHHHHHHHHcCCCEEehhhHhhCCeeEEEEEEEecCC-CCCHHHHHHHHHHHH
Confidence 4689999999999999999999999999999988888888888777776541 356788988888764
No 23
>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=96.22 E-value=0.026 Score=48.72 Aligned_cols=67 Identities=12% Similarity=0.210 Sum_probs=56.8
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
+.|.+.|+.++|++.+|.+.|-++|+++..++..+..+.|...+.+.+.+. ..++.+++.+|..+..
T Consensus 2 ~vl~i~g~D~pGiva~vt~~la~~g~nI~~~~~~~~~~~f~~~~~v~~~~~-~~~~~~L~~~l~~l~~ 68 (88)
T cd04872 2 AVITVVGKDRVGIVAGVSTKLAELNVNILDISQTIMDGYFTMIMIVDISES-NLDFAELQEELEELGK 68 (88)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHcCCCEEechhHhhCCccEEEEEEEeCCC-CCCHHHHHHHHHHHHH
Confidence 578999999999999999999999999999998888888877777776531 3678899999887653
No 24
>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=96.17 E-value=0.031 Score=46.45 Aligned_cols=65 Identities=14% Similarity=0.166 Sum_probs=49.9
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeec--CCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSN--LDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~--~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
|.+.|+.|+|++.+|.+.|.++|+.+...+..+ ..+.|...+.+.+... ..+..+++++|..+..
T Consensus 2 i~v~g~D~~Giv~~it~~l~~~g~nI~~~~~~~~~~~~~f~~~~~~~~~~~-~~~~~~l~~~l~~l~~ 68 (74)
T cd04875 2 LTLSCPDRPGIVAAVSGFLAEHGGNIVESDQFVDPDSGRFFMRVEFELEGF-DLSREALEAAFAPVAA 68 (74)
T ss_pred EEEEcCCCCCHHHHHHHHHHHcCCCEEeeeeeecCCCCeEEEEEEEEeCCC-CCCHHHHHHHHHHHHH
Confidence 789999999999999999999999999998774 4455444444443321 2578999999987653
No 25
>PRK05007 PII uridylyl-transferase; Provisional
Probab=96.13 E-value=0.026 Score=68.15 Aligned_cols=71 Identities=7% Similarity=0.004 Sum_probs=58.4
Q ss_pred CCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccC---HHHHHHHHHHHhh
Q 007097 546 EMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAP---AGIIEQALWKIAG 616 (618)
Q Consensus 546 e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s---~~~IkqAL~~vi~ 616 (618)
+.-..|+|.|..|+|||.+|.++|.+++|+|++|.|+|.++.+.-+|.+.-.....++ ...|+++|..++.
T Consensus 806 ~~~TvlEV~a~DRpGLL~~I~~~l~~~~l~I~~AkI~T~gera~DvFyV~~~~g~~l~~~~~~~l~~~L~~~l~ 879 (884)
T PRK05007 806 DRRSYMELIALDQPGLLARVGKIFADLGISLHGARITTIGERVEDLFILATADRRALNEELQQELRQRLTEALN 879 (884)
T ss_pred CCeEEEEEEeCCchHHHHHHHHHHHHCCcEEEEEEEeccCceEEEEEEEEcCCCCcCCHHHHHHHHHHHHHHHh
Confidence 4567899999999999999999999999999999999999999888888654434455 3466677766653
No 26
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=96.07 E-value=0.0035 Score=65.58 Aligned_cols=47 Identities=34% Similarity=0.556 Sum_probs=39.8
Q ss_pred HHHHhH---HHhHHHhHhcCCC--CCCccccchHHHHHHHHHHHHHHHHHHH
Q 007097 427 SDKRTE---NEKFMVLRSMVPY--ISEVDKASILSDTIKYLKKLEARVEELE 473 (618)
Q Consensus 427 ~ER~RR---n~~f~~LrslvP~--~~k~dKaSIL~daI~Yik~L~~~v~~Le 473 (618)
-||||- |--|..||+|+|. .-|.-||+||..+.+||.+|+...-+|-
T Consensus 67 NERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~ll 118 (373)
T KOG0561|consen 67 NERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTELL 118 (373)
T ss_pred hHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccccc
Confidence 367666 9999999999996 4788999999999999999987665544
No 27
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=96.04 E-value=0.049 Score=46.05 Aligned_cols=65 Identities=17% Similarity=0.096 Sum_probs=55.4
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
+.|.+.|+.|+|+..+|-..|.++|..++.++....++.|..-+...+.. .+...++++|..+..
T Consensus 2 ~iltv~g~Dr~GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~~~~~---~~~~~l~~~l~~~~~ 66 (77)
T cd04893 2 LVISALGTDRPGILNELTRAVSESGCNILDSRMAILGTEFALTMLVEGSW---DAIAKLEAALPGLAR 66 (77)
T ss_pred EEEEEEeCCCChHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEEEecc---ccHHHHHHHHHHHHH
Confidence 57899999999999999999999999999999888888887777766542 477899988887654
No 28
>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=96.03 E-value=0.054 Score=45.38 Aligned_cols=64 Identities=6% Similarity=0.117 Sum_probs=53.7
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC------ceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD------GVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d------g~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
|.+.|+.++|++.+|-+.|.++|+++..++..+.+ +.+...+.+.+.. ..+...++.+|..+..
T Consensus 2 l~v~g~D~~Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p~--~~~~~~l~~~l~~l~~ 71 (81)
T cd04869 2 VEVVGNDRPGIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALPA--GTDLDALREELEELCD 71 (81)
T ss_pred EEEEeCCCCCHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecCC--CCCHHHHHHHHHHHHH
Confidence 78999999999999999999999999999887765 7777777777653 4678999999887653
No 29
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=96.01 E-value=0.004 Score=64.52 Aligned_cols=51 Identities=24% Similarity=0.317 Sum_probs=44.5
Q ss_pred ccchhhHHHHhH---HHhHHHhHhcCCC--------CCCccccchHHHHHHHHHHHHHHHHH
Q 007097 421 CEEHISSDKRTE---NEKFMVLRSMVPY--------ISEVDKASILSDTIKYLKKLEARVEE 471 (618)
Q Consensus 421 ~~~h~~~ER~RR---n~~f~~LrslvP~--------~~k~dKaSIL~daI~Yik~L~~~v~~ 471 (618)
..+|=+.||||| |+-+..|+.|||- .+|++||=||.-|++|+++|++....
T Consensus 33 k~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~ 94 (250)
T KOG4304|consen 33 KVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQA 94 (250)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence 456779999999 9999999999994 27889999999999999999976553
No 30
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=95.64 E-value=0.066 Score=64.82 Aligned_cols=79 Identities=15% Similarity=0.103 Sum_probs=62.6
Q ss_pred ceEEEEE--eCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCccc-C---HHHHHHHH
Q 007097 538 ADVKVSI--QEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIA-P---AGIIEQAL 611 (618)
Q Consensus 538 ~~VeVsi--~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~-s---~~~IkqAL 611 (618)
+.|.+.- .+.-..|+|.++.|+|+|.+|..+|..++|+|+.|.|+|.++.+.-+|.+.-...... + ...|+++|
T Consensus 802 ~~V~i~~~~~~~~T~i~V~a~DrpGLLa~I~~~L~~~~l~I~~AkI~T~g~~v~D~F~V~d~~g~~l~~~~~~~~l~~~L 881 (895)
T PRK00275 802 TQVTISNDAQRPVTVLEIIAPDRPGLLARIGRIFLEFDLSLQNAKIATLGERVEDVFFITDADNQPLSDPQLCSRLQDAI 881 (895)
T ss_pred CEEEEEECCCCCeEEEEEEECCCCCHHHHHHHHHHHCCCEEEEeEEEecCCEEEEEEEEECCCCCCCCCHHHHHHHHHHH
Confidence 4444432 2345689999999999999999999999999999999999999999999985433333 2 35688888
Q ss_pred HHHhh
Q 007097 612 WKIAG 616 (618)
Q Consensus 612 ~~vi~ 616 (618)
.+++.
T Consensus 882 ~~~L~ 886 (895)
T PRK00275 882 CEQLD 886 (895)
T ss_pred HHHHh
Confidence 88774
No 31
>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=95.49 E-value=0.081 Score=44.26 Aligned_cols=65 Identities=17% Similarity=0.188 Sum_probs=55.7
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
+|.+.++.|||+..+|-++|.++++++..+..++.++.|...+.+.+.. ..++.+++++|..+..
T Consensus 1 ~vtv~G~DrpGiv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~~v~~p~--~~~~~~l~~~l~~l~~ 65 (75)
T cd04870 1 LITVTGPDRPGLTSALTEVLAAHGVRILDVGQAVIHGRLSLGILVQIPD--SADSEALLKDLLFKAH 65 (75)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHCCCCEEecccEEEcCeeEEEEEEEcCC--CCCHHHHHHHHHHHHH
Confidence 3788999999999999999999999999998888888888888777653 3678999999987653
No 32
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=95.48 E-value=0.066 Score=64.49 Aligned_cols=70 Identities=10% Similarity=0.065 Sum_probs=57.4
Q ss_pred CCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccC---HHHHHHHHHHHh
Q 007097 546 EMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAP---AGIIEQALWKIA 615 (618)
Q Consensus 546 e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s---~~~IkqAL~~vi 615 (618)
+.-..|+|.++.|+|||.+|.++|.++||+|++|.|+|.++.+.-+|.+.-.....++ ...|+++|..++
T Consensus 781 ~~~T~iev~a~DrpGLL~~I~~~l~~~~l~i~~AkI~T~gerv~D~Fyv~~~~g~~l~~~~~~~l~~~L~~~l 853 (854)
T PRK01759 781 QEQTEMELFALDRAGLLAQVSQVFSELNLNLLNAKITTIGEKAEDFFILTNQQGQALDEEERKALKSRLLSNL 853 (854)
T ss_pred CCeEEEEEEeCCchHHHHHHHHHHHHCCCEEEEEEEcccCceEEEEEEEECCCCCcCChHHHHHHHHHHHHHh
Confidence 4457899999999999999999999999999999999999999888888754333343 256777776655
No 33
>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=95.42 E-value=0.07 Score=43.84 Aligned_cols=61 Identities=15% Similarity=0.079 Sum_probs=48.8
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
|+|.++.|+|+|.+|+.+|.+.+..|.++++... ++.....|..++.+. .-...|.++|++
T Consensus 2 l~v~~~d~~g~L~~i~~~i~~~~~nI~~v~~~~~~~~~~~~~~~vev~~~--~~l~~i~~~L~~ 63 (74)
T cd04887 2 LRLELPNRPGMLGRVTTAIGEAGGDIGAIDLVEQGRDYTVRDITVDAPSE--EHAETIVAAVRA 63 (74)
T ss_pred EEEEeCCCCchHHHHHHHHHHcCCcEEEEEEEEecCCEEEEEEEEEcCCH--HHHHHHHHHHhc
Confidence 7889999999999999999999999999998765 578778888887663 334456666554
No 34
>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=95.15 E-value=0.1 Score=41.65 Aligned_cols=61 Identities=20% Similarity=0.212 Sum_probs=45.4
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-----CceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-----DGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-----dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
|.|.++.++|.|.+|+++|.+.+++|.+++.... ++...+.|+..+.+ ......|.++|++
T Consensus 1 ~~v~~~d~~G~L~~i~~~i~~~~~nI~~i~~~~~~~~~~~~~~~~~i~v~~~~--~~~l~~l~~~l~~ 66 (73)
T cd04886 1 LRVELPDRPGQLAKLLAVIAEAGANIIEVSHDRAFKTLPLGEVEVELTLETRG--AEHIEEIIAALRE 66 (73)
T ss_pred CEEEeCCCCChHHHHHHHHHHcCCCEEEEEEEeccCCCCCceEEEEEEEEeCC--HHHHHHHHHHHHH
Confidence 4678899999999999999999999998887643 46666777777643 2334566666554
No 35
>PRK05092 PII uridylyl-transferase; Provisional
Probab=95.11 E-value=0.12 Score=62.99 Aligned_cols=79 Identities=18% Similarity=0.107 Sum_probs=62.6
Q ss_pred ceEEEEE--eCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCccc-C---HHHHHHHH
Q 007097 538 ADVKVSI--QEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIA-P---AGIIEQAL 611 (618)
Q Consensus 538 ~~VeVsi--~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~-s---~~~IkqAL 611 (618)
+.|.+.- .+.-..|+|.|+.|+|+|.+|..+|.++||+|.+|.++|.++....+|.+.-.....+ + ..+|+++|
T Consensus 831 ~~V~~~~~~s~~~t~i~I~~~DrpGLl~~I~~~l~~~gl~I~~A~I~T~~~~~~D~F~v~d~~g~~i~~~~~~~~l~~~L 910 (931)
T PRK05092 831 PRVTIDNEASNRFTVIEVNGRDRPGLLYDLTRALSDLNLNIASAHIATYGERAVDVFYVTDLFGLKITNEARQAAIRRAL 910 (931)
T ss_pred CEEEEeeCCCCCeEEEEEEECCcCcHHHHHHHHHHHCCceEEEEEEEEcCCEEEEEEEEeCCCCCcCCCHHHHHHHHHHH
Confidence 4555542 2345789999999999999999999999999999999999999988998875432222 2 46788888
Q ss_pred HHHhh
Q 007097 612 WKIAG 616 (618)
Q Consensus 612 ~~vi~ 616 (618)
.+++.
T Consensus 911 ~~~L~ 915 (931)
T PRK05092 911 LAALA 915 (931)
T ss_pred HHHhc
Confidence 88774
No 36
>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=95.11 E-value=0.096 Score=43.06 Aligned_cols=64 Identities=9% Similarity=0.128 Sum_probs=49.7
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
.|.|.++.++|+|.+|+.+|.+.++++..++.+.. ++...+.|...+.+. ......|.++|+++
T Consensus 2 ~l~i~~~d~~g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~~~v~v~~~-~~~l~~l~~~L~~i 66 (76)
T cd04888 2 TLSLLLEHRPGVLSKVLNTIAQVRGNVLTINQNIPIHGRANVTISIDTSTM-NGDIDELLEELREI 66 (76)
T ss_pred EEEEEecCCCchHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEEEEEEcCch-HHHHHHHHHHHhcC
Confidence 57889999999999999999999999999887653 477677777776553 13566777777654
No 37
>PRK04374 PII uridylyl-transferase; Provisional
Probab=94.86 E-value=0.16 Score=61.41 Aligned_cols=79 Identities=15% Similarity=0.100 Sum_probs=62.0
Q ss_pred ceEEEEE--eCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccC---HHHHHHHHH
Q 007097 538 ADVKVSI--QEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAP---AGIIEQALW 612 (618)
Q Consensus 538 ~~VeVsi--~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s---~~~IkqAL~ 612 (618)
+.|.+.- .+.-..|+|.++.|+|+|.+|..+|..++|+|+.|.|+|.++.+.-+|.+.-......+ ..+|+++|.
T Consensus 784 ~~V~~~~~~~~~~t~leI~a~DrpGLLa~Ia~~l~~~~l~I~~AkI~T~g~~a~D~F~V~d~~g~~~~~~~~~~l~~~L~ 863 (869)
T PRK04374 784 PRVEFSESAGGRRTRISLVAPDRPGLLADVAHVLRMQHLRVHDARIATFGERAEDQFQITDEHDRPLSESARQALRDALC 863 (869)
T ss_pred CeEEEeecCCCCeEEEEEEeCCcCcHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEECCCCCcCChHHHHHHHHHHH
Confidence 4455542 23457899999999999999999999999999999999999999999999754322232 367777777
Q ss_pred HHhh
Q 007097 613 KIAG 616 (618)
Q Consensus 613 ~vi~ 616 (618)
.++.
T Consensus 864 ~~l~ 867 (869)
T PRK04374 864 ACLD 867 (869)
T ss_pred HHhc
Confidence 7664
No 38
>PRK03381 PII uridylyl-transferase; Provisional
Probab=94.84 E-value=0.13 Score=61.29 Aligned_cols=70 Identities=20% Similarity=0.187 Sum_probs=59.8
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
+-+.|.|.|+.|+|++.+|..+|..+|+.|+.|++.+.||.+..+|.+.-........+.|+++|.+++.
T Consensus 598 ~~~~V~V~~~DrpGLfa~i~~vL~~~glnI~dA~i~t~dg~~ld~F~V~~~~~~~~~~~~l~~~L~~~L~ 667 (774)
T PRK03381 598 HMVEVTVVAPDRRGLLSKAAGVLALHRLRVRSASVRSHDGVAVLEFVVSPRFGSPPDAALLRQDLRRALD 667 (774)
T ss_pred CeEEEEEEecCCccHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEECCCCCcchHHHHHHHHHHHHc
Confidence 5578999999999999999999999999999999999999999999988543333446788999988764
No 39
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=94.66 E-value=0.056 Score=55.59 Aligned_cols=57 Identities=23% Similarity=0.379 Sum_probs=45.3
Q ss_pred chhhHHHHhH---HHhHHHhHhc-CCCC-CCccccchHHHHHHHHHHHHHHHHHHHhccccC
Q 007097 423 EHISSDKRTE---NEKFMVLRSM-VPYI-SEVDKASILSDTIKYLKKLEARVEELESCMYSV 479 (618)
Q Consensus 423 ~h~~~ER~RR---n~~f~~Lrsl-vP~~-~k~dKaSIL~daI~Yik~L~~~v~~Le~~~~~l 479 (618)
.-.+.||||= ||-|.+|+-= .++- ...-|+=||-.||+||..||.-++++.+....+
T Consensus 121 AATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~ 182 (284)
T KOG3960|consen 121 AATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEKGL 182 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccchhh
Confidence 3457888775 9999999643 3443 566899999999999999999999998766544
No 40
>PRK04435 hypothetical protein; Provisional
Probab=94.60 E-value=0.16 Score=48.53 Aligned_cols=70 Identities=10% Similarity=0.121 Sum_probs=56.7
Q ss_pred EeCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec-CCceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 544 IQEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN-LDGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 544 i~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~-~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
..|+.+.|.+.+..++|+|.+|+++|.+.++.|.+++.+. .+|...++|...+.+. .....+|-++|+++
T Consensus 65 ~~~r~vtL~i~l~Dr~GlLs~Il~~IA~~~aNIltI~q~i~~~g~a~vs~tVevs~~-~~~L~~Li~~L~~i 135 (147)
T PRK04435 65 VKGKIITLSLLLEDRSGTLSKVLNVIAEAGGNILTINQSIPLQGRANVTISIDTSSM-EGDIDELLEKLRNL 135 (147)
T ss_pred CCCcEEEEEEEEecCCCHHHHHHHHHHHcCCCeEEEEEEcCCCCEEEEEEEEEeCCh-HHHHHHHHHHHHcC
Confidence 4688899999999999999999999999999999988765 4688778888887653 23567777777653
No 41
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=94.56 E-value=0.17 Score=61.01 Aligned_cols=70 Identities=13% Similarity=0.025 Sum_probs=55.7
Q ss_pred CCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccC---HHHHHHHHHHHh
Q 007097 546 EMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAP---AGIIEQALWKIA 615 (618)
Q Consensus 546 e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s---~~~IkqAL~~vi 615 (618)
..-..|+|.|..|||+|.+|.++|.+++++|+++.++|.++.....|.+........+ ...|+++|..++
T Consensus 777 ~~~t~~~v~~~DrpGll~~i~~~l~~~~~~i~~a~i~t~~~~~~d~F~v~~~~g~~~~~~~~~~l~~~L~~~l 849 (850)
T TIGR01693 777 RKATIMEVRALDRPGLLARVGRTLEELGLSIQSAKITTFGEKAEDVFYVTDLFGLKLTDEEEQRLLEVLAASV 849 (850)
T ss_pred CCeEEEEEEECCccHHHHHHHHHHHHCCCeEEEEEEEecCccceeEEEEECCCCCCCCHHHHHHHHHHHHHHh
Confidence 3457899999999999999999999999999999999988887777777654333333 456666666554
No 42
>PRK03059 PII uridylyl-transferase; Provisional
Probab=94.52 E-value=0.19 Score=60.63 Aligned_cols=68 Identities=10% Similarity=0.126 Sum_probs=56.1
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccC---HHHHHHHHHHHhh
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAP---AGIIEQALWKIAG 616 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s---~~~IkqAL~~vi~ 616 (618)
+-..|+|.|+.|+|+|.+|..+|..++|+|+.|.|+|.++.+..+|.+. +....+ ...|+++|.++|.
T Consensus 785 ~~T~i~V~a~DrpGLLa~Ia~~L~~~~l~I~~AkI~T~~~~v~DvF~V~--~~~~~~~~~~~~l~~~L~~~L~ 855 (856)
T PRK03059 785 QYYILSVSANDRPGLLYAIARVLAEHRVSVHTAKINTLGERVEDTFLID--GSGLSDNRLQIQLETELLDALA 855 (856)
T ss_pred CEEEEEEEeCCcchHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEc--CCCCCCHHHHHHHHHHHHHHhc
Confidence 4568999999999999999999999999999999999999999999883 222222 4577777777663
No 43
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=94.47 E-value=0.039 Score=56.21 Aligned_cols=56 Identities=18% Similarity=0.310 Sum_probs=46.3
Q ss_pred ccchhhHHHHhH---HHhHHHhHhcCCCC----CCccccchHHHHHHHHHHHHHHHHHHHhcc
Q 007097 421 CEEHISSDKRTE---NEKFMVLRSMVPYI----SEVDKASILSDTIKYLKKLEARVEELESCM 476 (618)
Q Consensus 421 ~~~h~~~ER~RR---n~~f~~LrslvP~~----~k~dKaSIL~daI~Yik~L~~~v~~Le~~~ 476 (618)
...++..||+|= |..|..||.+||.. +|.-|+-+|.-||.||+.|+.-++.-+...
T Consensus 110 ~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~ 172 (228)
T KOG4029|consen 110 RQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL 172 (228)
T ss_pred hhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence 445566788887 99999999999953 567899999999999999998887666544
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=94.19 E-value=0.23 Score=59.83 Aligned_cols=71 Identities=13% Similarity=0.048 Sum_probs=58.0
Q ss_pred CCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEee-cCCceEEEEEEEEeCCCcccC----HHHHHHHHHHHhh
Q 007097 546 EMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSS-NLDGVLTLALKSTFRGAAIAP----AGIIEQALWKIAG 616 (618)
Q Consensus 546 e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS-~~dg~l~~ti~aKv~~~~~~s----~~~IkqAL~~vi~ 616 (618)
..-..|.|.++.|+|+|.+|..+|..++|+|+.|+|. +.+|....+|.++-....... .+.|+++|.+++.
T Consensus 666 ~~~t~i~V~~~DrpgLla~i~~~L~~~~l~I~~A~I~tt~~g~~lD~F~V~~~~g~~~~~~~~~~~i~~~L~~~L~ 741 (850)
T TIGR01693 666 SGGTEVFIYAPDQPGLFAKVAGALAMLSLSVHDAQVNTTKDGVALDTFVVQDLFGSPPAAERVFQELLQGLVDVLA 741 (850)
T ss_pred CCeEEEEEEeCCCCcHHHHHHHHHHHCCCeEEEEEEEEecCCEEEEEEEEECCCCCCCCcHHHHHHHHHHHHHHHc
Confidence 3456799999999999999999999999999999998 789999999999865433332 3457778877764
No 45
>PRK03381 PII uridylyl-transferase; Provisional
Probab=94.17 E-value=0.28 Score=58.58 Aligned_cols=67 Identities=13% Similarity=0.086 Sum_probs=54.4
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.-..|+|.|+.|+|+|.+|..+|..++|+|++|.++|.++....+|.+.-.+....+- + .++|++.+
T Consensus 706 ~~t~i~V~a~DrpGLla~Ia~~L~~~~lnI~~AkI~T~g~~a~D~F~V~d~~g~~~~~-~-~~~l~~~L 772 (774)
T PRK03381 706 DATVLEVRAADRPGLLARLARALERAGVDVRWARVATLGADVVDVFYVTGAAGGPLAD-A-RAAVEQAV 772 (774)
T ss_pred CeEEEEEEeCCchhHHHHHHHHHHHCCCeEEEEEEeecCCeEEEEEEEECCCCCcCch-H-HHHHHHHh
Confidence 3578999999999999999999999999999999999999999999998554333332 2 45555443
No 46
>PLN03217 transcription factor ATBS1; Provisional
Probab=94.11 E-value=0.047 Score=47.50 Aligned_cols=48 Identities=27% Similarity=0.529 Sum_probs=40.9
Q ss_pred HHhHHHhHhcCCCCC---Cccccc---hHHHHHHHHHHHHHHHHHHHhccccCC
Q 007097 433 NEKFMVLRSMVPYIS---EVDKAS---ILSDTIKYLKKLEARVEELESCMYSVD 480 (618)
Q Consensus 433 n~~f~~LrslvP~~~---k~dKaS---IL~daI~Yik~L~~~v~~Le~~~~~l~ 480 (618)
++....|+.|+|... .-+|+| +|.||-.||+.|++.|..|..+..++.
T Consensus 23 ~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL 76 (93)
T PLN03217 23 NDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELL 76 (93)
T ss_pred HHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 889999999999752 235666 799999999999999999999887654
No 47
>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=94.04 E-value=0.16 Score=42.36 Aligned_cols=59 Identities=14% Similarity=0.185 Sum_probs=43.1
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.|+|.|..|+|+|.+|+.+|.+.+..+.++++... +.+ .+..++.+. .....|-.+|++
T Consensus 2 ~l~I~~~dr~Gll~dI~~~i~~~~~nI~~~~~~~~-~~i--~l~i~v~~~--~~L~~li~~L~~ 60 (74)
T cd04877 2 RLEITCEDRLGITQEVLDLLVEHNIDLRGIEIDPK-GRI--YLNFPTIEF--EKLQTLMPEIRR 60 (74)
T ss_pred EEEEEEEccchHHHHHHHHHHHCCCceEEEEEecC-CeE--EEEeEecCH--HHHHHHHHHHhC
Confidence 47899999999999999999999999999998776 553 344444432 233445555443
No 48
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=93.85 E-value=0.34 Score=58.50 Aligned_cols=79 Identities=20% Similarity=0.161 Sum_probs=60.6
Q ss_pred ceEEEEE--eCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec-CCceEEEEEEEEeCCCcccCH---HHHHHHH
Q 007097 538 ADVKVSI--QEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN-LDGVLTLALKSTFRGAAIAPA---GIIEQAL 611 (618)
Q Consensus 538 ~~VeVsi--~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~-~dg~l~~ti~aKv~~~~~~s~---~~IkqAL 611 (618)
+-|.|.- ..+-..|.|.|+.|+|+|.+|..+|..++|+|+.|++.+ .+|....+|.+.-.+....+. ..|+++|
T Consensus 665 ~~V~i~~~~~~~~t~V~V~~~DrpGLfa~Ia~~L~~~~L~I~~A~I~T~~~g~alD~F~V~d~~g~~~~~~~~~~l~~~L 744 (854)
T PRK01759 665 LLVKISNRFSRGGTEIFIYCQDQANLFLKVVSTIGAKKLSIHDAQIITSQDGYVLDSFIVTELNGKLLEFDRRRQLEQAL 744 (854)
T ss_pred CEEEEEecCCCCeEEEEEEecCCccHHHHHHHHHHHCCCeEEEEEEEEccCCEEEEEEEEeCCCCCCCCHHHHHHHHHHH
Confidence 4455432 335568999999999999999999999999999999866 899999999987543333333 3577777
Q ss_pred HHHhh
Q 007097 612 WKIAG 616 (618)
Q Consensus 612 ~~vi~ 616 (618)
.+++.
T Consensus 745 ~~aL~ 749 (854)
T PRK01759 745 TKALN 749 (854)
T ss_pred HHHHc
Confidence 77664
No 49
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=93.58 E-value=0.045 Score=65.10 Aligned_cols=65 Identities=23% Similarity=0.374 Sum_probs=56.6
Q ss_pred CCcccccchhhHHHHhH---HHhHHHhHhcCCCC-CCccccchHHHHHHHHHHHHHHHHHHHhccccCC
Q 007097 416 ESDNFCEEHISSDKRTE---NEKFMVLRSMVPYI-SEVDKASILSDTIKYLKKLEARVEELESCMYSVD 480 (618)
Q Consensus 416 ~~~~~~~~h~~~ER~RR---n~~f~~LrslvP~~-~k~dKaSIL~daI~Yik~L~~~v~~Le~~~~~l~ 480 (618)
++.+-..+|++.|||=| |++...||-+||.. .|.-|.++|.-||+||++|+..-+.|......+.
T Consensus 272 ~G~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~l~ 340 (953)
T KOG2588|consen 272 PGGEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENASLR 340 (953)
T ss_pred CCCcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhhhhh
Confidence 34567889999999999 99999999999976 8899999999999999999988888777665544
No 50
>PRK05007 PII uridylyl-transferase; Provisional
Probab=93.34 E-value=0.49 Score=57.42 Aligned_cols=79 Identities=15% Similarity=0.115 Sum_probs=59.8
Q ss_pred ceEEEEE--eCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec-CCceEEEEEEEEeCCCcccCH---HHHHHHH
Q 007097 538 ADVKVSI--QEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN-LDGVLTLALKSTFRGAAIAPA---GIIEQAL 611 (618)
Q Consensus 538 ~~VeVsi--~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~-~dg~l~~ti~aKv~~~~~~s~---~~IkqAL 611 (618)
+-|.+.- ..+-..|.|.|+.++|+|.+|..+|..++|+|+.|+|.+ .||.++-+|.+.-......+. ..|+++|
T Consensus 689 p~V~i~~~~~~~~t~V~V~a~DrpGLfa~Ia~~La~~~L~I~~A~I~T~~dg~alD~F~V~d~~g~~~~~~~~~~I~~~L 768 (884)
T PRK05007 689 PLVLLSKQATRGGTEIFIWSPDRPYLFAAVCAELDRRNLSVHDAQIFTSRDGMAMDTFIVLEPDGSPLSQDRHQVIRKAL 768 (884)
T ss_pred CeEEEEecCCCCeEEEEEEecCCcCHHHHHHHHHHHCCCEEEEEEEEEcCCCeEEEEEEEECCCCCCCCHHHHHHHHHHH
Confidence 4444432 334678999999999999999999999999999999765 678998888887544333333 3478888
Q ss_pred HHHhh
Q 007097 612 WKIAG 616 (618)
Q Consensus 612 ~~vi~ 616 (618)
.+++.
T Consensus 769 ~~aL~ 773 (884)
T PRK05007 769 EQALT 773 (884)
T ss_pred HHHHc
Confidence 77764
No 51
>PRK03059 PII uridylyl-transferase; Provisional
Probab=93.14 E-value=0.47 Score=57.39 Aligned_cols=70 Identities=7% Similarity=0.062 Sum_probs=56.9
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEe-ecCCceEEEEEEEEeCCCccc---CHHHHHHHHHHHhh
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVS-SNLDGVLTLALKSTFRGAAIA---PAGIIEQALWKIAG 616 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqs-S~~dg~l~~ti~aKv~~~~~~---s~~~IkqAL~~vi~ 616 (618)
+...|-|.|+.++|+|.+|..+|..++|+|+.|++ ++.||+.+.+|.+.-.+.... -.+.|+++|.+++.
T Consensus 677 ~~~~v~i~~~d~~gLFa~i~g~l~~~~l~I~~A~i~t~~~g~~ld~f~V~~~~~~~~~~~~~~~i~~~l~~~l~ 750 (856)
T PRK03059 677 EGLQVMVYTPDQPDLFARICGYFDRAGFSILDARVHTTRHGYALDTFQVLDPEEDVHYRDIINLVEHELAERLA 750 (856)
T ss_pred CeEEEEEEecCCCcHHHHHHHHHHHCCCceeeeEEEEcCCCeEEEEEEEeCCCCCCChHHHHHHHHHHHHHHHc
Confidence 55789999999999999999999999999999998 678999999999875433211 25567777777764
No 52
>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=93.08 E-value=0.38 Score=36.78 Aligned_cols=61 Identities=25% Similarity=0.305 Sum_probs=44.4
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC-ceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD-GVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d-g~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
|++.|+.++|.+.+|++.|.++++++..+.....+ +...+.+..++.. ......+.++|++
T Consensus 1 l~v~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~ 62 (71)
T cd04876 1 IRVEAIDRPGLLADITTVIAEEKINILSVNTRTDDDGLATIRLTLEVRD--LEHLARIMRKLRQ 62 (71)
T ss_pred CEEEEeccCcHHHHHHHHHHhCCCCEEEEEeEECCCCEEEEEEEEEECC--HHHHHHHHHHHhC
Confidence 46889999999999999999999999998876554 5555556665543 2344555555553
No 53
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=93.00 E-value=0.45 Score=57.83 Aligned_cols=70 Identities=10% Similarity=0.010 Sum_probs=56.7
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEe-ecCCceEEEEEEEEeCCCccc-----CHHHHHHHHHHHhh
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVS-SNLDGVLTLALKSTFRGAAIA-----PAGIIEQALWKIAG 616 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqs-S~~dg~l~~ti~aKv~~~~~~-----s~~~IkqAL~~vi~ 616 (618)
+-..|.|.|+.++|+|++|..+|..+||+|+.|++ ++.||..+-+|.+.-.+.... -.+.|+++|.+++.
T Consensus 703 ~~t~V~V~~~DrpgLFa~i~g~L~~~~lnI~~A~I~Tt~dg~alD~F~V~d~~g~~~~~~~~r~~~i~~~L~~~L~ 778 (895)
T PRK00275 703 GGTQIFIYAPDQHDFFAATVAAMDQLNLNIHDARIITSSSQFTLDTYIVLDDDGEPIGDNPARIEQIREGLTEALR 778 (895)
T ss_pred CeEEEEEEeCCCCcHHHHHHHHHHHCCCeEEEEEEEEcCCCeEEEEEEEeCCCCCCccchHHHHHHHHHHHHHHHc
Confidence 45689999999999999999999999999999997 678899989999875443321 23457788887764
No 54
>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=92.29 E-value=0.56 Score=33.86 Aligned_cols=34 Identities=12% Similarity=0.275 Sum_probs=30.5
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecC
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL 584 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~ 584 (618)
|.+.|+.++|.+.+|+++|...++.+..+..+..
T Consensus 1 i~i~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~ 34 (60)
T cd02116 1 LTVSGPDRPGLLAKVLSVLAEAGINITSIEQRTS 34 (60)
T ss_pred CEEEecCCCchHHHHHHHHHHCCCcEEEEEeEEc
Confidence 5788999999999999999999999999887654
No 55
>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, and related domains. This CD includes the N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, from Archaeoglobus fulgidus and other related archeal ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=92.24 E-value=0.96 Score=35.97 Aligned_cols=60 Identities=10% Similarity=0.102 Sum_probs=44.0
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.|.+.|+.++|.|.+|+..|.+.++.+.++..... ++...+.+. +++. .....+.++|++
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~i~--~~~~--~~~~~~~~~L~~ 62 (72)
T cd04874 2 ALSIIAEDKPGVLRDLTGVIAEHGGNITYTQQFIEREGKARIYME--LEGV--GDIEELVEELRS 62 (72)
T ss_pred eEEEEeCCCCChHHHHHHHHHhCCCCEEEEEEeccCCCeEEEEEE--Eecc--ccHHHHHHHHhC
Confidence 47788999999999999999999999998887765 355444443 3332 355566666654
No 56
>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=91.97 E-value=1.2 Score=36.02 Aligned_cols=48 Identities=8% Similarity=0.134 Sum_probs=38.7
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-C-ceEEEEEEEEe
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-D-GVLTLALKSTF 596 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-d-g~l~~ti~aKv 596 (618)
++|+|.+..++|+|.+|+..|.+.++.+..++.... + +...+.+..++
T Consensus 1 ~yl~i~~~d~~g~l~~i~~~l~~~~i~I~~~~~~~~~~~~~~~~~i~~~~ 50 (79)
T cd04881 1 YYLRLTVKDKPGVLAKITGILAEHGISIESVIQKEADGGETAPVVIVTHE 50 (79)
T ss_pred CEEEEEeCCCCcHHHHHHHHHHHcCCCeEEEEEcccCCCCceeEEEEEcc
Confidence 368999999999999999999999999999887553 3 55555555554
No 57
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=91.79 E-value=0.61 Score=55.33 Aligned_cols=77 Identities=14% Similarity=0.116 Sum_probs=59.3
Q ss_pred ceEEEEE--eCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 538 ADVKVSI--QEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 538 ~~VeVsi--~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
|.|++.- ..+--.||+.+..|+|+|..|-.+|.+++|++++|.|+|.+..+--+|.+.......+ ..++++.|.+.+
T Consensus 779 p~v~i~~t~~~~~t~lEv~alDRpGLLa~v~~v~~dl~l~i~~AkItT~GErveD~F~vt~~~~~~l-~~~~~q~l~~~l 857 (867)
T COG2844 779 PRVTILPTASNDKTVLEVRALDRPGLLAALAGVFADLGLSLHSAKITTFGERVEDVFIVTDADGQAL-NAELRQSLLQRL 857 (867)
T ss_pred CceeeccccCCCceEEEEEeCCcccHHHHHHHHHHhcccceeeeeeccccccceeEEEEeccccccC-CHHHHHHHHHHH
Confidence 5666642 3455789999999999999999999999999999999999987766666665443334 356777776654
No 58
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=91.70 E-value=1 Score=47.75 Aligned_cols=68 Identities=12% Similarity=0.131 Sum_probs=57.0
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec--CCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN--LDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~--~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
.+.|.+.|+.|+|+..+|-++|.++|+.+...+.++ ..|.|...+.+.+.. ...+..+++++|..+-.
T Consensus 6 ~~vitv~G~DrpGIVa~Vt~~La~~g~NI~d~s~~~~~~~g~F~m~i~v~~~~-~~~~~~~L~~~L~~l~~ 75 (286)
T PRK06027 6 RYVLTLSCPDRPGIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEFEGDG-LIFNLETLRADFAALAE 75 (286)
T ss_pred eEEEEEECCCCCcHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEEEeCC-CCCCHHHHHHHHHHHHH
Confidence 577999999999999999999999999999999988 788877777777632 23568899999987653
No 59
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=91.69 E-value=0.9 Score=48.12 Aligned_cols=67 Identities=13% Similarity=0.166 Sum_probs=52.8
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec--CCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN--LDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~--~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
.+.|.|.|+.|+|+..+|-+.|-++++.+...+..+ .++.|...+.+... ...+..+|+++|..+..
T Consensus 7 ~~vitv~G~DrpGIVa~VT~~La~~~vNI~dls~~~~~~~~~F~m~~~~~~p--~~~~~~~L~~~L~~l~~ 75 (286)
T PRK13011 7 TFVLTLSCPSAAGIVAAVTGFLAEHGCYITELHSFDDRLSGRFFMRVEFHSE--EGLDEDALRAGFAPIAA 75 (286)
T ss_pred eEEEEEEeCCCCCHHHHHHHHHHhCCCCEEEeeeeecCCCCeEEEEEEEecC--CCCCHHHHHHHHHHHHH
Confidence 467899999999999999999999999999988863 45666554444433 34679999999987643
No 60
>PRK08577 hypothetical protein; Provisional
Probab=91.55 E-value=1.2 Score=41.68 Aligned_cols=67 Identities=16% Similarity=0.137 Sum_probs=52.7
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC--CceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL--DGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~--dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
+.+.|.|.+..++|+|.+|+++|.++++++.++++... ++++...+...+.+. .....++.+.|+++
T Consensus 55 ~~~~I~V~~~Dr~GvLa~I~~~l~~~~inI~~i~~~~~~~~~~~~i~l~vev~~~-~~~l~~l~~~L~~l 123 (136)
T PRK08577 55 KLVEIELVVEDRPGVLAKITGLLAEHGVDILATECEELKRGELAECVIIVDLSKS-DIDLEELEEELKKL 123 (136)
T ss_pred cEEEEEEEEcCCCCHHHHHHHHHHHCCCCEEEEEEEEecCCCEEEEEEEEEeCCc-hhhHHHHHHHHHcC
Confidence 47889999999999999999999999999998876653 566777777777653 14567777777653
No 61
>PRK05092 PII uridylyl-transferase; Provisional
Probab=91.49 E-value=1.1 Score=54.71 Aligned_cols=69 Identities=7% Similarity=-0.130 Sum_probs=56.1
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec-CCceEEEEEEEEeCCCccc----CHHHHHHHHHHHh
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN-LDGVLTLALKSTFRGAAIA----PAGIIEQALWKIA 615 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~-~dg~l~~ti~aKv~~~~~~----s~~~IkqAL~~vi 615 (618)
+...|.|.|+.|+|+|.+|..+|..+|++|+.+++.+ .||+...+|.+.-...... ....|.++|.+++
T Consensus 731 ~~t~v~I~~~Dr~GLfa~i~~~L~~~glnI~~A~I~t~~dg~alD~F~V~~~~g~~~~~~~~~~~l~~~L~~~l 804 (931)
T PRK05092 731 GVTEVTVLAADHPGLFSRIAGACAAAGANIVDARIFTTTDGRALDTFWIQDAFGRDEDEPRRLARLAKAIEDAL 804 (931)
T ss_pred CeEEEEEEeCCCCcHHHHHHHHHHHCCCcEEEEEEEEecCCeEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHH
Confidence 4678999999999999999999999999999999876 7898888888875432211 2566788887776
No 62
>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=91.35 E-value=1 Score=35.49 Aligned_cols=59 Identities=5% Similarity=0.066 Sum_probs=46.2
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC--ceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD--GVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d--g~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
|.|.++.++|+|.+|+..|.+.++.+.++++.... +...+.+..+ + .....|.+.|+++
T Consensus 2 l~v~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v~--~---~~~~~l~~~l~~~ 62 (71)
T cd04879 2 LLIVHKDVPGVIGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDVD--S---PVPEEVLEELKAL 62 (71)
T ss_pred EEEEecCCCCHHHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEcC--C---CCCHHHHHHHHcC
Confidence 67789999999999999999999999999887753 6766666652 2 1356777777654
No 63
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=91.14 E-value=1.2 Score=35.25 Aligned_cols=61 Identities=11% Similarity=0.044 Sum_probs=44.6
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC--CceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL--DGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~--dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.|.+.+..++|+|.+|+..|.+.++.+.++..... ++...+.+..++. . .....+..+|++
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~~l~~~l~~ 64 (72)
T cd04878 2 TLSVLVENEPGVLNRISGLFARRGFNIESLTVGPTEDPGISRITIVVEGD--D-DVIEQIVKQLNK 64 (72)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCCEEEEEeeecCCCCeEEEEEEEECC--H-HHHHHHHHHHhC
Confidence 46788899999999999999999999999887653 5666666666642 2 334455555543
No 64
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=90.18 E-value=1.7 Score=35.96 Aligned_cols=62 Identities=8% Similarity=0.032 Sum_probs=41.8
Q ss_pred EEEccCCCChHHHHHHHHHccCCeEEEEEeecCCc-eEEEEEEEEeCCC-cccCHHHHHHHHHH
Q 007097 552 EMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDG-VLTLALKSTFRGA-AIAPAGIIEQALWK 613 (618)
Q Consensus 552 eI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg-~l~~ti~aKv~~~-~~~s~~~IkqAL~~ 613 (618)
-+..+.++|.|.+|++.+.+.++.++++++....+ .-.+.+.+.+.+. .......+...|++
T Consensus 3 ~~~l~d~pG~L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~f~id~~~~~~~~~~~~~l~~l~~ 66 (75)
T cd04880 3 VFSLKNKPGALAKALKVFAERGINLTKIESRPSRKGLWEYEFFVDFEGHIDDPDVKEALEELKR 66 (75)
T ss_pred EEEeCCcCCHHHHHHHHHHHCCCCEEEEEeeecCCCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 34557899999999999999999999998876443 3345555555442 12334444455544
No 65
>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=89.99 E-value=1.9 Score=45.61 Aligned_cols=63 Identities=13% Similarity=0.152 Sum_probs=52.5
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC--ceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD--GVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d--g~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.|.+.|+.++|+...|-..|-++|+.++.++....+ |.|...+.+.+.+. ..+..+++++|..
T Consensus 2 ~itv~g~D~~GIVA~Vt~~La~~g~NI~d~sq~~~~~~~~F~mr~~v~~~~~-~~~~~~l~~~l~~ 66 (280)
T TIGR00655 2 ILLVSCPDQKGLVAAISTFIAKHGANIISNDQHTDPETGRFFMRVEFQLEGF-RLEESSLLAAFKS 66 (280)
T ss_pred EEEEECCCCCChHHHHHHHHHHCCCCEEeeeEEEcCCCCeEEEEEEEEeCCC-CCCHHHHHHHHHH
Confidence 478999999999999999999999999999988744 77776666665432 4688999999988
No 66
>PRK04374 PII uridylyl-transferase; Provisional
Probab=89.95 E-value=1.4 Score=53.54 Aligned_cols=70 Identities=7% Similarity=0.039 Sum_probs=56.3
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec-CCceEEEEEEEEeCCCc-ccCHHHHHHHHHHHhh
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN-LDGVLTLALKSTFRGAA-IAPAGIIEQALWKIAG 616 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~-~dg~l~~ti~aKv~~~~-~~s~~~IkqAL~~vi~ 616 (618)
+-..|-|.|+.++|+|++|..+|..+||.|+.|++.+ .||+.+.+|.+.-.... ......|+++|.+++.
T Consensus 689 ~~~~v~v~~~d~~gLFa~i~g~l~~~~lnI~~A~i~t~~~g~~ld~f~V~~~~~~~~~~~~~i~~~l~~~l~ 760 (869)
T PRK04374 689 DALEVFVYSPDRDGLFAAIVATLDRKGYGIHRARVLDAPHDAIFDVFEVLPQDTYADGDPQRLAAALRQVLA 760 (869)
T ss_pred CeEEEEEEeCCCccHHHHHHHHHHHCCCeEEEEEEEEcCCCEEEEEEEEeCCCCCChHHHHHHHHHHHHHHc
Confidence 4568899999999999999999999999999999875 78999999998744322 1234557777777664
No 67
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=89.89 E-value=1.5 Score=34.70 Aligned_cols=58 Identities=3% Similarity=0.014 Sum_probs=42.4
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeec--CCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSN--LDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~--~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
|.+.++.++|.|.+|...|.++++.+.++.... .++...+.|..+ +. ....+.++|++
T Consensus 2 l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~i~i~v~--~~---~~~~~i~~l~~ 61 (71)
T cd04903 2 LIVVHKDKPGAIAKVTSVLADHEINIAFMRVSRKEKGDQALMVIEVD--QP---IDEEVIEEIKK 61 (71)
T ss_pred EEEEeCCCCChHHHHHHHHHHcCcCeeeeEEEeccCCCeEEEEEEeC--CC---CCHHHHHHHHc
Confidence 678899999999999999999999999887665 235544444433 32 45566666664
No 68
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=89.83 E-value=3 Score=35.06 Aligned_cols=63 Identities=16% Similarity=0.232 Sum_probs=45.6
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
.|.+.-+.++|.|.+|++.+.++++.++++.+... ++.-.+.+++.+.+. .....++++|..+
T Consensus 3 sl~~~~~d~~G~L~~il~~f~~~~ini~~i~s~p~~~~~~~~~f~vd~~~~--~~~~~~~~~l~~l 66 (80)
T cd04905 3 SIVFTLPNKPGALYDVLGVFAERGINLTKIESRPSKGGLWEYVFFIDFEGH--IEDPNVAEALEEL 66 (80)
T ss_pred EEEEEECCCCCHHHHHHHHHHHCCcCEEEEEEEEcCCCCceEEEEEEEECC--CCCHHHHHHHHHH
Confidence 35556678999999999999999999999886654 345557777777653 3345666665543
No 69
>PRK07334 threonine dehydratase; Provisional
Probab=89.35 E-value=1.4 Score=48.57 Aligned_cols=65 Identities=18% Similarity=0.062 Sum_probs=50.8
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-----CceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-----DGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-----dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
-.+.|+|.+..|+|+|.+|+.+|.+.++.|.++++... ++...+.|..++++. .....|.+.|++
T Consensus 325 y~v~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~--~~L~~vi~~Lr~ 394 (403)
T PRK07334 325 RLARLRVDIRDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDA--AHLQEVIAALRA 394 (403)
T ss_pred CEEEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCH--HHHHHHHHHHHH
Confidence 35889999999999999999999999999999998754 678777777777653 233455555554
No 70
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=88.40 E-value=2.3 Score=45.17 Aligned_cols=68 Identities=13% Similarity=0.180 Sum_probs=49.4
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEee--cCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSS--NLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS--~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.+.|.|.|+.|+|+..+|-..|-+.|+.++.++-. +..+.|..-+..........+..+++++|..+.
T Consensus 9 ~~iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d~~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~l~ 78 (289)
T PRK13010 9 SYVLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDDDESGRFFMRVSFHAQSAEAASVDTFRQEFQPVA 78 (289)
T ss_pred CEEEEEECCCCCCcHHHHHHHHHHCCCCEEecccccccccCcEEEEEEEEcCCCCCCCHHHHHHHHHHHH
Confidence 36799999999999999999999999999998874 222333322222222223468899999998764
No 71
>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A ....
Probab=88.04 E-value=0.57 Score=42.07 Aligned_cols=51 Identities=27% Similarity=0.421 Sum_probs=35.9
Q ss_pred eeeeCCCcEEEeCCCCCCCchhhhHHHhhhcCCcEEEEeeeCC-----ceeEeecccccc
Q 007097 93 RALANSETIWLCNAQCADSKVFSRSLLAKSASIQTVICFPHLD-----GVIELGVTELVP 147 (618)
Q Consensus 93 ~a~~~g~~~Wl~~~~~~~~~~~~R~~~a~~agIQTvvciP~~~-----GVvELGSte~v~ 147 (618)
.++.+++++|+. .+...+.....+...||+.++|||+.. |||.|++.+.-.
T Consensus 72 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~s~l~vPl~~~~~~~Gvl~l~~~~~~~ 127 (148)
T PF13185_consen 72 GVLRTGEPIIIN----DDDSSFPPWELARHPGIRSILCVPLRSGGEVIGVLSLYSKEPNA 127 (148)
T ss_dssp HHHHHTS-EEES----CCCGGGSTTHHHCCTT-SEEEEEEEEETTEEEEEEEEEESSTT-
T ss_pred HHHhcCceEEEe----CccccccchhhhccccCCEEEEEEEeECCEEEEEEEEeeCCCCC
Confidence 338899999998 223333345777789999999999832 999999976633
No 72
>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=86.90 E-value=3.7 Score=33.72 Aligned_cols=62 Identities=11% Similarity=0.134 Sum_probs=43.3
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecC---CceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL---DGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~---dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
+.+.=+.+||.|.+|++.|.+.|..|+++..... .+.-...++...... -....|.++|.+.
T Consensus 2 l~v~~~d~pG~L~~l~~~i~~~g~nI~~i~~~~~~~~~~~~~~~v~v~~e~~--~~~~~i~~~L~~~ 66 (72)
T cd04884 2 FTFLLEDKPGTLKPVVDTLREFNARIISILTAFEDAPDGMRRVFIRVTPMDR--SKENELIEELKAK 66 (72)
T ss_pred EEEEecCCCccHHHHHHHHHHCCCeEEEEEeccccCCCCccEEEEEEEEecc--hHHHHHHHHHhCc
Confidence 4556689999999999999999999998876553 345455555544221 1266777777543
No 73
>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=85.79 E-value=4.7 Score=33.63 Aligned_cols=65 Identities=14% Similarity=0.120 Sum_probs=49.7
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCC-cccCHHHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGA-AIAPAGIIEQALWKI 614 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~-~~~s~~~IkqAL~~v 614 (618)
.|.|.||.+.|+-.+|...+-++||.|+...+|+.+.--.+.+-+.-+.. ..+--.-+|+.|..+
T Consensus 2 vitvnCPDktGLgcdlcr~il~fGl~i~rgd~sTDGkWCyiv~wVv~~~~~~~~rW~lLK~RL~~~ 67 (69)
T cd04894 2 VITINCPDKTGLGCDLCRIILEFGLNITRGDDSTDGRWCYIVFWVVPRPPSIKVRWDLLKNRLMSA 67 (69)
T ss_pred EEEEeCCCccCcccHHHHHHHHhceEEEecccccCCcEEEEEEEEecCCCCCcccHHHHHHHHHhc
Confidence 58999999999999999999999999999999998765555555553331 134556777777553
No 74
>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=85.59 E-value=5.3 Score=32.29 Aligned_cols=57 Identities=7% Similarity=0.067 Sum_probs=41.4
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.|.|..+.++|.|.+|+++|.+.++.|.++-+....+. ..++.++.+ .+.+.+.|.+
T Consensus 3 ri~v~v~d~pG~La~v~~~l~~~~inI~~i~~~~~~~~--~~~rl~~~~-----~~~~~~~L~~ 59 (66)
T cd04908 3 QLSVFLENKPGRLAAVTEILSEAGINIRALSIADTSEF--GILRLIVSD-----PDKAKEALKE 59 (66)
T ss_pred EEEEEEcCCCChHHHHHHHHHHCCCCEEEEEEEecCCC--CEEEEEECC-----HHHHHHHHHH
Confidence 46778899999999999999999999998876655442 455555532 3455555543
No 75
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=85.17 E-value=3.8 Score=32.20 Aligned_cols=56 Identities=11% Similarity=0.130 Sum_probs=40.0
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC--ceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD--GVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d--g~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
|.+.=+.++|.|.+|++.|.+.++.|.++..+... +...+.|+.. + ...+.+.|.+
T Consensus 2 i~v~~~d~pG~L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~ve--~-----~~~~~~~L~~ 59 (65)
T cd04882 2 LAVEVPDKPGGLHEILQILSEEGINIEYMYAFVEKKGGKALLIFRTE--D-----IEKAIEVLQE 59 (65)
T ss_pred EEEEeCCCCcHHHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEeC--C-----HHHHHHHHHH
Confidence 56667899999999999999999999877654433 4444444443 2 5667766654
No 76
>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=84.31 E-value=4.6 Score=32.57 Aligned_cols=34 Identities=3% Similarity=0.136 Sum_probs=29.8
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeec
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN 583 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~ 583 (618)
.+.+.++.++|.|.+|+..|.+.++.+..+....
T Consensus 3 ~~~v~~~d~~G~L~~l~~~l~~~~i~i~~~~~~~ 36 (69)
T cd04909 3 DLYVDVPDEPGVIAEVTQILGDAGISIKNIEILE 36 (69)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCceeeEeEE
Confidence 4678899999999999999999999998776544
No 77
>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=82.51 E-value=9.8 Score=31.82 Aligned_cols=59 Identities=7% Similarity=-0.006 Sum_probs=41.7
Q ss_pred EEEccCCCChHHHHHHHHHccCCeEEEEEeecCC-ceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 552 EMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD-GVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 552 eI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d-g~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
-+..+.++|-|.+|+..+...++.+++..+--.. ...-+.+...+.+. ...++++|..+
T Consensus 4 ~f~l~~~pG~L~~vL~~f~~~~iNlt~IeSRP~~~~~~~y~Ffvd~~~~----~~~~~~~l~~L 63 (74)
T cd04904 4 IFSLKEEVGALARALKLFEEFGVNLTHIESRPSRRNGSEYEFFVDCEVD----RGDLDQLISSL 63 (74)
T ss_pred EEEeCCCCcHHHHHHHHHHHCCCcEEEEECCCCCCCCceEEEEEEEEcC----hHHHHHHHHHH
Confidence 3445789999999999999999999999987544 23345555555542 23466666554
No 78
>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=82.10 E-value=10 Score=30.64 Aligned_cols=59 Identities=22% Similarity=0.219 Sum_probs=43.3
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeec--CCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN--LDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~--~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.|.+..+.++|.|.+|++.|.+.++.+.++.... .++.-.+.|+....+ ..+++++|.+
T Consensus 3 ~~~v~~~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~-----~~~~~~~L~~ 63 (72)
T cd04883 3 QIEVRVPDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMN-----PRPIIEDLRR 63 (72)
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCC-----HHHHHHHHHH
Confidence 4677889999999999999999999998776443 235555666655422 3477777764
No 79
>COG3830 ACT domain-containing protein [Signal transduction mechanisms]
Probab=81.25 E-value=3.4 Score=36.69 Aligned_cols=66 Identities=11% Similarity=0.178 Sum_probs=55.2
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
++|.|.-..|+|+-..|..+|-++++.++.+.=+..+|+|..-+.+..... ..+...++..|....
T Consensus 4 avITV~GkDr~GIva~is~vLAe~~vNIldisQtvm~~~ftm~~lV~~~~~-~~d~~~lr~~l~~~~ 69 (90)
T COG3830 4 AVITVIGKDRVGIVAAVSRVLAEHGVNILDISQTVMDGFFTMIMLVDISKE-VVDFAALRDELAAEG 69 (90)
T ss_pred EEEEEEcCCCCchhHHHHHHHHHcCCcEEEHHHHHHhhhceeeeEEcCChH-hccHHHHHHHHHHHH
Confidence 678888899999999999999999999998888889999988888877543 467777777766543
No 80
>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=81.18 E-value=1.9 Score=34.60 Aligned_cols=57 Identities=7% Similarity=-0.060 Sum_probs=41.2
Q ss_pred EEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 552 EMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 552 eI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
-+.+..++|+|.+|+..|.+.++.+........++.....+...+. ...++-+.|++
T Consensus 3 ~~~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~a~~~~~~~~~-----~l~~li~~l~~ 59 (69)
T cd04901 3 LHIHKNVPGVLGQINTILAEHNINIAAQYLQTRGEIGYVVIDIDSE-----VSEELLEALRA 59 (69)
T ss_pred EEEecCCCcHHHHHHHHHHHcCCCHHHHhccCCCCEEEEEEEcCCC-----CCHHHHHHHHc
Confidence 4577899999999999999999999777665555666555554443 34566666654
No 81
>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=81.02 E-value=5 Score=31.13 Aligned_cols=44 Identities=7% Similarity=0.070 Sum_probs=34.6
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC-ceEEEEEEE
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD-GVLTLALKS 594 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d-g~l~~ti~a 594 (618)
|.+.++.++|.|.+|.++|.+.++.|.++.....+ +.-.+.|..
T Consensus 1 ~~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v 45 (56)
T cd04889 1 LSVFVENKPGRLAEVTEILAEAGINIKAISIAETRGEFGILRLIF 45 (56)
T ss_pred CEEEeCCCCChHHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEE
Confidence 45788999999999999999999999988876654 444444443
No 82
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=80.40 E-value=2.1 Score=48.76 Aligned_cols=76 Identities=14% Similarity=0.210 Sum_probs=52.7
Q ss_pred eecCCCCccceeeeCCCcEEEeCCCCCCCchhhhHHHhhhcCCcEEEEeeeCC-----ceeEeecccc----ccCChhHH
Q 007097 83 VFSSGQGLPGRALANSETIWLCNAQCADSKVFSRSLLAKSASIQTVICFPHLD-----GVIELGVTEL----VPEDPSLL 153 (618)
Q Consensus 83 ~F~~G~GlpG~a~~~g~~~Wl~~~~~~~~~~~~R~~~a~~agIQTvvciP~~~-----GVvELGSte~----v~Ed~~lv 153 (618)
.|..|.|+.|+++.+++|+++.+...-. ....+.. ....|++.++|||+.. |||.+.+... -.+|.+|+
T Consensus 68 ~~~~~~gi~g~v~~~~~pvii~Dv~~d~-~~~~~~~-~~~~~~~S~l~VPL~~~g~viGvL~v~s~~~~~~ft~~d~~lL 145 (534)
T TIGR01817 68 RYRVGEGAIGQIVATGNSLVVPDVAAEP-LFLDRLS-LYDPGPVPFIGVPIKADSETIGVLAADRDFRSRERLEEEVRFL 145 (534)
T ss_pred cccCCccHHHHHHhcCCeEEecccccCc-hhhhccc-cccCCcceEEEEEEcCCCEEEEEEEEEeccccccccHHHHHHH
Confidence 5678999999999999999999875322 1111211 3356899999999943 8999998753 34555566
Q ss_pred HHHHHHh
Q 007097 154 QHIKASL 160 (618)
Q Consensus 154 ~~ik~~F 160 (618)
..+-...
T Consensus 146 ~~lA~~i 152 (534)
T TIGR01817 146 EMVANLI 152 (534)
T ss_pred HHHHHHH
Confidence 5554443
No 83
>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=80.17 E-value=13 Score=32.80 Aligned_cols=50 Identities=4% Similarity=-0.015 Sum_probs=36.6
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC-ceEEEEEEEEeCC
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD-GVLTLALKSTFRG 598 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d-g~l~~ti~aKv~~ 598 (618)
..|-+..+.++|.|.+|+..+...++.++++.+--.- ...-+.|-+.+.+
T Consensus 15 tslif~l~~~pGsL~~vL~~Fa~~~INLt~IeSRP~~~~~~~Y~FfVDieg 65 (90)
T cd04931 15 ISLIFSLKEEVGALAKVLRLFEEKDINLTHIESRPSRLNKDEYEFFINLDK 65 (90)
T ss_pred EEEEEEcCCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEc
Confidence 3455566889999999999999999999999986532 2233455555544
No 84
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=79.88 E-value=5.6 Score=47.56 Aligned_cols=64 Identities=16% Similarity=0.208 Sum_probs=51.2
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC--CceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL--DGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~--dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.+.|.|.+..|+|+|.+|..+|.+.++.|.++++... +++....|..+|.+. .....|-.+|++
T Consensus 666 ~v~I~I~~~Dr~GlL~dIt~~is~~~~nI~~v~~~~~~~~~~~~~~~~ieV~~~--~~L~~l~~~L~~ 731 (743)
T PRK10872 666 SLVVRVTANDRSGLLRDITTILANEKVNVLGVASRSDTKQQLATIDMTIEIYNL--QVLGRVLGKLNQ 731 (743)
T ss_pred EEEEEEEEcCCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCCEEEEEEEEEECCH--HHHHHHHHHHhc
Confidence 4678999999999999999999999999999998764 688888888888763 334455555554
No 85
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=78.34 E-value=1.7 Score=50.73 Aligned_cols=38 Identities=39% Similarity=0.609 Sum_probs=32.5
Q ss_pred HHHHhH---HHhHHHhHhcCCC----CCCccccchHHHHHHHHHH
Q 007097 427 SDKRTE---NEKFMVLRSMVPY----ISEVDKASILSDTIKYLKK 464 (618)
Q Consensus 427 ~ER~RR---n~~f~~LrslvP~----~~k~dKaSIL~daI~Yik~ 464 (618)
+-|-|| |+-|+.|.-+||- .+-.|||||+--||.|++-
T Consensus 53 AARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 53 AARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 457777 9999999999994 2667999999999999874
No 86
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=78.05 E-value=6.1 Score=39.56 Aligned_cols=65 Identities=14% Similarity=0.014 Sum_probs=54.0
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
..+.|.+.++.|+|+...|-++|.++|..+...+.+..+|.|...+.+... ...+..++.+|..+
T Consensus 7 ~~lviTviG~DrpGIVa~vs~~l~~~g~NI~ds~~t~lgg~Fa~i~lvs~~---~~~~~~le~~L~~l 71 (190)
T PRK11589 7 HYLVITALGADRPGIVNTITRHVSSCGCNIEDSRLAMLGEEFTFIMLLSGS---WNAITLIESTLPLK 71 (190)
T ss_pred cEEEEEEEcCCCChHHHHHHHHHHHcCCCeeehhhHhhCCceEEEEEEeCC---hhHHHHHHHHHHhh
Confidence 457788999999999999999999999999999999999988777777432 23677888877654
No 87
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=77.09 E-value=8.4 Score=30.96 Aligned_cols=59 Identities=8% Similarity=0.092 Sum_probs=43.2
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeec--CCceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSN--LDGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~--~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
+-+..+.++|.+.+|.+.|.+.++.+.++.... .++...+.++.+. ..+.++.++|.+.
T Consensus 2 l~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~i~v~~-----~~~~~~~~~l~~~ 62 (73)
T cd04902 2 LVVRNTDRPGVIGKVGTILGEAGINIAGMQVGRDEPGGEALMVLSVDE-----PVPDEVLEELRAL 62 (73)
T ss_pred EEEEeCCCCCHHHHHHHHHHHcCcChhheEeeccCCCCEEEEEEEeCC-----CCCHHHHHHHHcC
Confidence 345789999999999999999999998887655 3466666666543 1245677766643
No 88
>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=77.04 E-value=7 Score=46.36 Aligned_cols=63 Identities=16% Similarity=0.108 Sum_probs=50.4
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCCCcccCHHHHHHHHH
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRGAAIAPAGIIEQALW 612 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~~~~~s~~~IkqAL~ 612 (618)
.+.|+|.+..|+|+|.+|+.+|.+.+..|.++++... ++++.+.|..+|++. .-...|-.+|+
T Consensus 610 ~v~I~I~~~dr~GlLadI~~~ia~~~~nI~~v~~~~~~~~~~~~~~~ieV~~~--~~L~~ii~~L~ 673 (683)
T TIGR00691 610 IVDINIEAVDRKGVLSDLTTAISENDSNIVSISTKTYGKREAILNITVEIKNY--KHLLKIMLKIK 673 (683)
T ss_pred EEEEEEEEecCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCEEEEEEEEEECCH--HHHHHHHHHHh
Confidence 4689999999999999999999999999999998776 588888888888763 23334444444
No 89
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=76.93 E-value=8.6 Score=31.47 Aligned_cols=56 Identities=11% Similarity=0.041 Sum_probs=42.9
Q ss_pred CCCChHHHHHHHHHccCCeEEEEEeec--CCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 557 SREYILLDIMDAINNLHLDAYSVVSSN--LDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 557 ~r~glL~~Im~aLe~L~LdV~svqsS~--~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.++|.|.+|+..+..-|..+.+.+++. .+++..++|.++-. .-.++.|.+.|.|++
T Consensus 1 n~~GvL~Ri~~vf~rRg~nI~sl~v~~~~~~~~~riti~v~~~---~~~i~~l~~Ql~Kli 58 (63)
T PF13710_consen 1 NQPGVLNRITGVFRRRGFNIESLSVGPTEDPGISRITIVVSGD---DREIEQLVKQLEKLI 58 (63)
T ss_dssp SSTTHHHHHHHHHHTTT-EECEEEEEE-SSTTEEEEEEEEES----CCHHHHHHHHHHCST
T ss_pred CCcHHHHHHHHHHhcCCeEEeeEEeeecCCCCEEEEEEEEeeC---chhHHHHHHHHhccC
Confidence 368999999999999988888877776 77888888877742 245677777777665
No 90
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=76.85 E-value=7.1 Score=46.44 Aligned_cols=64 Identities=17% Similarity=0.107 Sum_probs=50.6
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC-ceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD-GVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d-g~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.+.|+|.+..|+|+|.+|+.+|.+.++.|.++++...+ +++.+.|..+|.+. .....|-.+|++
T Consensus 626 ~v~i~I~~~dr~GlL~dI~~~i~~~~~nI~~v~~~~~~~~~~~~~~~ieV~~~--~~L~~i~~~Lr~ 690 (702)
T PRK11092 626 IAEIKVEMFNHQGALANLTAAINTTGSNIQSLNTEEKDGRVYSAFIRLTARDR--VHLANIMRKIRV 690 (702)
T ss_pred EEEEEEEEeCCCCHHHHHHHHHHHCCCCeEEEEEEEcCCCEEEEEEEEEECCH--HHHHHHHHHHhC
Confidence 46899999999999999999999999999999987664 67788888888763 233445555543
No 91
>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=76.39 E-value=19 Score=28.38 Aligned_cols=59 Identities=5% Similarity=0.094 Sum_probs=38.1
Q ss_pred EEEEEcc---CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRCP---SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C~---~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
+|.|.+. ..++++.+|+++|.+.++.|..+..+..+..+.+++.. .......++|++.+
T Consensus 3 ~isvvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~~~~s~~~is~~v~~-------~~~~~~~~~lh~~~ 64 (66)
T cd04922 3 ILALVGDGMAGTPGVAATFFSALAKANVNIRAIAQGSSERNISAVIDE-------DDATKALRAVHERF 64 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEEeH-------HHHHHHHHHHHHHH
Confidence 4555553 56899999999999999999877554444444444432 12345566666544
No 92
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=74.58 E-value=2.8 Score=47.72 Aligned_cols=40 Identities=33% Similarity=0.580 Sum_probs=33.4
Q ss_pred hhHHHHhH--HHhHHHhHhcCCC----CCCccccchHHHHHHHHHH
Q 007097 425 ISSDKRTE--NEKFMVLRSMVPY----ISEVDKASILSDTIKYLKK 464 (618)
Q Consensus 425 ~~~ER~RR--n~~f~~LrslvP~----~~k~dKaSIL~daI~Yik~ 464 (618)
+.+-|.|- |--+..|.||||+ ++|.||.|||.=++.|++-
T Consensus 31 NPSKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 31 NPSKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLRV 76 (712)
T ss_pred CcchhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHHH
Confidence 34555544 9999999999997 5999999999999999863
No 93
>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=74.10 E-value=22 Score=27.91 Aligned_cols=59 Identities=8% Similarity=0.059 Sum_probs=38.0
Q ss_pred EEEEEc---cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRC---PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C---~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
+|.|.+ +.+++++.+|+++|.+.++.|.-+..+..+..+.+++.- .......++|++.+
T Consensus 3 lisivg~~~~~~~~~~~~i~~~L~~~~i~v~~i~~~~s~~~isf~v~~-------~d~~~~~~~lh~~~ 64 (66)
T cd04916 3 LIMVVGEGMKNTVGVSARATAALAKAGINIRMINQGSSEISIMIGVHN-------EDADKAVKAIYEEF 64 (66)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEEeH-------HHHHHHHHHHHHHH
Confidence 344444 356899999999999999999777654434333333332 23355667777654
No 94
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=73.96 E-value=13 Score=36.22 Aligned_cols=63 Identities=8% Similarity=0.038 Sum_probs=50.2
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC--CceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL--DGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~--dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.|.|.-+.++|.|.+|..++...|+.+.+..+... ++...++|++.- + ...++.|...|.|++
T Consensus 3 ~isI~ven~pGvL~rI~~lf~rrg~NI~Sl~v~~t~~~~~sriti~V~~-d--~~~i~qi~kQl~Kli 67 (157)
T TIGR00119 3 ILSVLVENEPGVLSRVAGLFTRRGFNIESLTVGPTEDPDLSRMTIVVVG-D--DKVLEQITKQLNKLV 67 (157)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCceEEEEEEeecCCCCEEEEEEEEEC-C--HHHHHHHHHHHhcCc
Confidence 46778899999999999999999999998887654 478888888874 2 246777777777765
No 95
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=73.58 E-value=11 Score=33.11 Aligned_cols=64 Identities=13% Similarity=0.207 Sum_probs=46.8
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEe--ecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVS--SNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqs--S~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.|.+.-..++|+|.+|-.++...|..+.+..+ +...|+-.++|.+...+. ..++.|.+-|.|.+
T Consensus 4 ~isvlVeN~~GVL~Rit~lFsRRg~NI~SLtvg~Te~~~iSRmtivv~~~d~--~~ieqI~kQL~Kli 69 (84)
T PRK13562 4 ILKLQVADQVSTLNRITSAFVRLQYNIDTLHVTHSEQPGISNMEIQVDIQDD--TSLHILIKKLKQQI 69 (84)
T ss_pred EEEEEEECCCCHHHHHHHHHhccCcCeeeEEecccCCCCceEEEEEEeCCCH--HHHHHHHHHHhCCc
Confidence 46777889999999999999876665555444 456688888998875432 45667777777654
No 96
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=73.51 E-value=19 Score=30.94 Aligned_cols=62 Identities=11% Similarity=0.210 Sum_probs=48.2
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeec--CCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN--LDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~--~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.|.+.-..+||.|.+|+..++.-|..|.+.++.. ..++..++|.+. + ...++.|..-|.|++
T Consensus 5 ~lsi~v~n~pGVL~Ri~~lf~rRGfnI~sl~v~~t~~~~~sriti~v~--~--~~~i~ql~kQL~KL~ 68 (76)
T PRK11152 5 QLTIKARFRPEVLERVLRVVRHRGFQVCSMNMTQNTDAQNINIELTVA--S--ERPIDLLSSQLNKLV 68 (76)
T ss_pred EEEEEEECCccHHHHHHHHHhcCCeeeeeEEeeecCCCCEEEEEEEEC--C--CchHHHHHHHHhcCc
Confidence 5677778999999999999998888887776655 557777787774 3 356778888887765
No 97
>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=73.47 E-value=25 Score=27.78 Aligned_cols=53 Identities=4% Similarity=-0.049 Sum_probs=35.1
Q ss_pred cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 556 PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 556 ~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
+.++|.+.+|+++|.+.+++|.-+..+..+..+.+++..+ ....+.++|++.+
T Consensus 12 ~~~~~~~~~if~~L~~~~I~v~~i~q~~s~~~isf~v~~~-------~~~~a~~~lh~~~ 64 (66)
T cd04919 12 KNMIGIAGRMFTTLADHRINIEMISQGASEINISCVIDEK-------DAVKALNIIHTNL 64 (66)
T ss_pred CCCcCHHHHHHHHHHHCCCCEEEEEecCccceEEEEEeHH-------HHHHHHHHHHHHH
Confidence 3578999999999999999998776544454444444431 2344555566543
No 98
>cd04892 ACT_AK-like_2 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the second of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). The exception in this group, is the inclusion of the first ACT domain of the bifunctional aspartokinase - homoserine dehydrogenase-like enzyme group (ACT_AKi-HSDH-ThrA-like_1) which includes the monofunctional, threonine-sensitive, aspartokinase found in Methanococcus jannaschii and other related archaeal species. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. AK is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of AK with different repressors an
Probab=72.60 E-value=22 Score=27.07 Aligned_cols=34 Identities=9% Similarity=0.162 Sum_probs=27.3
Q ss_pred EEEEEcc---CCCChHHHHHHHHHccCCeEEEEEeec
Q 007097 550 LIEMRCP---SREYILLDIMDAINNLHLDAYSVVSSN 583 (618)
Q Consensus 550 lIeI~C~---~r~glL~~Im~aLe~L~LdV~svqsS~ 583 (618)
+|.|.+. .+++.+.+|+++|.+.++.+.....+.
T Consensus 2 ~i~i~g~~~~~~~~~~~~i~~~l~~~~i~v~~i~~~~ 38 (65)
T cd04892 2 LVSVVGAGMRGTPGVAARIFSALAEAGINIIMISQGS 38 (65)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCcEEEEEcCC
Confidence 4666654 568999999999999999998776554
No 99
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=72.24 E-value=5.5 Score=47.71 Aligned_cols=63 Identities=22% Similarity=0.242 Sum_probs=45.4
Q ss_pred eeecCCCCccceeeeCCCcEEEeCCCCCCCchhhhHHHhhhcCCcEEEEeeeCC-----ceeEeeccccc
Q 007097 82 FVFSSGQGLPGRALANSETIWLCNAQCADSKVFSRSLLAKSASIQTVICFPHLD-----GVIELGVTELV 146 (618)
Q Consensus 82 ~~F~~G~GlpG~a~~~g~~~Wl~~~~~~~~~~~~R~~~a~~agIQTvvciP~~~-----GVvELGSte~v 146 (618)
..|+.|+|+.|+++.+++++++.+...-+ .|.....+...++..++|||+.. |||.+.+...-
T Consensus 66 ~~l~~geGi~G~Va~tg~pV~V~Dv~~dp--rf~~~~~~~~~~~~S~L~VPL~~~geVIGVL~v~~~~~~ 133 (748)
T PRK11061 66 VTLAFDEGIVGLVGRLAEPINLADAQKHP--SFKYIPSVKEERFRAFLGVPIIYRRQLLGVLVVQQRELR 133 (748)
T ss_pred eeccCCcchHHHHhccCceEEECCcccCc--ccccCccccCccceEEEEEEEeeCCEEEEEEEEeeCCCC
Confidence 36888999999999999999998775432 22111112247899999999955 78877776643
No 100
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=71.93 E-value=17 Score=34.74 Aligned_cols=68 Identities=19% Similarity=0.250 Sum_probs=54.4
Q ss_pred CCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEee-cCCceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 546 EMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSS-NLDGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 546 e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS-~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
+..+.+.+.-..|-|.|.++++++-...+.|++++=+ ..+|....||.-+.... ..+++.|-.+|.++
T Consensus 70 ~ri~TL~l~ledr~G~LS~vLd~iA~~~~nvLTI~Q~ipl~g~Anvtlsi~~ssm-~~~V~~ii~kl~k~ 138 (150)
T COG4492 70 ERIITLSLSLEDRVGILSDVLDVIAREEINVLTIHQTIPLQGRANVTLSIDTSSM-EKDVDKIIEKLRKV 138 (150)
T ss_pred ceEEEEEEEEhhhhhhHHHHHHHHHHhCCcEEEEecccccCceeeEEEEEEchhh-hhhHHHHHHHHhcc
Confidence 4567778888999999999999999999999997644 57888777777776543 46788888888764
No 101
>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=71.71 E-value=22 Score=28.95 Aligned_cols=59 Identities=8% Similarity=0.047 Sum_probs=41.1
Q ss_pred EEEccCCCChHHHHHHHHHccCCeEEEEEeecCC-ceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 552 EMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD-GVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 552 eI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d-g~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.|.=|.|||-|.++++.|.+ +..|+.++....+ +...+.+..++.+. ....+|.++|.+
T Consensus 2 ~v~ipdkPG~l~~~~~~i~~-~~nI~~~~~~~~~~~~~~v~v~ie~~~~--~~~~~i~~~L~~ 61 (68)
T cd04885 2 AVTFPERPGALKKFLELLGP-PRNITEFHYRNQGGDEARVLVGIQVPDR--EDLAELKERLEA 61 (68)
T ss_pred EEECCCCCCHHHHHHHHhCC-CCcEEEEEEEcCCCCceEEEEEEEeCCH--HHHHHHHHHHHH
Confidence 45568999999999999999 9999988776532 23334444555442 456677777764
No 102
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=70.21 E-value=18 Score=35.35 Aligned_cols=63 Identities=10% Similarity=0.065 Sum_probs=48.8
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC--CceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL--DGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~--dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.|.|.-+.++|.|.+|...+...|+.+.+..+... ++...++|++.-. .-.++.|..-|.|++
T Consensus 4 ~IsV~veN~pGvL~rI~~lf~rrg~NI~Sl~v~~te~~~~sriti~V~~~---~~~i~qi~kQl~KLi 68 (161)
T PRK11895 4 TLSVLVENEPGVLSRVAGLFSRRGYNIESLTVGPTEDPGLSRMTIVTSGD---EQVIEQITKQLNKLI 68 (161)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCcEEEEEeeecCCCCEEEEEEEEECC---HHHHHHHHHHHhccc
Confidence 57778899999999999999999999998877653 4777888887732 245566776676654
No 103
>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=69.64 E-value=30 Score=29.25 Aligned_cols=57 Identities=5% Similarity=0.000 Sum_probs=41.1
Q ss_pred EccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 554 RCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 554 ~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
.-+.++|.|.+|+..++..++.+++..+--. +...-+.+-..+.+.. ..|+++|..+
T Consensus 6 ~l~~~~g~L~~iL~~f~~~~inl~~IeSRP~~~~~~~y~F~id~e~~~----~~i~~~l~~l 63 (74)
T cd04929 6 SLKNEVGGLAKALKLFQELGINVVHIESRKSKRRSSEFEIFVDCECDQ----RRLDELVQLL 63 (74)
T ss_pred EcCCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEcCH----HHHHHHHHHH
Confidence 3378899999999999999999999998653 2334456666665542 3666666554
No 104
>CHL00100 ilvH acetohydroxyacid synthase small subunit
Probab=66.27 E-value=26 Score=34.76 Aligned_cols=64 Identities=11% Similarity=0.193 Sum_probs=49.4
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEeec--CCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN--LDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~--~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
.|.+.-..+||+|.+|...|...|+.+.+.++.. ..|.-.++|.+. +.. -.++.|.+.|.+++.
T Consensus 4 ~isvlv~n~PGVL~RIt~lFsrRg~NIesLsv~~t~~~~~sr~TIvv~--~~~-~~ieqL~kQL~KLid 69 (174)
T CHL00100 4 TLSVLVEDESGVLTRIAGLFARRGFNIESLAVGPAEQKGISRITMVVP--GDD-RTIEQLTKQLYKLVN 69 (174)
T ss_pred EEEEEEeCcCCHHHHHHHHHHhCCCCeeEEEeeEcCCCCccEEEEEEE--CCH-HHHHHHHHHHHHHhH
Confidence 4778889999999999999999999998887765 446666666654 322 227899999998764
No 105
>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=66.20 E-value=50 Score=27.86 Aligned_cols=43 Identities=12% Similarity=0.236 Sum_probs=31.1
Q ss_pred EEEEE---ccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEE
Q 007097 550 LIEMR---CPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKS 594 (618)
Q Consensus 550 lIeI~---C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~a 594 (618)
+|.|. .+.++|.+.+|+++|.+.++.|-.+..+. ..+.+++..
T Consensus 3 ~ItI~~~~~~~~~g~~~~IF~~La~~~I~VDmI~~s~--~~iSftv~~ 48 (75)
T cd04932 3 LVTLKSPNMLHAQGFLAKVFGILAKHNISVDLITTSE--ISVALTLDN 48 (75)
T ss_pred EEEEecCCCCCCcCHHHHHHHHHHHcCCcEEEEeecC--CEEEEEEec
Confidence 45553 35679999999999999999998875433 445555554
No 106
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=65.05 E-value=27 Score=41.67 Aligned_cols=67 Identities=10% Similarity=-0.039 Sum_probs=56.6
Q ss_pred EEEEEE-ccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 549 VLIEMR-CPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 549 vlIeI~-C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
..+.|. |+.++|+|.++...|--+++.|+++.+.+ +|....++.+.........+..+.|++...+.
T Consensus 547 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~a~~~~-~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~ 614 (693)
T PRK00227 547 GFFTVIWHGDYPRELVRVLALIAAKGWNILSARMVA-NGPWSAEFDVRANGPQDFDPQEFLQAYKSGVY 614 (693)
T ss_pred CeEEEEecCCcccHHHHHHHHHHhcCceeeEeEEec-CCceEEEEEEecCCCCCCChHHHHHHHHHhhc
Confidence 445555 59999999999999999999999999999 88888888887766567889999999987764
No 107
>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=64.78 E-value=48 Score=25.91 Aligned_cols=59 Identities=3% Similarity=0.028 Sum_probs=37.8
Q ss_pred EEEEEc---cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRC---PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C---~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
+|.|.+ +..++++.+++++|.+.++.|.-+..+..+..+.+++.. .....+.+.|++.+
T Consensus 3 ~isivg~~~~~~~~~~~~i~~~L~~~~I~v~~i~q~~s~~~isf~i~~-------~~~~~~~~~Lh~~~ 64 (66)
T cd04924 3 VVAVVGSGMRGTPGVAGRVFGALGKAGINVIMISQGSSEYNISFVVAE-------DDGWAAVKAVHDEF 64 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecCccceEEEEEeH-------HHHHHHHHHHHHHh
Confidence 344444 356899999999999999999776654444333334332 22355666676654
No 108
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=64.35 E-value=5.5 Score=44.00 Aligned_cols=38 Identities=37% Similarity=0.544 Sum_probs=32.2
Q ss_pred HHHHhH---HHhHHHhHhcCCCC----CCccccchHHHHHHHHHH
Q 007097 427 SDKRTE---NEKFMVLRSMVPYI----SEVDKASILSDTIKYLKK 464 (618)
Q Consensus 427 ~ER~RR---n~~f~~LrslvP~~----~k~dKaSIL~daI~Yik~ 464 (618)
+-|.|| |--|..|..+||-. +..||+||+.-|..|||-
T Consensus 8 aA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKm 52 (598)
T KOG3559|consen 8 AARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKM 52 (598)
T ss_pred HHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHH
Confidence 346666 88899999999963 568999999999999985
No 109
>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=63.03 E-value=30 Score=25.68 Aligned_cols=36 Identities=8% Similarity=0.154 Sum_probs=26.3
Q ss_pred CCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEE
Q 007097 558 REYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALK 593 (618)
Q Consensus 558 r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~ 593 (618)
.+|.+.+|+++|.+.++.+.....+..+..+.+++.
T Consensus 13 ~~~~~~~i~~~l~~~~i~i~~i~~~~~~~~~s~~v~ 48 (60)
T cd04868 13 TPGVAAKIFSALAEAGINVDMISQSESEVNISFTVD 48 (60)
T ss_pred CCCHHHHHHHHHHHCCCcEEEEEcCCCcEEEEEEEe
Confidence 679999999999999999987765544333344443
No 110
>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=62.75 E-value=45 Score=26.95 Aligned_cols=52 Identities=15% Similarity=0.091 Sum_probs=35.7
Q ss_pred CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 557 SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 557 ~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
+.+|++.+++++|.+.++.|.-+..++.+-.+.+.+..+ ......++|++.+
T Consensus 12 ~~~~~~~~i~~aL~~~~I~v~~i~~g~s~~sis~~v~~~-------~~~~av~~Lh~~f 63 (65)
T cd04918 12 RSSLILERAFHVLYTKGVNVQMISQGASKVNISLIVNDS-------EAEGCVQALHKSF 63 (65)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEecCccceEEEEEeHH-------HHHHHHHHHHHHH
Confidence 457899999999999999998777666655555555432 2244555665543
No 111
>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=62.18 E-value=48 Score=26.55 Aligned_cols=50 Identities=8% Similarity=0.092 Sum_probs=32.6
Q ss_pred CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 557 SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 557 ~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
..+|++.+++.+|.+.++.|. ++++.+-.+.+.+.. -....+.++|++.+
T Consensus 13 ~~~gi~~~if~aL~~~~I~v~--~~~~Se~~is~~v~~-------~~~~~av~~Lh~~f 62 (64)
T cd04937 13 GVPGVMAKIVGALSKEGIEIL--QTADSHTTISCLVSE-------DDVKEAVNALHEAF 62 (64)
T ss_pred CCcCHHHHHHHHHHHCCCCEE--EEEcCccEEEEEEcH-------HHHHHHHHHHHHHh
Confidence 579999999999999999996 444433333333321 22345666666654
No 112
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=61.75 E-value=37 Score=28.28 Aligned_cols=62 Identities=11% Similarity=0.117 Sum_probs=38.5
Q ss_pred EEEEEc---cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 550 LIEMRC---PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 550 lIeI~C---~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
+|.|.+ ...+|++.+|+++|.+.++.|..... .+..+.+.+.............+|.+.|++
T Consensus 3 ~Vsi~g~~l~~~~g~~~~if~~L~~~~I~v~~i~~--s~~~is~~v~~~~~~~~~~~~~~~~~~l~~ 67 (75)
T cd04912 3 LLNIKSNRMLGAHGFLAKVFEIFAKHGLSVDLIST--SEVSVSLTLDPTKNLSDQLLLDALVKDLSQ 67 (75)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHcCCeEEEEEc--CCcEEEEEEEchhhccchHHHHHHHHHHHh
Confidence 455543 45689999999999999999987753 335556666543210001234456666655
No 113
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=61.70 E-value=39 Score=29.09 Aligned_cols=63 Identities=16% Similarity=0.132 Sum_probs=45.7
Q ss_pred EEEEEccCCCChHHHHHHHHHccCCeEEEEEee--cCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 550 LIEMRCPSREYILLDIMDAINNLHLDAYSVVSS--NLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 550 lIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS--~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.|.+.-..++|+|.+|..++..-|..+.+.++. ...++..++|.+. +. ...++.|..-|.|++
T Consensus 4 tisi~v~n~pGVL~Ri~~lf~rRgfNI~Sl~vg~te~~~~sriti~~~--~~-~~~i~qi~kQL~KLi 68 (76)
T PRK06737 4 TFSLVIHNDPSVLLRISGIFARRGYYISSLNLNERDTSGVSEMKLTAV--CT-ENEATLLVSQLKKLI 68 (76)
T ss_pred EEEEEEecCCCHHHHHHHHHhccCcceEEEEecccCCCCeeEEEEEEE--CC-HHHHHHHHHHHhCCc
Confidence 577788899999999999998887777766655 3558888888875 21 234556666666554
No 114
>smart00065 GAF Domain present in phytochromes and cGMP-specific phosphodiesterases. Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.
Probab=61.13 E-value=15 Score=31.01 Aligned_cols=60 Identities=22% Similarity=0.464 Sum_probs=43.5
Q ss_pred eeecCCCCccceeeeCCCcEEEeCCCCCCCchhhhHHHhhhcCCcEEEEeeeC-----CceeEeecc
Q 007097 82 FVFSSGQGLPGRALANSETIWLCNAQCADSKVFSRSLLAKSASIQTVICFPHL-----DGVIELGVT 143 (618)
Q Consensus 82 ~~F~~G~GlpG~a~~~g~~~Wl~~~~~~~~~~~~R~~~a~~agIQTvvciP~~-----~GVvELGSt 143 (618)
..|+.+.++-++++.++.++.+.+..... .+.........|++.++|+|+. -|+|.+.+.
T Consensus 50 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~s~~~~Pl~~~~~~~G~l~~~~~ 114 (149)
T smart00065 50 LRYPLGEGLAGRVAETGRPLNIPDVEADP--VFALDLLGRYQGVRSFLAVPLVADGELVGVLALHNK 114 (149)
T ss_pred EEecCCCChHHHHHHcCCeEEeechhhCC--ccccccccceeceeeEEEeeeeecCEEEEEEEEEec
Confidence 45777778899999999999988665432 2334444445569999999974 278888876
No 115
>PRK08198 threonine dehydratase; Provisional
Probab=61.11 E-value=40 Score=37.08 Aligned_cols=66 Identities=21% Similarity=0.213 Sum_probs=49.7
Q ss_pred CCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec-----CCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 546 EMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN-----LDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 546 e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~-----~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
+..+.+.|.=+.+||.|.+|++.|.+.+..|+.++..- ..+...++|..+.++. ....+|.++|.+
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 GRYLKLRVRLPDRPGQLAKLLSIIAELGANVIDVDHDRFSPDLRLGEVEVELTLETRGP--EHIEEILDALRD 395 (404)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEEccCCCCCceEEEEEEEEeCCH--HHHHHHHHHHHH
Confidence 55677888889999999999999999999888777652 3466777777776542 255677777754
No 116
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=60.94 E-value=36 Score=34.11 Aligned_cols=65 Identities=17% Similarity=0.236 Sum_probs=49.5
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC----Cc--eEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL----DG--VLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~----dg--~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
+.|++.-+.|||+..+|-++|-++++.|...+.-+. .| +|...+.+.+. ......+++.+|..+.
T Consensus 96 ~~v~v~G~DrPGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v~lP--~~~~~~~L~~~l~~l~ 166 (190)
T PRK11589 96 VWVQVEVADSPHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITAHSP--ASQDAANIEQAFKALC 166 (190)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEEEcC--CCCCHHHHHHHHHHHH
Confidence 567778899999999999999999999998887653 33 45555555543 3466889999888764
No 117
>PRK06382 threonine dehydratase; Provisional
Probab=60.21 E-value=40 Score=37.33 Aligned_cols=67 Identities=24% Similarity=0.209 Sum_probs=49.8
Q ss_pred eCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEee-----cCCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 545 QEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSS-----NLDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 545 ~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS-----~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.+..+.|.|.=+.++|.|.+|.+.|.+.++.|+++... ...+...++|+.+..+. -....|+++|.+
T Consensus 327 ~~~~~rl~v~v~D~pG~L~~l~~ii~~~~~nI~~v~~~~~~~~~~~~~~~v~i~vet~~~--~~~~~v~~~L~~ 398 (406)
T PRK06382 327 LGQLVRIECNIPDRPGNLYRIANAIASNGGNIYHAEVDNLRKETPPGFQSVTFTVNVRGQ--DHLDRILNALRE 398 (406)
T ss_pred cCCEEEEEEEcCCCCCHHHHHHHHHhcCCCcEEEEEEeeccccCCCCcEEEEEEEEeCCH--HHHHHHHHHHHH
Confidence 35567788888999999999999999999999987763 33456667777776532 233567777754
No 118
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=60.12 E-value=41 Score=35.68 Aligned_cols=68 Identities=13% Similarity=0.197 Sum_probs=50.0
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC--ceEEEEEEEEeCCCc-ccCHHHHHHHHHHHhh
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD--GVLTLALKSTFRGAA-IAPAGIIEQALWKIAG 616 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d--g~l~~ti~aKv~~~~-~~s~~~IkqAL~~vi~ 616 (618)
..+.+.+.||.++|+...|-.-|-+.|..|++++--... |.| -.++.+.... ..+.+.+.+++..+..
T Consensus 6 ~~~~LtvsCpd~~GiVaais~~l~~~g~NI~~~~qf~D~~~g~F--FmR~~f~~~~~~~~~~~l~~~f~~~a~ 76 (287)
T COG0788 6 DTFILTVSCPDQPGIVAAISGFLAEHGCNIVDSDQFDDPETGRF--FMRVEFEGEGGPLDREALRAAFAPLAE 76 (287)
T ss_pred cceEEEEecCCCCCcHHHHHHHHHHcCCceeecccccccccCeE--EEEEEEecCCCcccHHHHHHHHHHHHH
Confidence 346789999999999999999999999999887655322 443 3455554433 2678888888877543
No 119
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases. cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....
Probab=59.39 E-value=15 Score=32.97 Aligned_cols=64 Identities=17% Similarity=0.242 Sum_probs=45.4
Q ss_pred eeecCCCCccceeeeCCCcEEEeCCCCCCCchh-hhHHH------------hhhcCCcEEEEeeeCC-----ceeEeecc
Q 007097 82 FVFSSGQGLPGRALANSETIWLCNAQCADSKVF-SRSLL------------AKSASIQTVICFPHLD-----GVIELGVT 143 (618)
Q Consensus 82 ~~F~~G~GlpG~a~~~g~~~Wl~~~~~~~~~~~-~R~~~------------a~~agIQTvvciP~~~-----GVvELGSt 143 (618)
..+..+.+..|+++.++.++++.+....+.... ..... ....|+++++|+|+.. |||.|..+
T Consensus 50 ~~~~~~~~~~~~~~~~~~~~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi~~~g~~~G~l~l~~~ 129 (154)
T PF01590_consen 50 RRLSMDESICGQVLQSREPIVISDVAADPRFAPQIAAQSALRALSSAERPFLAEYGVRSYLCVPIISGGRLIGVLSLYRT 129 (154)
T ss_dssp EEEETTSSHHHHHHHHTSCEEESSSGGSTTSSCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEEEETTEEEEEEEEEEE
T ss_pred ccccccccHHHHHHhCCCeEeeccccccccccccccccccccccccccccccccccCceeeEeeeecccCcEEEEEEEEC
Confidence 455666788999999999999988755432111 11111 1168999999999843 89999988
Q ss_pred cc
Q 007097 144 EL 145 (618)
Q Consensus 144 e~ 145 (618)
..
T Consensus 130 ~~ 131 (154)
T PF01590_consen 130 RP 131 (154)
T ss_dssp SS
T ss_pred CC
Confidence 77
No 120
>TIGR01127 ilvA_1Cterm threonine dehydratase, medium form. A form of threonine dehydratase with two copies of the C-terminal domain Pfam:PF00585 is described by TIGR01124. This model describes a phylogenetically distinct form with a single copy of pfam00585. This form branches with the catabolic threonine dehydratase of E. coli; many members are designated as catabolic for this reason. However, the catabolic form lacks any pfam00585 domain. Many members of this model are found in species with other Ile biosynthetic enzymes.
Probab=59.35 E-value=40 Score=36.76 Aligned_cols=67 Identities=18% Similarity=0.198 Sum_probs=50.6
Q ss_pred eCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeec-----CCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 545 QEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSN-----LDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 545 ~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~-----~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.+..+.|.|.=+.++|.|.+|++.|.+.+..|+++.... ..+...++|..+.++ .....+|.++|.+
T Consensus 302 ~gr~~~l~v~l~D~pG~L~~v~~~i~~~~~NI~~i~~~r~~~~~~~~~~~v~v~vet~~--~~~~~~i~~~L~~ 373 (380)
T TIGR01127 302 SGRKVRIETVLPDRPGALYHLLESIAEARANIVKIDHDRLSKEIPPGFAMVEITLETRG--KEHLDEILKILRD 373 (380)
T ss_pred CCCEEEEEEEeCCCCCHHHHHHHHHhcCCCcEEEEEeeccccCCCCceEEEEEEEEeCC--HHHHHHHHHHHHH
Confidence 356678888889999999999999999999999886541 236666777777654 2345677777764
No 121
>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=59.28 E-value=57 Score=30.05 Aligned_cols=60 Identities=8% Similarity=-0.055 Sum_probs=41.0
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
|-+..+.++|.|.+||..+...++.+++..+--. +...-+.|-+.+.+.. .+++++|..+
T Consensus 44 lifsl~~~pGsL~~iL~~Fa~~gINLt~IESRP~~~~~~eY~FfIdieg~~----~~~~~aL~~L 104 (115)
T cd04930 44 LLFSLKEGFSSLSRILKVFETFEAKIHHLESRPSRKEGGDLEVLVRCEVHR----SDLLQLISSL 104 (115)
T ss_pred EEEEeCCCCcHHHHHHHHHHHCCCCEEEEECCcCCCCCceEEEEEEEEeCH----HHHHHHHHHH
Confidence 3444488999999999999999999999998654 2223345555554432 2466666554
No 122
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=57.72 E-value=47 Score=40.17 Aligned_cols=56 Identities=13% Similarity=0.056 Sum_probs=47.3
Q ss_pred EEEEeCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEe-ecCCceEEEEEEEEe
Q 007097 541 KVSIQEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVS-SNLDGVLTLALKSTF 596 (618)
Q Consensus 541 eVsi~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqs-S~~dg~l~~ti~aKv 596 (618)
.++...+..-|-|-|+.++.++..|..++...|++|+.||+ ++.||..+-||.+.-
T Consensus 677 ~~r~~~~~teV~V~a~d~p~Lfa~v~~~~~~~g~~i~dAqi~tt~dG~alDtfiv~~ 733 (867)
T COG2844 677 SVRPHSGGTEVFVYAPDRPRLFAVVCAALSRRGLSIVDAQIFTTRDGYALDTFIVLE 733 (867)
T ss_pred eecccCCceEEEEEcCCCccHHHHHHHHHccCCCceeeeEEEEccCCceeeeEEEec
Confidence 34444566889999999999999999999999999999997 568898888887763
No 123
>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=56.84 E-value=66 Score=24.70 Aligned_cols=56 Identities=11% Similarity=0.096 Sum_probs=35.6
Q ss_pred EEEEc---cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 551 IEMRC---PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 551 IeI~C---~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
|.|.+ ...++++.+|+++|.+.++.|.....+ +..+.+++.. .....+.++|++.+
T Consensus 3 v~v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~s--~~~is~~v~~-------~~~~~~~~~l~~~l 61 (63)
T cd04923 3 VSIVGAGMRSHPGVAAKMFKALAEAGINIEMISTS--EIKISCLVDE-------DDAEKAVRALHEAF 61 (63)
T ss_pred EEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEcc--CCeEEEEEeH-------HHHHHHHHHHHHHh
Confidence 45544 345899999999999999999877643 3333333332 23345566666654
No 124
>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=54.04 E-value=78 Score=27.14 Aligned_cols=43 Identities=14% Similarity=0.283 Sum_probs=31.5
Q ss_pred EEEEEc---cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEE
Q 007097 550 LIEMRC---PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKS 594 (618)
Q Consensus 550 lIeI~C---~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~a 594 (618)
+|.|.. +..+|.+.+|+++|.+.++.|-.+..+ +..+.+++..
T Consensus 3 ~i~i~~~~~~~~~g~~a~IF~~La~~~InVDmI~qs--~~sISftV~~ 48 (78)
T cd04933 3 MLDITSTRMLGQYGFLAKVFSIFETLGISVDVVATS--EVSISLTLDP 48 (78)
T ss_pred EEEEEcCCCCCccCHHHHHHHHHHHcCCcEEEEEec--CCEEEEEEEh
Confidence 455544 456899999999999999999888543 3445666654
No 125
>cd04935 ACT_AKiii-DAPDC_1 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. This CD includes the first of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=53.47 E-value=47 Score=27.99 Aligned_cols=56 Identities=13% Similarity=0.071 Sum_probs=37.0
Q ss_pred cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 556 PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 556 ~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
+..+|.+.+|+++|.+.++.|-.+.. ....+.+++...-.+-..-...+|.+.|++
T Consensus 12 ~~~~g~~~~IF~~La~~~I~vDmI~~--s~~~isftv~~~~~~~~~~~~~~l~~el~~ 67 (75)
T cd04935 12 WQQVGFLADVFAPFKKHGVSVDLVST--SETNVTVSLDPDPNGLDPDVLDALLDDLNQ 67 (75)
T ss_pred CCccCHHHHHHHHHHHcCCcEEEEEe--CCCEEEEEEeCcccccchHHHHHHHHHHHh
Confidence 45689999999999999999998854 334566666654311111134566666665
No 126
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=50.26 E-value=1.1e+02 Score=26.21 Aligned_cols=62 Identities=10% Similarity=0.045 Sum_probs=37.7
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCC-ceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLD-GVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~d-g~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.++.+.=|.+||-|.+++++|- +-+|..+...... +.-.+.|..++++. .-....+.++|.+
T Consensus 2 ~vl~v~ipD~PG~L~~ll~~l~--~anI~~~~y~~~~~~~~~v~i~ie~~~~-~~~~~~i~~~L~~ 64 (85)
T cd04906 2 ALLAVTIPERPGSFKKFCELIG--PRNITEFNYRYADEKDAHIFVGVSVANG-AEELAELLEDLKS 64 (85)
T ss_pred eEEEEecCCCCcHHHHHHHHhC--CCceeEEEEEccCCCeeEEEEEEEeCCc-HHHHHHHHHHHHH
Confidence 4678888999999999999998 5555555544321 22233344444341 1334566666653
No 127
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=49.33 E-value=12 Score=42.43 Aligned_cols=53 Identities=23% Similarity=0.223 Sum_probs=38.6
Q ss_pred cccchhhHHHHhH---HHhHHHhHhcCCCC----CCccccchHHHHHHHHHHHHHHHHHH
Q 007097 420 FCEEHISSDKRTE---NEKFMVLRSMVPYI----SEVDKASILSDTIKYLKKLEARVEEL 472 (618)
Q Consensus 420 ~~~~h~~~ER~RR---n~~f~~LrslvP~~----~k~dKaSIL~daI~Yik~L~~~v~~L 472 (618)
..+.++..||-|- |+-|..|--|.--- ..-.|.-||..|+.-|-.|+++|.|-
T Consensus 526 RR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER 585 (632)
T KOG3910|consen 526 RRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER 585 (632)
T ss_pred HHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence 3445555666554 88899987765321 23368999999999999999999863
No 128
>PF07009 DUF1312: Protein of unknown function (DUF1312); InterPro: IPR010739 This family consists of several bacterial proteins of around 120 residues in length. The function of this family is unknown.; PDB: 4ESN_B 1NPP_B 1M1G_D 1NPR_A 1M1H_A 2KPP_A 3LD7_C.
Probab=49.00 E-value=22 Score=32.36 Aligned_cols=49 Identities=12% Similarity=0.308 Sum_probs=35.0
Q ss_pred eeecCCCCccceeeeCCCcEEEeCCCCCCCchhhhHHHhhhcCCcEEEEeee
Q 007097 82 FVFSSGQGLPGRALANSETIWLCNAQCADSKVFSRSLLAKSASIQTVICFPH 133 (618)
Q Consensus 82 ~~F~~G~GlpG~a~~~g~~~Wl~~~~~~~~~~~~R~~~a~~agIQTvvciP~ 133 (618)
|.| .|.+..-..-..+.-+|+..++ ++.+.|.+...-...| |++||+|-
T Consensus 52 i~i-~~~~g~~~i~i~~g~vrv~~s~-CpdkiCv~~G~I~~~G-~~IVCLPn 100 (113)
T PF07009_consen 52 IEI-DGDGGYNTIEIKDGKVRVIESD-CPDKICVKTGWISRPG-QSIVCLPN 100 (113)
T ss_dssp EEE-ETTTCEEEEEEETTEEEEEEES-TSS-HHHHS-SB-STT--EEEETTT
T ss_pred EEE-ecCCcEEEEEEECCEEEEEECC-CCCcchhhCCCcCCCC-CEEEEcCC
Confidence 444 5556667888888999999875 8899998877776666 89999984
No 129
>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=48.89 E-value=1e+02 Score=23.55 Aligned_cols=51 Identities=12% Similarity=0.084 Sum_probs=33.0
Q ss_pred cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 556 PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 556 ~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
+..++++.+|+++|.+.++.|.....+ +..+.+++ .- .....+.+.|++.+
T Consensus 11 ~~~~~~~~~i~~~L~~~~i~v~~i~~s--~~~is~~v--~~-----~d~~~~~~~l~~~~ 61 (63)
T cd04936 11 RSHPGVAAKMFEALAEAGINIEMISTS--EIKISCLI--DE-----DDAEKAVRALHEAF 61 (63)
T ss_pred CCCccHHHHHHHHHHHCCCcEEEEEcc--CceEEEEE--eH-----HHHHHHHHHHHHHh
Confidence 345899999999999999999877644 22233333 21 23345566666554
No 130
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=48.38 E-value=55 Score=39.14 Aligned_cols=51 Identities=22% Similarity=0.292 Sum_probs=44.3
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCC
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRG 598 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~ 598 (618)
.+.|.|.-.+|+|+|.+|+++|.+.+..|+++++... +++..+.|..++.+
T Consensus 627 ~~~i~v~~~~r~glL~~i~~~i~~~~~ni~~v~~~~~~~~~~~~~~~i~v~n 678 (701)
T COG0317 627 PVDIEIRAYDRSGLLRDVSQVLANEKINVLGVNTRSDKDQFATMQFTIEVKN 678 (701)
T ss_pred EEEEEEEEccccchHHHHHHHHHhCCCceEEeeccccCCceEEEEEEEEECc
Confidence 4678888999999999999999999999999998874 67777788888765
No 131
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=46.92 E-value=83 Score=28.41 Aligned_cols=64 Identities=6% Similarity=0.064 Sum_probs=44.5
Q ss_pred eEEEEEEccCCCChHHHHHHHHHccCCeEEE--EEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 548 DVLIEMRCPSREYILLDIMDAINNLHLDAYS--VVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 548 dvlIeI~C~~r~glL~~Im~aLe~L~LdV~s--vqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
...|.+.-..++|+|.+|...+..-|..+.+ |--+...++-.++|.+. +. ..++.|.+-|.|++
T Consensus 8 ~~tisvlv~N~pGVL~RIaglFsRRgyNIeSLtvg~te~~~iSRmtivv~--~~--~~i~Qi~kQL~KLi 73 (96)
T PRK08178 8 NVILELTVRNHPGVMSHVCGLFARRAFNVEGILCLPIQDGDKSRIWLLVN--DD--QRLEQMISQIEKLE 73 (96)
T ss_pred CEEEEEEEECCcCHHHHHHHHHhcCCcCeeeEEEeecCCCCceEEEEEEc--Cc--hHHHHHHHHHhCCc
Confidence 3567888899999999999999765555544 44445557777788765 32 35667766666654
No 132
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase
Probab=46.89 E-value=87 Score=40.74 Aligned_cols=70 Identities=11% Similarity=0.095 Sum_probs=54.9
Q ss_pred CeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEe---ecC--CceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 547 MDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVS---SNL--DGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 547 ~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqs---S~~--dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
+.+.++|-.+.++..|.+||-+|++|||.|+.-.. ... ..+..+.|..............+++.|..++.
T Consensus 488 ~~~~lkiy~~~~~~~Ls~vlPilenlGl~V~~e~~~~i~~~~~~~~~i~~F~l~~~~~~~~~~~~~~~~~~~a~~ 562 (1528)
T PF05088_consen 488 GRLRLKIYHPGEPLPLSDVLPILENLGLRVIDERPYEIRRADGRRVWIHDFGLQYPDGDALDLDDIRERFEEAFE 562 (1528)
T ss_pred CeEEEEEEcCCCCcCHHHHHHHHHhCCCEEEEEecceeecCCCceEEEEEEEEecCCCccccHHHHHHHHHHHHH
Confidence 46889999999999999999999999999998663 332 34578888888776555677777777766653
No 133
>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=46.81 E-value=65 Score=25.27 Aligned_cols=37 Identities=14% Similarity=0.168 Sum_probs=28.1
Q ss_pred cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEE
Q 007097 556 PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKS 594 (618)
Q Consensus 556 ~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~a 594 (618)
..++|.+.+|+++|.+.++.|..+.. ....+.+++..
T Consensus 11 ~~~~~~~~~if~~l~~~~i~v~~i~t--~~~~is~~v~~ 47 (62)
T cd04890 11 NGEVGFLRKIFEILEKHGISVDLIPT--SENSVTLYLDD 47 (62)
T ss_pred CcccCHHHHHHHHHHHcCCeEEEEec--CCCEEEEEEeh
Confidence 35689999999999999999988754 33445566654
No 134
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=46.37 E-value=13 Score=38.99 Aligned_cols=43 Identities=19% Similarity=0.326 Sum_probs=34.5
Q ss_pred hHHHHhH---HHhHHHhHhcCCCC---CCccccchHHHHHHHHHHHHHH
Q 007097 426 SSDKRTE---NEKFMVLRSMVPYI---SEVDKASILSDTIKYLKKLEAR 468 (618)
Q Consensus 426 ~~ER~RR---n~~f~~LrslvP~~---~k~dKaSIL~daI~Yik~L~~~ 468 (618)
..||+|- |+-|..||.++|.. .|+-|.=.|.=|-+||..|+.-
T Consensus 78 aRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~ 126 (254)
T KOG3898|consen 78 ARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEV 126 (254)
T ss_pred chhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhccc
Confidence 5677666 99999999999964 5667777898899999888743
No 135
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=42.86 E-value=15 Score=35.62 Aligned_cols=48 Identities=21% Similarity=0.331 Sum_probs=37.2
Q ss_pred ccchhhHHHHhH---HHhHHHhHhcCCCC--CCccccchHHHHHHHHHHHHHH
Q 007097 421 CEEHISSDKRTE---NEKFMVLRSMVPYI--SEVDKASILSDTIKYLKKLEAR 468 (618)
Q Consensus 421 ~~~h~~~ER~RR---n~~f~~LrslvP~~--~k~dKaSIL~daI~Yik~L~~~ 468 (618)
...|...||+|- |+-|.+||-.+|.. .|.-|.--|.-|-.||-.|-+-
T Consensus 79 rv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~v 131 (173)
T KOG4447|consen 79 RVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQV 131 (173)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhc
Confidence 456788899998 99999999999974 4445555688888888877543
No 136
>PRK11899 prephenate dehydratase; Provisional
Probab=42.74 E-value=1.5e+02 Score=31.59 Aligned_cols=64 Identities=9% Similarity=0.048 Sum_probs=47.0
Q ss_pred EEEEccCCCChHHHHHHHHHccCCeEEEEEeecC-CceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 551 IEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL-DGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 551 IeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~-dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
|-+..+.++|.|.+|+.++...+|..+...|--. ++..-+.|...+.+. ..-..+++||..+-.
T Consensus 197 l~~~~~~~pGaL~~vL~~Fa~~gINLtkIeSRP~~~~~~~Y~F~id~eg~--~~d~~v~~aL~~l~~ 261 (279)
T PRK11899 197 FVFRVRNIPAALYKALGGFATNGVNMTKLESYMVGGSFTATQFYADIEGH--PEDRNVALALEELRF 261 (279)
T ss_pred EEEEeCCCCChHHHHHHHHHHcCCCeeeEEeeecCCCCceEEEEEEEECC--CCCHHHHHHHHHHHH
Confidence 3444478999999999999999999999998743 455667777777663 233457777776543
No 137
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=41.53 E-value=93 Score=25.32 Aligned_cols=50 Identities=10% Similarity=0.022 Sum_probs=33.8
Q ss_pred CCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 558 REYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 558 r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
++|++.+++++|.+.++.|.....+..+-.+++.+.. -......++|++.
T Consensus 14 ~~gv~~ki~~~L~~~~I~v~~i~~~~s~~~is~~V~~-------~~~~~av~~Lh~~ 63 (66)
T cd04915 14 TPGVLARGLAALAEAGIEPIAAHQSMRNVDVQFVVDR-------DDYDNAIKALHAA 63 (66)
T ss_pred cchHHHHHHHHHHHCCCCEEEEEecCCeeEEEEEEEH-------HHHHHHHHHHHHH
Confidence 5689999999999999999876666554444444432 2234555666554
No 138
>cd04934 ACT_AK-Hom3_1 CT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydro
Probab=41.46 E-value=1.4e+02 Score=24.97 Aligned_cols=60 Identities=15% Similarity=0.128 Sum_probs=38.6
Q ss_pred EEEEEcc---CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 550 LIEMRCP---SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 550 lIeI~C~---~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.|.|.+. ..+|.+.+|+++|.+.++.|-.+..+. ..+.+++....-. .-...+|.+.|++
T Consensus 3 ~I~i~~~~m~~~~g~~~~If~~la~~~I~vd~I~~s~--~~isftv~~~~~~--~~~l~~l~~el~~ 65 (73)
T cd04934 3 VINIHSNKKSLSHGFLARIFAILDKYRLSVDLISTSE--VHVSMALHMENAE--DTNLDAAVKDLQK 65 (73)
T ss_pred EEEEEcccCccccCHHHHHHHHHHHcCCcEEEEEeCC--CEEEEEEehhhcC--hHHHHHHHHHHHH
Confidence 3455443 458999999999999999998885432 4455566542110 0145567776666
No 139
>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=39.17 E-value=1.1e+02 Score=25.19 Aligned_cols=44 Identities=11% Similarity=0.194 Sum_probs=30.3
Q ss_pred EEEEEc---cCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEE
Q 007097 550 LIEMRC---PSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALK 593 (618)
Q Consensus 550 lIeI~C---~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~ 593 (618)
+|.|.. ...++++.+++++|.+.++.+.....+..+..+.+++.
T Consensus 3 ~I~vvg~~~~~~~~~~~~i~~~L~~~~I~v~~i~~~~~~~~isf~v~ 49 (80)
T cd04921 3 LINIEGTGMVGVPGIAARIFSALARAGINVILISQASSEHSISFVVD 49 (80)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHCCCcEEEEEecCCcceEEEEEe
Confidence 455533 35689999999999999999987765544433334433
No 140
>COG3978 Acetolactate synthase (isozyme II), small (regulatory) subunit [Function unknown]
Probab=38.07 E-value=2e+02 Score=25.32 Aligned_cols=63 Identities=8% Similarity=0.097 Sum_probs=48.6
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC--CceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL--DGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~--dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
..+.|.-..+|+.|.+|+.+.+.-|.-|..++.|.. .|...+.+.++ + .-++.-+..-|.|+.
T Consensus 4 yqldl~ar~~pe~leRVLrvtrhRGF~vcamnmt~~~da~~~nie~tV~--s--~R~~~lL~~QLeKl~ 68 (86)
T COG3978 4 YQLDLSARFNPETLERVLRVTRHRGFRVCAMNMTAAVDAGNANIELTVD--S--DRSVDLLTSQLEKLY 68 (86)
T ss_pred EEEeeeccCChHHHHHHHHHhhhcCeEEEEeecccccccccceEEEEEc--C--CCChHHHHHHHHHHc
Confidence 356677788999999999999999999999999886 57777777765 2 245666666666653
No 141
>cd04920 ACT_AKiii-DAPDC_2 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC). This CD includes the second of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=36.23 E-value=1.6e+02 Score=23.70 Aligned_cols=34 Identities=15% Similarity=0.043 Sum_probs=24.8
Q ss_pred EEEeCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEe
Q 007097 542 VSIQEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVS 581 (618)
Q Consensus 542 Vsi~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqs 581 (618)
|++.|.++ ...+|++.+++++|.+.++.+++...
T Consensus 3 VsvVG~g~------~~~~gv~~~~~~~L~~~~i~~i~~~~ 36 (63)
T cd04920 3 VSLVGRGI------RSLLHKLGPALEVFGKKPVHLVSQAA 36 (63)
T ss_pred EEEECCCc------ccCccHHHHHHHHHhcCCceEEEEeC
Confidence 45555554 36789999999999998887754433
No 142
>PRK08526 threonine dehydratase; Provisional
Probab=35.98 E-value=1.5e+02 Score=32.97 Aligned_cols=67 Identities=9% Similarity=0.144 Sum_probs=50.1
Q ss_pred eCCeEEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecC--C---ceEEEEEEEEeCCCcccCHHHHHHHHHH
Q 007097 545 QEMDVLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNL--D---GVLTLALKSTFRGAAIAPAGIIEQALWK 613 (618)
Q Consensus 545 ~e~dvlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~--d---g~l~~ti~aKv~~~~~~s~~~IkqAL~~ 613 (618)
.+..+.+.+.=|.+||-|.++++.|-+.+.+|+.+..... + +...+.+..+.++. .....|.++|++
T Consensus 323 ~~r~~~~~~~~~d~pg~l~~~~~~~~~~~~~i~~~~~~r~~~~~~~~~~~~~~~~e~~~~--~~~~~~~~~l~~ 394 (403)
T PRK08526 323 SYRKMKLHVTLVDKPGALMGLTDILKEANANIVKIDYDRFSTKLDYGDAMISITLETKGK--EHQEEIRKILTE 394 (403)
T ss_pred cCCEEEEEEEcCCCCCHHHHHHHHHccCCCcEEEEEEEeccCCCCCccEEEEEEEEeCCH--HHHHHHHHHHHH
Confidence 4677889999999999999999999999999998877432 1 34556666666652 345667776654
No 143
>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=34.72 E-value=1.4e+02 Score=25.03 Aligned_cols=49 Identities=14% Similarity=0.211 Sum_probs=36.1
Q ss_pred CceEEEEEeCCeEEEEEEccCCC------ChHHHHHHHHHccCCeEEEEEeecCC
Q 007097 537 LADVKVSIQEMDVLIEMRCPSRE------YILLDIMDAINNLHLDAYSVVSSNLD 585 (618)
Q Consensus 537 ~~~VeVsi~e~dvlIeI~C~~r~------glL~~Im~aLe~L~LdV~svqsS~~d 585 (618)
...|.|++.++.+.|.|.+.... .-+..+-++|...|+.+.+++++..+
T Consensus 26 ~v~v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~~~~~~v~~~~ 80 (85)
T PF02120_consen 26 SVEVKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGLEVVNLSVSQGS 80 (85)
T ss_dssp -EEEEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-EEEEEEEESS-
T ss_pred cEEEEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEEEECC
Confidence 36788888999999999997652 45677889999999999988877644
No 144
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=34.55 E-value=57 Score=38.63 Aligned_cols=60 Identities=23% Similarity=0.343 Sum_probs=40.1
Q ss_pred cCCCCccceeeeCCCcEEEeCCCCCCCchhhhHHHhh-hcCCcEEEEeeeC-----CceeEeeccc
Q 007097 85 SSGQGLPGRALANSETIWLCNAQCADSKVFSRSLLAK-SASIQTVICFPHL-----DGVIELGVTE 144 (618)
Q Consensus 85 ~~G~GlpG~a~~~g~~~Wl~~~~~~~~~~~~R~~~a~-~agIQTvvciP~~-----~GVvELGSte 144 (618)
+.+.|+.|+++.+|+|+=+..+.......+.+..... ..++++++|||+. -|||.+++..
T Consensus 253 ~~~~~l~g~V~~~~~p~lv~~~~~d~~~~~~~~~~~~~~~~~~s~l~vPL~~~~~v~GvL~l~~~~ 318 (686)
T PRK15429 253 DEAGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCE 318 (686)
T ss_pred CcccchHHHHHhcCceEEEECccCcccchhhhhhhhcccccceEEEEEeEEECCEEEEEEEEeeCC
Confidence 3445899999999999988654332222233332222 3579999999983 2999998764
No 145
>PRK15385 magnesium transport protein MgtC; Provisional
Probab=34.20 E-value=2.4e+02 Score=29.23 Aligned_cols=63 Identities=8% Similarity=0.112 Sum_probs=41.7
Q ss_pred CeEEEEEEccCCC--ChHHHHHHHHHccCCeEEEEEeecC--Cc--eEEEEEEEEeCCCcccCHHHHHHHH
Q 007097 547 MDVLIEMRCPSRE--YILLDIMDAINNLHLDAYSVVSSNL--DG--VLTLALKSTFRGAAIAPAGIIEQAL 611 (618)
Q Consensus 547 ~dvlIeI~C~~r~--glL~~Im~aLe~L~LdV~svqsS~~--dg--~l~~ti~aKv~~~~~~s~~~IkqAL 611 (618)
..+.++|.|...+ .+...+++.|++.++.+.++++-.. ++ .+.+++.++... ....+.|...|
T Consensus 141 ~~~~~~v~~~~~~~~~vr~~L~~~l~~~~~~~~~l~~~~~~~~~~~ei~a~l~~~~~~--~~~le~iv~~L 209 (225)
T PRK15385 141 KRYILKVTCNKEDESAVRQWLLNIVKEAAICLQGLGSVPAQEQGYKEIRAELVGHADY--RKTRELIISRI 209 (225)
T ss_pred eEEEEEEEEcCcchhHHHHHHHHHHHhCCCceEEeEeeecCCCCeEEEEEEEEecCCc--hhhHHHHHHHH
Confidence 3567889998876 4689999999999999999998543 33 344555555332 23444444443
No 146
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=34.13 E-value=41 Score=38.37 Aligned_cols=77 Identities=10% Similarity=0.122 Sum_probs=50.7
Q ss_pred eecCCCC-ccceeeeCCCcEEEeCCCCCCCchhhhHH--HhhhcCCcEEEEeeeC-----CceeEeecccc---ccCChh
Q 007097 83 VFSSGQG-LPGRALANSETIWLCNAQCADSKVFSRSL--LAKSASIQTVICFPHL-----DGVIELGVTEL---VPEDPS 151 (618)
Q Consensus 83 ~F~~G~G-lpG~a~~~g~~~Wl~~~~~~~~~~~~R~~--~a~~agIQTvvciP~~-----~GVvELGSte~---v~Ed~~ 151 (618)
.|..|+| ..|.++.+|.++.+.+.... ...+.|.. -+...||..++|+|+. -|||.+.+... -.+|..
T Consensus 65 ~~~~geGP~l~av~~~g~~v~v~~~~~~-p~~~~~~~~~~~~~~gi~S~l~vPL~~~~~~~GvL~l~~~~~~~f~~~~~~ 143 (509)
T PRK05022 65 RFALEEHPRLEAILRAGDPVRFPADSEL-PDPYDGLIPGVQESLPVHDCMGLPLFVDGRLIGALTLDALDPGQFDAFSDE 143 (509)
T ss_pred ccCCCcchHHHHHHhcCCeEEEecCCCC-CcccccccccccccCCcceEEEEEEEECCEEEEEEEEeeCCCCcCCHHHHH
Confidence 6888998 66999888999988754332 22233322 1334689999999983 38899988653 334455
Q ss_pred HHHHHHHHh
Q 007097 152 LLQHIKASL 160 (618)
Q Consensus 152 lv~~ik~~F 160 (618)
++..+-..+
T Consensus 144 ~l~~~a~~~ 152 (509)
T PRK05022 144 ELRALAALA 152 (509)
T ss_pred HHHHHHHHH
Confidence 665555544
No 147
>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=33.78 E-value=87 Score=25.50 Aligned_cols=35 Identities=14% Similarity=0.167 Sum_probs=27.8
Q ss_pred CCeEEEEEEcc----CCCChHHHHHHHHHccCCeEEEEE
Q 007097 546 EMDVLIEMRCP----SREYILLDIMDAINNLHLDAYSVV 580 (618)
Q Consensus 546 e~dvlIeI~C~----~r~glL~~Im~aLe~L~LdV~svq 580 (618)
++-..|.|.++ ..+|++.+|+.+|.+-++.|..+.
T Consensus 4 ~~~~~i~v~g~g~~~~~~Gv~a~i~~~La~~~I~i~~is 42 (65)
T PF13840_consen 4 EDWAKISVVGPGLRFDVPGVAAKIFSALAEAGINIFMIS 42 (65)
T ss_dssp SEEEEEEEEEECGTTTSHHHHHHHHHHHHHTTS-ECEEE
T ss_pred CCEEEEEEEccccCCCcccHHHHHHHHHHHCCCCEEEEE
Confidence 34456777777 378999999999999999998666
No 148
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=31.02 E-value=57 Score=28.18 Aligned_cols=63 Identities=25% Similarity=0.297 Sum_probs=39.9
Q ss_pred eecCCCCccceeeeCCCcEEEeCCCCCCCchhhhHHHhhhcCCcEEEEeeeCC-----ceeEeeccccccCChhHHHHH
Q 007097 83 VFSSGQGLPGRALANSETIWLCNAQCADSKVFSRSLLAKSASIQTVICFPHLD-----GVIELGVTELVPEDPSLLQHI 156 (618)
Q Consensus 83 ~F~~G~GlpG~a~~~g~~~Wl~~~~~~~~~~~~R~~~a~~agIQTvvciP~~~-----GVvELGSte~v~Ed~~lv~~i 156 (618)
.++.+.++.++++..+++ +.... .+...+ .+++.++|||+.. |||.+++...-.=+..-++.+
T Consensus 49 ~l~~~~~~~~~~~~~~~~-~~~~~--~~~~~~--------~~~~s~~~vPl~~~~~~~Gvl~~~~~~~~~~~~~d~~~l 116 (129)
T PF13492_consen 49 SLPEDDPLIGRALETGEP-VSVPD--IDERDF--------LGIRSLLVVPLRSRDRVIGVLCLDSREPEEFSDEDLQLL 116 (129)
T ss_dssp CEETTSHHHHHHHHHTS--EEEST--CCC-TT--------TTTCEEEEEEEEETTEEEEEEEEEECTTCG-SHHHHHHH
T ss_pred cCCCCccHHHHHHhhCCe-EEecc--cccccC--------CCCCEEEEEEEeECCEEEEEEEEEECCCCCCCHHHHHHH
Confidence 556888889999999987 43322 111111 6778999999843 999998887544343333333
No 149
>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=27.92 E-value=2.5e+02 Score=21.89 Aligned_cols=27 Identities=15% Similarity=0.341 Sum_probs=22.8
Q ss_pred cCCCChHHHHHHHHHccCCeEEEEEee
Q 007097 556 PSREYILLDIMDAINNLHLDAYSVVSS 582 (618)
Q Consensus 556 ~~r~glL~~Im~aLe~L~LdV~svqsS 582 (618)
+..+|.+.+|+++|.+.++.+..+..+
T Consensus 10 ~~~~g~~~~i~~~L~~~~I~i~~i~~~ 36 (75)
T cd04913 10 PDKPGVAAKIFGALAEANINVDMIVQN 36 (75)
T ss_pred CCCCcHHHHHHHHHHHcCCeEEEEEeC
Confidence 667999999999999999999765443
No 150
>PRK09034 aspartate kinase; Reviewed
Probab=26.80 E-value=2.6e+02 Score=31.55 Aligned_cols=68 Identities=10% Similarity=0.115 Sum_probs=43.7
Q ss_pred EEEEeCCeEEEEEEcc---CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 541 KVSIQEMDVLIEMRCP---SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 541 eVsi~e~dvlIeI~C~---~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.|.+..+-++|.|... ..+|++.+|+++|.+.++.|.-+..++.+-.+.+.+.- .......++||+.+
T Consensus 378 ~I~~~~~va~VsivG~g~~~~~gv~arif~aL~~~~InV~mIsq~~Se~~Is~vV~~-------~d~~~av~~LH~~f 448 (454)
T PRK09034 378 ELEIEHDLAIIMVVGEGMRQTVGVAAKITKALAEANINIQMINQGSSEISIMFGVKN-------EDAEKAVKAIYNAF 448 (454)
T ss_pred eEEEeCCEEEEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecCCcceEEEEEcH-------HHHHHHHHHHHHHH
Confidence 3455566777877543 56899999999999999999877544444333333332 12344555666544
No 151
>PRK11898 prephenate dehydratase; Provisional
Probab=26.32 E-value=3.3e+02 Score=28.84 Aligned_cols=63 Identities=13% Similarity=0.115 Sum_probs=41.8
Q ss_pred EEEEEccC-CCChHHHHHHHHHccCCeEEEEEeecCC-ceEEEEEEEEeCCCcccCHHHHHHHHHHH
Q 007097 550 LIEMRCPS-REYILLDIMDAINNLHLDAYSVVSSNLD-GVLTLALKSTFRGAAIAPAGIIEQALWKI 614 (618)
Q Consensus 550 lIeI~C~~-r~glL~~Im~aLe~L~LdV~svqsS~~d-g~l~~ti~aKv~~~~~~s~~~IkqAL~~v 614 (618)
.|-+..+. ++|.|.+++..+...++.+++..+.-.. ...-+.|-+.+.+. ..-..++++|..+
T Consensus 198 slif~l~~~~pGsL~~~L~~F~~~~INLt~IeSRP~~~~~~~y~F~vd~eg~--~~~~~~~~al~~L 262 (283)
T PRK11898 198 SLVLTLPNNLPGALYKALSEFAWRGINLTRIESRPTKTGLGTYFFFIDVEGH--IDDVLVAEALKEL 262 (283)
T ss_pred EEEEEeCCCCccHHHHHHHHHHHCCCCeeeEecccCCCCCccEEEEEEEEcc--CCCHHHHHHHHHH
Confidence 34455555 5999999999999999999999987543 22344555555443 2323566666544
No 152
>PRK10622 pheA bifunctional chorismate mutase/prephenate dehydratase; Provisional
Probab=26.02 E-value=3.6e+02 Score=30.01 Aligned_cols=59 Identities=10% Similarity=0.037 Sum_probs=45.2
Q ss_pred cCCCChHHHHHHHHHccCCeEEEEEee-cCCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 556 PSREYILLDIMDAINNLHLDAYSVVSS-NLDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 556 ~~r~glL~~Im~aLe~L~LdV~svqsS-~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
++++|.|.+++..+...||..+...|- ..++..-+.|-+.+.+. ..-..+++||..+-.
T Consensus 305 ~~~pGaL~~~L~~Fa~~giNLtkIeSRP~~~~~~~Y~Ffid~eg~--~~d~~~~~aL~~l~~ 364 (386)
T PRK10622 305 GQQAGALVEALLVLRNHNLIMTKLESRPIHGNPWEEMFYLDVQAN--LRSAEMQKALKELGE 364 (386)
T ss_pred CCCCcHHHHHHHHHHHcCCCeeEEEeeecCCCCceEEEEEEEeCC--CCCHHHHHHHHHHHH
Confidence 689999999999999999999999987 44555677777777663 233467777776543
No 153
>PRK06291 aspartate kinase; Provisional
Probab=23.86 E-value=3.6e+02 Score=30.46 Aligned_cols=67 Identities=6% Similarity=0.049 Sum_probs=46.4
Q ss_pred EEEeCCeEEEEEEcc---CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 542 VSIQEMDVLIEMRCP---SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 542 Vsi~e~dvlIeI~C~---~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
|++.++-++|.|... .++|++.+++.+|.+.++.|+-..-++.+-.+.+.+..+ ......++|++.+
T Consensus 392 i~~~~~~a~IsvvG~gm~~~~gv~~rif~aL~~~~I~v~~isqgsSe~~Is~vV~~~-------d~~~av~~Lh~~f 461 (465)
T PRK06291 392 VTFDKDVCVVAVVGAGMAGTPGVAGRIFSALGESGINIKMISQGSSEVNISFVVDEE-------DGERAVKVLHDEF 461 (465)
T ss_pred eEEeCCEEEEEEEcCCccCCcChHHHHHHHHHHCCCCEEEEEeccccCeEEEEEeHH-------HHHHHHHHHHHHh
Confidence 445566677777765 478999999999999999998766555555555555422 2356666666654
No 154
>cd04891 ACT_AK-LysC-DapG-like_1 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins. This CD includes the N-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, as well as, the first and third, of four, ACT domains present in cyanobacteria AK. Also included are the N-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase isoenzyme AKI found in Bacilli (Bacillus subtilis strain 168), Clostridia, and Actinobacteria bacterial species. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.61 E-value=2.2e+02 Score=21.11 Aligned_cols=27 Identities=19% Similarity=0.330 Sum_probs=23.0
Q ss_pred cCCCChHHHHHHHHHccCCeEEEEEee
Q 007097 556 PSREYILLDIMDAINNLHLDAYSVVSS 582 (618)
Q Consensus 556 ~~r~glL~~Im~aLe~L~LdV~svqsS 582 (618)
+..+|.+.+|+++|.+.++.+..+..+
T Consensus 9 ~~~~~~~~~i~~~L~~~~i~i~~i~~~ 35 (61)
T cd04891 9 PDKPGVAAKIFSALAEAGINVDMIVQS 35 (61)
T ss_pred CCCCcHHHHHHHHHHHcCCcEEEEEEc
Confidence 567899999999999999999776553
No 155
>PRK06291 aspartate kinase; Provisional
Probab=23.59 E-value=2.8e+02 Score=31.43 Aligned_cols=51 Identities=10% Similarity=0.143 Sum_probs=37.1
Q ss_pred EEeCCeEEEEEEcc---CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEE
Q 007097 543 SIQEMDVLIEMRCP---SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALK 593 (618)
Q Consensus 543 si~e~dvlIeI~C~---~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~ 593 (618)
...++-++|.|.+. ..+|.+.+|+++|.+.++.|..+..++....+.+++.
T Consensus 316 t~~~~valIsI~g~~m~~~~g~~arvf~~L~~~gI~V~mIsq~sse~sIsf~V~ 369 (465)
T PRK06291 316 TLIKNVALINISGAGMVGVPGTAARIFSALAEEGVNVIMISQGSSESNISLVVD 369 (465)
T ss_pred EeeCCEEEEEEeCCCCCCCccHHHHHHHHHHHCCCcEEEEEecCCCceEEEEEe
Confidence 34566778898875 4689999999999999999987754444434444444
No 156
>TIGR00656 asp_kin_monofn aspartate kinase, monofunctional class. The Lys-sensitive enzyme of Bacillus subtilis resembles the E. coli form but is an alpha 2/beta 2 heterotetramer, where the beta subunit is translated from an in-phase alternative initiator at Met-246. The protein slr0657 from Synechocystis PCC6803 is extended by a duplication of the C-terminal region corresponding to the beta chain. Incorporation of a second copy of the C-terminal domain may be quite common in this subgroup of aspartokinases.
Probab=22.71 E-value=2.9e+02 Score=30.30 Aligned_cols=51 Identities=8% Similarity=0.199 Sum_probs=37.4
Q ss_pred EEEeCCeEEEEEE---ccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEE
Q 007097 542 VSIQEMDVLIEMR---CPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLAL 592 (618)
Q Consensus 542 Vsi~e~dvlIeI~---C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti 592 (618)
|....+-++|.|. -..++|.+.+|+.+|.+.++.|.....+..+..+.+++
T Consensus 254 I~~~~~va~vsv~g~~~~~~~g~~~~if~~L~~~~I~i~~i~~~~s~~~Is~~V 307 (401)
T TIGR00656 254 IALRKNVTRVTVHGLGMLGKRGFLARIFGALAERNINVDLISQTPSETSISLTV 307 (401)
T ss_pred EEEECCEEEEEEecCCCCCCccHHHHHHHHHHHcCCcEEEEEcCCCCceEEEEE
Confidence 4456677888888 45678999999999999999998776543343344444
No 157
>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=22.66 E-value=94 Score=26.21 Aligned_cols=34 Identities=32% Similarity=0.543 Sum_probs=26.5
Q ss_pred ceEEEE-EeCCeEEEEEEccCCCChHHHHHHHHHc
Q 007097 538 ADVKVS-IQEMDVLIEMRCPSREYILLDIMDAINN 571 (618)
Q Consensus 538 ~~VeVs-i~e~dvlIeI~C~~r~glL~~Im~aLe~ 571 (618)
.+-+|+ ..++|..+-|.||+++-+|-.|=-++++
T Consensus 5 ~dW~Vsrt~dGdYrL~itcp~Ke~LlqSIEgmi~~ 39 (71)
T PF11619_consen 5 ADWEVSRTLDGDYRLVITCPKKEWLLQSIEGMIKE 39 (71)
T ss_dssp -S-EEEEETTTCEEEEEEESSHHHHHHHHHHHHHH
T ss_pred ccceeeeccCCceEEEEecCcHHHHHHHHHHHHHH
Confidence 456776 4688999999999999988888777665
No 158
>cd04911 ACT_AKiii-YclM-BS_1 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Bacillus subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from Bacillus subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.06 E-value=1.2e+02 Score=26.15 Aligned_cols=37 Identities=3% Similarity=-0.000 Sum_probs=27.9
Q ss_pred CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEE
Q 007097 557 SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKST 595 (618)
Q Consensus 557 ~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aK 595 (618)
+.-|.+.+++++|+++|+.+-|.-++.. .+.+.++-+
T Consensus 13 ~evGF~rk~L~I~E~~~is~Eh~PSGID--~~Siii~~~ 49 (76)
T cd04911 13 REVGFGRKLLSILEDNGISYEHMPSGID--DISIIIRDN 49 (76)
T ss_pred chhcHHHHHHHHHHHcCCCEeeecCCCc--cEEEEEEcc
Confidence 3469999999999999999987665443 356666654
No 159
>PRK08210 aspartate kinase I; Reviewed
Probab=21.14 E-value=3.9e+02 Score=29.39 Aligned_cols=66 Identities=14% Similarity=0.106 Sum_probs=0.0
Q ss_pred EEEEeCCeEEEEEEcc---CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 541 KVSIQEMDVLIEMRCP---SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 541 eVsi~e~dvlIeI~C~---~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
.+.+.++-++|.|... .++|++.+++++|.+.++.|.. +++.+..+.+.+. .-......++|++.+
T Consensus 332 ~v~~~~~~a~isvvG~~~~~~~g~~~~i~~aL~~~~I~i~~--~~~s~~~is~vv~-------~~~~~~a~~~Lh~~f 400 (403)
T PRK08210 332 KPSVRENCAKVSIVGAGMAGVPGVMAKIVTALSEEGIEILQ--SADSHTTIWVLVK-------EEDMEKAVNALHDAF 400 (403)
T ss_pred cEEEeCCcEEEEEEcCCcCCCccHHHHHHHHHHhCCCCEEE--EecCCCEEEEEEc-------HHHHHHHHHHHHHHh
No 160
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=21.01 E-value=1.5e+02 Score=35.67 Aligned_cols=60 Identities=12% Similarity=0.153 Sum_probs=48.8
Q ss_pred EEEEEEccCCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHhh
Q 007097 549 VLIEMRCPSREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIAG 616 (618)
Q Consensus 549 vlIeI~C~~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi~ 616 (618)
..+||+...|+|+|..|+.+|. ||.-+.+++.+..+...+..+ + ...-..|.+++.+++.
T Consensus 632 ~~~e~r~~dr~g~l~~~~~~l~----~~~~~~~~~~g~~~~~~~~~~--~--~~~r~~~~~~~~~~~~ 691 (693)
T PRK00227 632 NILEVRTEDRRGALGALLGVLP----DLLWITASTPGATMIVQAALK--P--GFDRATVERDVTRVLA 691 (693)
T ss_pred cEEEEEeCccccHHHHHHHHhh----hhhhHhhcCCCcceEEEEEec--C--cccHHHHHHHHHHHHh
Confidence 6899999999999999999999 899999999998887777666 2 1345677777776653
No 161
>PLN02551 aspartokinase
Probab=20.62 E-value=5e+02 Score=30.14 Aligned_cols=67 Identities=12% Similarity=0.118 Sum_probs=44.3
Q ss_pred EEEeCCeEEEEEEcc--CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 542 VSIQEMDVLIEMRCP--SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 542 Vsi~e~dvlIeI~C~--~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
|.+..+-+.|.|... +.+|++.+++.+|.+.++.|.-+.-.+.+-.+.+.|..+ ......++||+.+
T Consensus 439 V~v~~~vAiISvVG~~~~~~gvaariF~aLa~~gInV~mIsqgaSeinIS~vV~~~-------d~~~Av~aLH~~F 507 (521)
T PLN02551 439 VNLLQGRSIISLIGNVQRSSLILEKVFRVLRTNGVNVQMISQGASKVNISLIVNDD-------EAEQCVRALHSAF 507 (521)
T ss_pred EEEeCCEEEEEEEccCCCCccHHHHHHHHHHHCCCCeEEEEecCCCcEEEEEEeHH-------HHHHHHHHHHHHH
Confidence 444556666777654 468999999999999999998666545444444444422 3455666666654
No 162
>PRK07431 aspartate kinase; Provisional
Probab=20.17 E-value=4.3e+02 Score=30.75 Aligned_cols=65 Identities=8% Similarity=0.099 Sum_probs=43.2
Q ss_pred EEEeCCeEEEEEEcc---CCCChHHHHHHHHHccCCeEEEEEeecCCceEEEEEEEEeCCCcccCHHHHHHHHHHHh
Q 007097 542 VSIQEMDVLIEMRCP---SREYILLDIMDAINNLHLDAYSVVSSNLDGVLTLALKSTFRGAAIAPAGIIEQALWKIA 615 (618)
Q Consensus 542 Vsi~e~dvlIeI~C~---~r~glL~~Im~aLe~L~LdV~svqsS~~dg~l~~ti~aKv~~~~~~s~~~IkqAL~~vi 615 (618)
|.+..+-++|.|.+. ..+|++.+++.+|.+.++.|+.... .+-.+.+.+.. -....+.++|++.+
T Consensus 342 i~~~~~~a~IsvvG~gm~~~~gi~~ki~~aL~~~~I~i~~i~s--Se~~Is~vv~~-------~d~~~av~~Lh~~f 409 (587)
T PRK07431 342 VLVETNVAKLSISGAGMMGRPGIAAKMFDTLAEAGINIRMIST--SEVKVSCVIDA-------EDGDKALRAVCEAF 409 (587)
T ss_pred EEEeCCeEEEEEECCCcccCccHHHHHHHHHHHCCCcEEEEEc--CCCEEEEEEcH-------HHHHHHHHHHHHHh
Confidence 444556667777765 5689999999999999999987763 23333333332 22456666666654
Done!