Query 036406
Match_columns 241
No_of_seqs 142 out of 676
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 12:21:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036406.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036406hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00010 HLH: Helix-loop-helix 99.4 1.3E-12 2.9E-17 91.0 5.6 53 76-128 1-55 (55)
2 cd00083 HLH Helix-loop-helix d 99.3 2.7E-12 5.9E-17 89.8 5.9 58 75-132 3-60 (60)
3 smart00353 HLH helix loop heli 99.3 7.6E-12 1.7E-16 86.0 6.3 52 81-132 1-52 (53)
4 KOG1318 Helix loop helix trans 98.6 9.4E-08 2E-12 91.3 7.1 64 72-135 229-293 (411)
5 KOG4029 Transcription factor H 98.3 1E-06 2.2E-11 78.0 4.7 67 71-137 104-171 (228)
6 KOG2483 Upstream transcription 98.1 1.1E-05 2.4E-10 72.3 7.8 70 73-142 56-125 (232)
7 KOG1319 bHLHZip transcription 98.0 1.2E-05 2.6E-10 69.9 6.5 69 74-142 60-132 (229)
8 KOG3561 Aryl-hydrocarbon recep 97.9 1.1E-05 2.3E-10 82.9 4.3 58 70-130 14-75 (803)
9 PLN03217 transcription factor 97.7 9.7E-05 2.1E-09 56.7 5.7 57 88-144 19-78 (93)
10 KOG4304 Transcriptional repres 97.6 3.8E-05 8.2E-10 69.5 2.5 62 72-133 28-94 (250)
11 KOG3960 Myogenic helix-loop-he 97.1 0.0013 2.8E-08 59.7 6.6 68 73-142 115-183 (284)
12 KOG0561 bHLH transcription fac 97.0 0.00033 7.1E-09 65.0 2.3 60 75-135 59-118 (373)
13 cd04895 ACT_ACR_1 ACT domain-c 96.7 0.009 1.9E-07 44.4 7.3 43 187-229 10-52 (72)
14 cd04900 ACT_UUR-like_1 ACT dom 96.6 0.017 3.7E-07 41.9 7.8 48 178-227 3-51 (73)
15 KOG2588 Predicted DNA-binding 96.5 0.0013 2.9E-08 68.5 2.3 66 75-142 275-340 (953)
16 cd04897 ACT_ACR_3 ACT domain-c 96.4 0.029 6.2E-07 42.1 8.1 45 186-230 9-53 (75)
17 cd04927 ACT_ACR-like_2 Second 96.2 0.037 8E-07 40.8 7.9 40 187-226 9-49 (76)
18 cd04926 ACT_ACR_4 C-terminal 96.1 0.047 1E-06 39.6 7.9 50 177-228 2-51 (72)
19 cd04896 ACT_ACR-like_3 ACT dom 95.7 0.056 1.2E-06 40.5 7.0 39 187-225 9-49 (75)
20 cd04925 ACT_ACR_2 ACT domain-c 95.0 0.17 3.6E-06 36.9 7.6 40 187-226 9-48 (74)
21 cd04928 ACT_TyrKc Uncharacteri 94.9 0.21 4.5E-06 36.8 7.6 49 178-228 3-52 (68)
22 KOG3910 Helix loop helix trans 94.9 0.017 3.8E-07 56.9 2.5 64 72-135 522-586 (632)
23 KOG4447 Transcription factor T 94.8 0.015 3.2E-07 49.4 1.7 59 72-131 74-132 (173)
24 cd04899 ACT_ACR-UUR-like_2 C-t 94.6 0.36 7.9E-06 33.7 8.2 44 187-230 9-52 (70)
25 KOG3898 Transcription factor N 93.6 0.042 9.2E-07 49.9 2.1 58 73-130 69-126 (254)
26 KOG4395 Transcription factor A 92.1 0.27 5.9E-06 44.9 5.1 59 74-132 172-230 (285)
27 cd04873 ACT_UUR-ACR-like ACT d 92.1 1.6 3.4E-05 30.0 8.1 43 187-229 9-51 (70)
28 PF13291 ACT_4: ACT domain; PD 90.9 2.4 5.2E-05 30.7 8.3 43 187-229 15-59 (80)
29 PRK00275 glnD PII uridylyl-tra 90.8 1.4 3E-05 46.7 9.5 51 177-229 815-865 (895)
30 PF13740 ACT_6: ACT domain; PD 90.3 2 4.4E-05 31.2 7.5 41 187-227 11-51 (76)
31 PRK05007 PII uridylyl-transfer 90.1 0.93 2E-05 47.9 7.5 42 187-228 817-858 (884)
32 PRK04374 PII uridylyl-transfer 88.3 2.2 4.7E-05 45.2 8.6 62 166-229 784-847 (869)
33 PF01842 ACT: ACT domain; Int 88.2 5.2 0.00011 27.0 8.0 30 187-216 9-38 (66)
34 PRK03059 PII uridylyl-transfer 87.6 2.9 6.3E-05 44.1 9.1 46 177-224 787-832 (856)
35 PRK03381 PII uridylyl-transfer 87.2 2.4 5.1E-05 44.2 8.1 52 174-227 597-648 (774)
36 cd04887 ACT_MalLac-Enz ACT_Mal 87.1 3.5 7.5E-05 29.0 6.7 43 187-229 8-51 (74)
37 cd04886 ACT_ThrD-II-like C-ter 87.0 3.6 7.7E-05 28.0 6.6 42 187-228 7-53 (73)
38 PRK01759 glnD PII uridylyl-tra 86.9 3.6 7.7E-05 43.4 9.3 62 166-229 665-729 (854)
39 PRK03381 PII uridylyl-transfer 86.8 3.3 7.2E-05 43.1 8.9 51 177-229 708-758 (774)
40 PRK01759 glnD PII uridylyl-tra 86.5 2.1 4.6E-05 45.0 7.3 43 187-229 792-834 (854)
41 PRK03059 PII uridylyl-transfer 85.9 3 6.6E-05 44.0 8.1 54 174-229 676-730 (856)
42 cd04893 ACT_GcvR_1 ACT domains 85.8 4.8 0.0001 29.4 7.0 47 179-227 4-50 (77)
43 PRK05092 PII uridylyl-transfer 85.4 4.6 0.0001 42.9 9.2 62 166-229 831-894 (931)
44 PRK00275 glnD PII uridylyl-tra 85.1 3.2 7E-05 44.0 7.9 54 175-230 703-757 (895)
45 PRK05007 PII uridylyl-transfer 84.6 5.6 0.00012 42.1 9.4 62 166-229 689-753 (884)
46 TIGR01693 UTase_glnD [Protein- 84.3 4.5 9.6E-05 42.4 8.5 54 174-229 666-720 (850)
47 cd04888 ACT_PheB-BS C-terminal 84.1 6.4 0.00014 27.6 6.9 43 187-229 9-52 (76)
48 cd04880 ACT_AAAH-PDT-like ACT 83.5 5.2 0.00011 28.6 6.3 42 187-228 8-50 (75)
49 cd04869 ACT_GcvR_2 ACT domains 81.5 11 0.00024 26.9 7.4 41 187-227 8-54 (81)
50 PRK04374 PII uridylyl-transfer 81.0 6.6 0.00014 41.6 8.3 54 174-229 688-742 (869)
51 PRK05092 PII uridylyl-transfer 80.8 9.8 0.00021 40.4 9.5 62 166-229 720-784 (931)
52 COG2844 GlnD UTP:GlnB (protein 80.2 4.2 9E-05 42.9 6.3 60 166-229 779-842 (867)
53 TIGR01693 UTase_glnD [Protein- 80.2 6.1 0.00013 41.4 7.7 43 187-229 788-830 (850)
54 cd04874 ACT_Af1403 N-terminal 78.2 12 0.00025 25.4 6.3 36 187-222 9-45 (72)
55 PRK00194 hypothetical protein; 77.8 7.2 0.00016 28.8 5.5 48 179-228 6-53 (90)
56 cd04905 ACT_CM-PDT C-terminal 77.6 14 0.00031 26.7 6.9 43 187-229 10-53 (80)
57 KOG3559 Transcriptional regula 77.4 2.3 5E-05 41.7 3.3 43 81-126 6-52 (598)
58 PRK04435 hypothetical protein; 76.7 13 0.00027 30.9 7.2 43 187-229 78-121 (147)
59 KOG3558 Hypoxia-inducible fact 76.2 1.8 3.9E-05 44.6 2.4 49 74-125 44-96 (768)
60 cd04872 ACT_1ZPV ACT domain pr 75.2 8.7 0.00019 28.4 5.3 43 186-228 9-51 (88)
61 cd04875 ACT_F4HF-DF N-terminal 73.6 16 0.00036 25.9 6.3 28 186-213 7-34 (74)
62 cd04876 ACT_RelA-SpoT ACT dom 73.6 19 0.00041 23.1 6.2 41 187-227 7-48 (71)
63 KOG4447 Transcription factor T 72.7 3.3 7.1E-05 35.4 2.7 52 75-127 21-72 (173)
64 cd04870 ACT_PSP_1 CT domains f 71.3 16 0.00036 26.1 5.9 44 186-229 7-50 (75)
65 cd04882 ACT_Bt0572_2 C-termina 71.1 11 0.00024 25.3 4.7 39 187-225 8-48 (65)
66 cd04879 ACT_3PGDH-like ACT_3PG 69.0 16 0.00036 24.3 5.2 38 187-224 8-47 (71)
67 cd04877 ACT_TyrR N-terminal AC 68.6 26 0.00057 24.9 6.4 38 187-227 9-46 (74)
68 cd02116 ACT ACT domains are co 67.9 24 0.00052 21.2 6.6 28 188-215 8-35 (60)
69 cd04889 ACT_PDH-BS-like C-term 66.8 21 0.00046 23.8 5.3 40 187-226 7-47 (56)
70 KOG3560 Aryl-hydrocarbon recep 66.3 4.3 9.2E-05 41.1 2.4 37 86-125 35-75 (712)
71 cd04878 ACT_AHAS N-terminal AC 65.8 37 0.00081 22.6 6.6 40 187-226 9-50 (72)
72 cd04908 ACT_Bt0572_1 N-termina 65.7 21 0.00046 24.8 5.4 40 187-228 10-49 (66)
73 cd04922 ACT_AKi-HSDH-ThrA_2 AC 60.8 43 0.00094 22.5 6.1 36 187-222 13-48 (66)
74 cd04868 ACT_AK-like ACT domain 60.8 26 0.00056 22.3 4.8 36 188-223 13-48 (60)
75 cd04883 ACT_AcuB C-terminal AC 58.7 57 0.0012 22.4 7.4 43 186-228 9-53 (72)
76 cd04884 ACT_CBS C-terminal ACT 58.6 41 0.00088 23.6 5.8 28 187-214 8-35 (72)
77 cd04903 ACT_LSD C-terminal ACT 58.5 41 0.00089 22.4 5.7 36 187-222 8-45 (71)
78 cd04881 ACT_HSDH-Hom ACT_HSDH_ 58.2 45 0.00097 22.7 5.9 41 187-227 9-51 (79)
79 cd04931 ACT_PAH ACT domain of 57.2 53 0.0012 25.1 6.6 43 186-228 22-65 (90)
80 COG2844 GlnD UTP:GlnB (protein 56.7 31 0.00067 36.7 6.7 56 169-226 677-733 (867)
81 cd04918 ACT_AK1-AT_2 ACT domai 56.6 58 0.0013 22.6 6.3 36 188-223 13-48 (65)
82 PRK07334 threonine dehydratase 56.4 47 0.001 31.7 7.5 51 177-229 327-382 (403)
83 cd04904 ACT_AAAH ACT domain of 56.3 46 0.001 23.9 5.9 42 187-228 9-51 (74)
84 cd04902 ACT_3PGDH-xct C-termin 55.9 25 0.00054 24.2 4.3 40 187-226 8-49 (73)
85 cd04919 ACT_AK-Hom3_2 ACT doma 53.0 57 0.0012 22.1 5.7 36 187-222 13-48 (66)
86 COG4492 PheB ACT domain-contai 52.8 38 0.00082 28.5 5.4 52 178-229 72-124 (150)
87 cd04890 ACT_AK-like_1 ACT doma 51.4 47 0.001 22.4 5.0 35 188-224 13-47 (62)
88 cd04912 ACT_AKiii-LysC-EC-like 50.2 81 0.0018 22.5 6.3 36 187-224 13-48 (75)
89 cd04929 ACT_TPH ACT domain of 49.8 84 0.0018 23.0 6.4 43 187-229 9-52 (74)
90 cd04892 ACT_AK-like_2 ACT doma 48.7 72 0.0016 20.6 6.1 27 187-213 12-38 (65)
91 PRK08577 hypothetical protein; 47.0 1.4E+02 0.0029 24.0 7.8 43 187-229 65-109 (136)
92 cd04916 ACT_AKiii-YclM-BS_2 AC 46.2 88 0.0019 20.9 6.1 36 187-222 13-48 (66)
93 PF05687 DUF822: Plant protein 44.0 20 0.00044 30.3 2.5 29 73-101 8-36 (150)
94 cd04901 ACT_3PGDH C-terminal A 43.8 17 0.00036 24.9 1.7 42 186-227 7-48 (69)
95 PF14689 SPOB_a: Sensor_kinase 40.1 72 0.0016 22.5 4.6 41 85-135 17-57 (62)
96 PF06005 DUF904: Protein of un 38.7 65 0.0014 23.9 4.3 27 116-142 12-38 (72)
97 TIGR00691 spoT_relA (p)ppGpp s 37.9 1.4E+02 0.0031 30.9 8.1 43 187-229 619-662 (683)
98 COG3074 Uncharacterized protei 36.4 67 0.0015 24.1 4.0 27 117-143 13-39 (79)
99 cd04885 ACT_ThrD-I Tandem C-te 35.9 1.4E+02 0.003 20.8 5.6 42 186-228 6-48 (68)
100 cd04937 ACT_AKi-DapG-BS_2 ACT 35.3 1.5E+02 0.0032 20.3 5.9 21 187-207 13-33 (64)
101 PF13710 ACT_5: ACT domain; PD 35.2 1.6E+02 0.0035 20.7 6.1 39 188-226 2-42 (63)
102 smart00338 BRLZ basic region l 34.6 61 0.0013 22.8 3.5 23 121-143 25-47 (65)
103 PF14992 TMCO5: TMCO5 family 34.0 54 0.0012 30.6 3.9 34 109-142 138-171 (280)
104 PF00170 bZIP_1: bZIP transcri 33.9 67 0.0014 22.5 3.6 23 121-143 25-47 (64)
105 cd04935 ACT_AKiii-DAPDC_1 ACT 33.5 1.5E+02 0.0032 21.5 5.5 37 187-225 13-49 (75)
106 cd04923 ACT_AK-LysC-DapG-like_ 33.4 1.4E+02 0.003 19.5 6.3 34 187-222 12-45 (63)
107 cd04930 ACT_TH ACT domain of t 33.3 1.5E+02 0.0033 23.6 6.0 43 187-229 50-93 (115)
108 cd04909 ACT_PDH-BS C-terminal 32.7 1.6E+02 0.0035 20.0 6.4 28 187-214 10-37 (69)
109 PF02344 Myc-LZ: Myc leucine z 32.7 48 0.001 21.1 2.3 19 82-100 11-29 (32)
110 PRK11092 bifunctional (p)ppGpp 32.7 2E+02 0.0042 30.1 8.1 43 187-229 635-678 (702)
111 cd04932 ACT_AKiii-LysC-EC_1 AC 32.4 2E+02 0.0042 20.9 6.7 36 187-224 13-48 (75)
112 KOG3582 Mlx interactors and re 30.4 16 0.00035 38.1 -0.2 68 73-140 648-717 (856)
113 cd04915 ACT_AK-Ectoine_2 ACT d 29.9 2E+02 0.0042 20.1 6.0 35 188-222 14-48 (66)
114 cd04924 ACT_AK-Arch_2 ACT doma 29.8 1.7E+02 0.0037 19.4 5.7 36 187-222 13-48 (66)
115 PRK10872 relA (p)ppGpp synthet 29.7 2.4E+02 0.0052 29.8 8.1 43 187-229 675-719 (743)
116 cd04921 ACT_AKi-HSDH-ThrA-like 29.6 1.6E+02 0.0034 20.7 5.1 35 187-221 13-47 (80)
117 cd04894 ACT_ACR-like_1 ACT dom 29.5 1.8E+02 0.004 21.5 5.2 47 178-227 2-48 (69)
118 cd04933 ACT_AK1-AT_1 ACT domai 29.1 2.4E+02 0.0052 20.9 6.4 36 187-224 13-48 (78)
119 PF13840 ACT_7: ACT domain ; P 28.9 1.4E+02 0.0031 20.8 4.7 24 187-210 19-42 (65)
120 TIGR00119 acolac_sm acetolacta 28.8 2.1E+02 0.0045 24.2 6.4 40 187-226 10-51 (157)
121 PRK06027 purU formyltetrahydro 27.8 2.6E+02 0.0056 25.7 7.3 47 178-226 8-56 (286)
122 cd04936 ACT_AKii-LysC-BS-like_ 27.7 1.8E+02 0.0039 18.9 6.1 26 187-212 12-37 (63)
123 PF09789 DUF2353: Uncharacteri 27.7 2.2E+02 0.0048 27.0 6.9 35 109-143 66-100 (319)
124 PRK11895 ilvH acetolactate syn 27.6 2E+02 0.0043 24.4 6.0 40 187-226 11-52 (161)
125 PHA03165 hypothetical protein; 27.0 24 0.00052 24.5 0.3 12 1-12 8-20 (57)
126 PF04420 CHD5: CHD5-like prote 26.7 2.2E+02 0.0047 23.9 6.1 50 81-144 39-88 (161)
127 PRK15422 septal ring assembly 26.5 1.3E+02 0.0028 23.0 4.2 27 117-143 13-39 (79)
128 cd04891 ACT_AK-LysC-DapG-like_ 26.2 1.8E+02 0.0039 18.5 6.0 27 187-213 10-36 (61)
129 cd04934 ACT_AK-Hom3_1 CT domai 26.0 2E+02 0.0043 20.8 5.1 35 188-224 14-48 (73)
130 cd04906 ACT_ThrD-I_1 First of 26.0 2.1E+02 0.0045 21.0 5.3 42 185-228 8-50 (85)
131 TIGR01834 PHA_synth_III_E poly 25.3 1.6E+02 0.0035 28.0 5.5 28 117-144 291-318 (320)
132 PRK08198 threonine dehydratase 23.8 3.4E+02 0.0073 25.7 7.5 43 186-228 335-382 (404)
133 PRK13011 formyltetrahydrofolat 23.6 3.5E+02 0.0075 24.9 7.3 48 178-227 9-56 (286)
134 PF10393 Matrilin_ccoil: Trime 22.2 2.5E+02 0.0055 19.2 4.6 32 112-143 13-44 (47)
135 PRK11589 gcvR glycine cleavage 22.2 1.8E+02 0.0039 25.3 4.9 41 186-226 16-56 (190)
136 PRK00227 glnD PII uridylyl-tra 21.5 3E+02 0.0065 28.8 7.1 40 186-226 555-594 (693)
137 PF14193 DUF4315: Domain of un 21.5 1.8E+02 0.0039 22.2 4.2 27 117-143 10-36 (83)
138 TIGR00655 PurU formyltetrahydr 21.3 4.1E+02 0.0089 24.4 7.3 43 186-228 8-52 (280)
139 TIGR01127 ilvA_1Cterm threonin 21.3 3.8E+02 0.0083 25.1 7.3 44 185-228 312-360 (380)
140 PF02120 Flg_hook: Flagellar h 21.1 2.7E+02 0.006 19.9 5.1 48 167-214 28-79 (85)
141 COG4710 Predicted DNA-binding 20.9 1.6E+02 0.0036 22.2 3.7 33 90-129 15-48 (80)
142 PF06399 GFRP: GTP cyclohydrol 20.8 2.8E+02 0.006 21.4 5.0 30 192-223 52-81 (83)
143 PF13224 DUF4032: Domain of un 20.6 1.7E+02 0.0038 25.2 4.4 41 190-230 19-59 (165)
No 1
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=99.35 E-value=1.3e-12 Score=91.03 Aligned_cols=53 Identities=28% Similarity=0.481 Sum_probs=47.7
Q ss_pred ccccchHHHHHHHHHHHHhHHHHHccCCCC--CcCCCCchhhhHHHHHHHHHHHH
Q 036406 76 KKLMHRDVERQRRQEMATLYASLRALLPLE--FIKGKRSISDQMNEGVNYVKYLE 128 (241)
Q Consensus 76 ~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~--~~~~K~Si~~~l~eAI~YIk~Lq 128 (241)
+|..|+..||+||..||..|..|+.+||.. ....|.+..++|..||+||++||
T Consensus 1 rR~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 1 RRQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 467899999999999999999999999995 24567888888999999999997
No 2
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=99.33 E-value=2.7e-12 Score=89.83 Aligned_cols=58 Identities=28% Similarity=0.455 Sum_probs=50.1
Q ss_pred cccccchHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHH
Q 036406 75 NKKLMHRDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKKIK 132 (241)
Q Consensus 75 ~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v~ 132 (241)
.++..|+..||+||.+||..|..|+++||......|.+.+.+|..||+||+.|+.+++
T Consensus 3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 4678899999999999999999999999998544455556669999999999998763
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.29 E-value=7.6e-12 Score=85.98 Aligned_cols=52 Identities=27% Similarity=0.466 Sum_probs=44.2
Q ss_pred hHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHH
Q 036406 81 RDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKKIK 132 (241)
Q Consensus 81 ~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v~ 132 (241)
+..||+||.+||..|..|+++||......|.+.+.+|..||+||++|+++++
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 4689999999999999999999975534455555669999999999999876
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=98.59 E-value=9.4e-08 Score=91.34 Aligned_cols=64 Identities=20% Similarity=0.364 Sum_probs=52.6
Q ss_pred CcccccccchHHHHHHHHHHHHhHHHHHccCCCCCcCC-CCchhhhHHHHHHHHHHHHHHHHHHH
Q 036406 72 YNNNKKLMHRDVERQRRQEMATLYASLRALLPLEFIKG-KRSISDQMNEGVNYVKYLEKKIKELG 135 (241)
Q Consensus 72 ~~~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~-K~Si~~~l~eAI~YIk~Lq~~v~~L~ 135 (241)
....||..||++||+||..||++.-.|.-|||.....+ |..+..+|..+++||++||+..++..
T Consensus 229 rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~ 293 (411)
T KOG1318|consen 229 RDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRAR 293 (411)
T ss_pred HHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHH
Confidence 34688999999999999999999999999999864322 34444459999999999999887444
No 5
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=98.26 E-value=1e-06 Score=78.03 Aligned_cols=67 Identities=28% Similarity=0.392 Sum_probs=59.4
Q ss_pred CCcccccccchHHHHHHHHHHHHhHHHHHccCCCCCc-CCCCchhhhHHHHHHHHHHHHHHHHHHHHH
Q 036406 71 NYNNNKKLMHRDVERQRRQEMATLYASLRALLPLEFI-KGKRSISDQMNEGVNYVKYLEKKIKELGVK 137 (241)
Q Consensus 71 ~~~~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~-~~K~Si~~~l~eAI~YIk~Lq~~v~~L~~~ 137 (241)
......+..+|+.||+|-+.+|..|..||.+||.... ..|.|+.++|..||.||+.|+.-++.-+..
T Consensus 104 ~~~~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~ 171 (228)
T KOG4029|consen 104 SQTSAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAP 171 (228)
T ss_pred cchhhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccC
Confidence 3456788889999999999999999999999999887 778999999999999999999888766633
No 6
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.09 E-value=1.1e-05 Score=72.31 Aligned_cols=70 Identities=17% Similarity=0.315 Sum_probs=56.8
Q ss_pred cccccccchHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 036406 73 NNNKKLMHRDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKKIKELGVKRDELK 142 (241)
Q Consensus 73 ~~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v~~L~~~k~el~ 142 (241)
....+..||+-||+||-+++..|..|+.+||...-..+-....+|+.|..||+.|+....+.+...+++.
T Consensus 56 ~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~e~l~ 125 (232)
T KOG2483|consen 56 AASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQDIEDLS 125 (232)
T ss_pred CCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHHHHHHH
Confidence 4577889999999999999999999999999865443322456699999999999988877776655544
No 7
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.02 E-value=1.2e-05 Score=69.92 Aligned_cols=69 Identities=22% Similarity=0.400 Sum_probs=58.4
Q ss_pred ccccccchHHHHHHHHHHHHhHHHHHccCCCCCcCC----CCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 036406 74 NNKKLMHRDVERQRRQEMATLYASLRALLPLEFIKG----KRSISDQMNEGVNYVKYLEKKIKELGVKRDELK 142 (241)
Q Consensus 74 ~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~----K~Si~~~l~eAI~YIk~Lq~~v~~L~~~k~el~ 142 (241)
+-+|..|-.+||+||.-+|.-|..|..|||.....+ |.|..-+|-.||+||.+|..+..+-+++...|.
T Consensus 60 ~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~ 132 (229)
T KOG1319|consen 60 DRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLR 132 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356899999999999999999999999999766555 777777899999999999988877776655543
No 8
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=97.88 E-value=1.1e-05 Score=82.93 Aligned_cols=58 Identities=16% Similarity=0.378 Sum_probs=50.4
Q ss_pred CCCcccccccchHHHHHHHHHHHHhHHHHHccCCCCC----cCCCCchhhhHHHHHHHHHHHHHH
Q 036406 70 SNYNNNKKLMHRDVERQRRQEMATLYASLRALLPLEF----IKGKRSISDQMNEGVNYVKYLEKK 130 (241)
Q Consensus 70 ~~~~~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~----~~~K~Si~~~l~eAI~YIk~Lq~~ 130 (241)
+++...+|..|+.+||+||.+||.+...|.+|||... |+||.+| |..||.+|+.+++.
T Consensus 14 d~k~r~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tV---Lr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 14 DSKDRKKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTV---LRMAVDHLRLIKEQ 75 (803)
T ss_pred cchhhhccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHH---HHHHHHHHHHHhhh
Confidence 3556677999999999999999999999999999765 5566666 99999999999885
No 9
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.68 E-value=9.7e-05 Score=56.74 Aligned_cols=57 Identities=23% Similarity=0.348 Sum_probs=50.2
Q ss_pred HHHHHHhHHHHHccCCCCCc---CCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 036406 88 RQEMATLYASLRALLPLEFI---KGKRSISDQMNEGVNYVKYLEKKIKELGVKRDELKRL 144 (241)
Q Consensus 88 R~~mn~~f~~LrsLlP~~~~---~~K~Si~~~l~eAI~YIk~Lq~~v~~L~~~k~el~~~ 144 (241)
-.+|+++...|+.|||.... .+|+|.+.+|.|+-+||+.|+.+|..|.++..+|...
T Consensus 19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL~t 78 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELLAN 78 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 36899999999999998643 3588889999999999999999999999999888654
No 10
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=97.58 E-value=3.8e-05 Score=69.54 Aligned_cols=62 Identities=21% Similarity=0.318 Sum_probs=52.4
Q ss_pred CcccccccchHHHHHHHHHHHHhHHHHHccCCCCCcCC-----CCchhhhHHHHHHHHHHHHHHHHH
Q 036406 72 YNNNKKLMHRDVERQRRQEMATLYASLRALLPLEFIKG-----KRSISDQMNEGVNYVKYLEKKIKE 133 (241)
Q Consensus 72 ~~~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~-----K~Si~~~l~eAI~YIk~Lq~~v~~ 133 (241)
....+|..|-..||+||-+||+.+..|+.|||...+++ |.-+.|||.-|++|++.|+.....
T Consensus 28 ~~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~ 94 (250)
T KOG4304|consen 28 TRQYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQA 94 (250)
T ss_pred hHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence 34688999999999999999999999999999877663 455567799999999999876543
No 11
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.11 E-value=0.0013 Score=59.66 Aligned_cols=68 Identities=12% Similarity=0.204 Sum_probs=54.2
Q ss_pred cccccccchHHHHHHHHHHHHhHHHHHcc-CCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 036406 73 NNNKKLMHRDVERQRRQEMATLYASLRAL-LPLEFIKGKRSISDQMNEGVNYVKYLEKKIKELGVKRDELK 142 (241)
Q Consensus 73 ~~~~k~~H~~~ER~RR~~mn~~f~~LrsL-lP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v~~L~~~k~el~ 142 (241)
...+|..--+.||+|=+|+|+.|.+|.-- .++.. -+..+++||.-||.||..||+-++++......+.
T Consensus 115 svDRRKAATMRERRRLkKVNEAFE~LKRrT~~NPN--QRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~~ 183 (284)
T KOG3960|consen 115 SVDRRKAATMRERRRLKKVNEAFETLKRRTSSNPN--QRLPKVEILRSAIRYIERLQALLQEQDQAEKGLA 183 (284)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcc--ccccHHHHHHHHHHHHHHHHHHHHHhhccchhhh
Confidence 45677777899999999999999999644 44433 2555678899999999999999999987666553
No 12
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.04 E-value=0.00033 Score=64.99 Aligned_cols=60 Identities=30% Similarity=0.351 Sum_probs=49.6
Q ss_pred cccccchHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHHH
Q 036406 75 NKKLMHRDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKKIKELG 135 (241)
Q Consensus 75 ~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v~~L~ 135 (241)
.+|..-|--||+|=+-+|.-|.+||+|||.... .|.|+..+|-.+.+||.+|+..--+|-
T Consensus 59 mRReIANsNERRRMQSINAGFqsLr~LlPr~eG-EKLSKAAILQQTa~yI~~Le~~Kt~ll 118 (373)
T KOG0561|consen 59 MRREIANSNERRRMQSINAGFQSLRALLPRKEG-EKLSKAAILQQTADYIHQLEGHKTELL 118 (373)
T ss_pred HHHHhhcchHHHHHHhhhHHHHHHHHhcCcccc-hhhHHHHHHHHHHHHHHHHHhcccccc
Confidence 556666778999999999999999999998543 477777779999999999987665554
No 13
>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=96.71 E-value=0.009 Score=44.41 Aligned_cols=43 Identities=14% Similarity=0.158 Sum_probs=39.4
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
+++|+|.+|..+|.++||+|..|-+++.|+++.-+|.+.=.++
T Consensus 10 DRpGLL~~i~~~l~~~gl~I~~AkIsT~Gerv~DvFyV~d~~g 52 (72)
T cd04895 10 RKPGILLEAVQVLTDLDLCITKAYISSDGGWFMDVFHVTDQLG 52 (72)
T ss_pred CcCCHHHHHHHHHHHCCcEEEEEEEeecCCeEEEEEEEECCCC
Confidence 5899999999999999999999999999999999999875443
No 14
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD is the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted tyrosine kinase. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=96.56 E-value=0.017 Score=41.88 Aligned_cols=48 Identities=15% Similarity=0.083 Sum_probs=39.7
Q ss_pred EEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeee-CCeEEEEEEEEec
Q 036406 178 EIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRV-DERLLHTIQAELN 227 (241)
Q Consensus 178 eI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~-~~~vl~tI~akv~ 227 (241)
+|.+.+. +++++|+++..+|..+|++|++|.+.+. +|.++-+|...-.
T Consensus 3 ~i~v~~~--Dr~gLl~~i~~~l~~~~l~I~~A~i~T~~~~~v~D~F~v~~~ 51 (73)
T cd04900 3 EVFIYTP--DRPGLFARIAGALDQLGLNILDARIFTTRDGYALDTFVVLDP 51 (73)
T ss_pred EEEEEec--CCCCHHHHHHHHHHHCCCCeEEeEEEEeCCCeEEEEEEEECC
Confidence 4444443 5899999999999999999999999776 7999999998643
No 15
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=96.52 E-value=0.0013 Score=68.49 Aligned_cols=66 Identities=20% Similarity=0.322 Sum_probs=54.9
Q ss_pred cccccchHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 036406 75 NKKLMHRDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKKIKELGVKRDELK 142 (241)
Q Consensus 75 ~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v~~L~~~k~el~ 142 (241)
.+|.+||.+||+-|.-+|+....|+.+||....+- ..+..|..||+||++|+...+.|......+.
T Consensus 275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl--~kSavLr~ai~~i~dl~~~nq~lk~~~~~l~ 340 (953)
T KOG2588|consen 275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKL--NKSAVLRKAIDYIEDLQGYNQKLKLENASLR 340 (953)
T ss_pred cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhh--hhhhhHHHHHHHHHHhhccccccchhhhhhh
Confidence 67999999999999999999999999999765432 2345599999999999998888776655544
No 16
>cd04897 ACT_ACR_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=96.37 E-value=0.029 Score=42.05 Aligned_cols=45 Identities=11% Similarity=0.005 Sum_probs=41.1
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCCc
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNVV 230 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~~ 230 (241)
.+++++|.+|..+|-++|++|.+|.+++.|+++.-+|...-.++.
T Consensus 9 ~DRpGLL~~i~~~l~~~~l~I~~A~I~T~gera~D~FyV~d~~g~ 53 (75)
T cd04897 9 RDRPKLLFDVVCTLTDMDYVVFHATIDTDGDDAHQEYYIRHKDGR 53 (75)
T ss_pred CCcCcHHHHHHHHHHhCCeEEEEEEEeecCceEEEEEEEEcCCCC
Confidence 369999999999999999999999999999999999998776654
No 17
>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=96.18 E-value=0.037 Score=40.82 Aligned_cols=40 Identities=23% Similarity=0.202 Sum_probs=36.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEee-eCCeEEEEEEEEe
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTR-VDERLLHTIQAEL 226 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~-~~~~vl~tI~akv 226 (241)
+++++|+++..+|..+||+|++|.+++ .+|.++.+|.+.=
T Consensus 9 Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V~d 49 (76)
T cd04927 9 DRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFITD 49 (76)
T ss_pred CCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEEeC
Confidence 588999999999999999999999986 8999999999863
No 18
>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=96.07 E-value=0.047 Score=39.61 Aligned_cols=50 Identities=16% Similarity=0.192 Sum_probs=40.4
Q ss_pred EEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecC
Q 036406 177 IEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNN 228 (241)
Q Consensus 177 veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~ 228 (241)
.+|.+.+. +++++|.++..+|.++|++|+++.+.+.++.++.+|+..-.+
T Consensus 2 tri~V~~~--D~~Gll~~i~~~l~~~~lnI~sa~i~t~~~~~~d~f~v~~~~ 51 (72)
T cd04926 2 VRLELRTE--DRVGLLSDVTRVFRENGLTVTRAEISTQGDMAVNVFYVTDAN 51 (72)
T ss_pred eEEEEEEC--CccCHHHHHHHHHHHCCcEEEEEEEecCCCeEEEEEEEECCC
Confidence 34555442 588999999999999999999999988888888888876433
No 19
>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=95.70 E-value=0.056 Score=40.50 Aligned_cols=39 Identities=13% Similarity=0.012 Sum_probs=37.0
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEe--eeCCeEEEEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVST--RVDERLLHTIQAE 225 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S--~~~~~vl~tI~ak 225 (241)
+++|+|.+|..+|..+|++|.+|-++ +.|+++.-+|...
T Consensus 9 DRpGLL~~i~~~l~~~~l~i~~AkI~~~T~Gerv~D~Fyv~ 49 (75)
T cd04896 9 DQKGLLYDILRTSKDCNIQISYGRFSSKVKGYREVDLFIVQ 49 (75)
T ss_pred CcccHHHHHHHHHHHCCeEEEEEEEecCcccCEEEEEEEEe
Confidence 58999999999999999999999999 9999999999983
No 20
>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=95.04 E-value=0.17 Score=36.93 Aligned_cols=40 Identities=28% Similarity=0.179 Sum_probs=37.2
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEe
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAEL 226 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv 226 (241)
+++++|.+|..+|..+|+.|++|.+++.++.++.+|.+.-
T Consensus 9 Dr~gLl~~i~~~l~~~~lnI~~A~i~t~~~~~~d~f~V~d 48 (74)
T cd04925 9 DRPGLLSEVFAVLADLHCNVVEARAWTHNGRLACVIYVRD 48 (74)
T ss_pred CCCCHHHHHHHHHHHCCCcEEEEEEEEECCEEEEEEEEEc
Confidence 5899999999999999999999999999999999998764
No 21
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. This CD includes a novel, yet uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.85 E-value=0.21 Score=36.78 Aligned_cols=49 Identities=22% Similarity=0.243 Sum_probs=40.3
Q ss_pred EEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEee-eCCeEEEEEEEEecC
Q 036406 178 EIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTR-VDERLLHTIQAELNN 228 (241)
Q Consensus 178 eI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~-~~~~vl~tI~akv~~ 228 (241)
+|.+.+. +++++|.++..+|..+||.|++|.+.+ .+|.++-+|.+.=.+
T Consensus 3 eI~V~~~--Dr~gLFa~iag~L~~~~LnI~~A~i~tt~dG~~LDtF~V~d~~ 52 (68)
T cd04928 3 EITFAAG--DKPKLLSQLSSLLGDLGLNIAEAHAFSTDDGLALDIFVVTGWK 52 (68)
T ss_pred EEEEEEC--CCcchHHHHHHHHHHCCCceEEEEEEEcCCCeEEEEEEEecCC
Confidence 5665553 589999999999999999999998865 788898888887443
No 22
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=94.85 E-value=0.017 Score=56.86 Aligned_cols=64 Identities=16% Similarity=0.319 Sum_probs=49.3
Q ss_pred CcccccccchHHHHHHHHHHHHhHHHHHccCCCCCcCCC-CchhhhHHHHHHHHHHHHHHHHHHH
Q 036406 72 YNNNKKLMHRDVERQRRQEMATLYASLRALLPLEFIKGK-RSISDQMNEGVNYVKYLEKKIKELG 135 (241)
Q Consensus 72 ~~~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K-~Si~~~l~eAI~YIk~Lq~~v~~L~ 135 (241)
+..++|+..|+.||-|-+.||+.|..|....=.--+.+| .++.-||..||.-|-.|+++|.+-.
T Consensus 522 REkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN 586 (632)
T KOG3910|consen 522 REKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN 586 (632)
T ss_pred HHHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence 456899999999999999999999999876532222222 2333449999999999999998643
No 23
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=94.84 E-value=0.015 Score=49.38 Aligned_cols=59 Identities=24% Similarity=0.375 Sum_probs=51.4
Q ss_pred CcccccccchHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHHH
Q 036406 72 YNNNKKLMHRDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKKI 131 (241)
Q Consensus 72 ~~~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v 131 (241)
+-..++..|+..||+|-+-+|+.|..||-.+|-. +-+|.|...+|.-|.-||.-|-.-+
T Consensus 74 E~q~qrv~anvrerqRtqsLn~AF~~lr~iiptl-PsdklSkiqtLklA~ryidfl~~vl 132 (173)
T KOG4447|consen 74 ELQKQRVMANVRERQRTQSLNEAFAALRKIIPTL-PSDKLSKIQTLKLAARYIDFLYQVL 132 (173)
T ss_pred HHHHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCC-CccccccccchhhcccCCchhhhcc
Confidence 3456899999999999999999999999999985 4578998899999999998886543
No 24
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_ACR-UUR-like_2, includes the second of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the second and fourth ACT domains of a novel protein composed almost entirely of ACT domain repeats, the ACR protein. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.55 E-value=0.36 Score=33.73 Aligned_cols=44 Identities=18% Similarity=0.142 Sum_probs=39.2
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCCc
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNVV 230 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~~ 230 (241)
+++++|.+++.+|.++|+.|+++.+.+.++.++.+|++.-.++.
T Consensus 9 d~~gll~~i~~~l~~~~~~I~~~~~~~~~~~~~~~f~i~~~~~~ 52 (70)
T cd04899 9 DRPGLLADVTRVLAELGLNIHSAKIATLGERAEDVFYVTDADGQ 52 (70)
T ss_pred CCccHHHHHHHHHHHCCCeEEEEEEEecCCEEEEEEEEECCCCC
Confidence 48899999999999999999999999988888899998876553
No 25
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=93.57 E-value=0.042 Score=49.88 Aligned_cols=58 Identities=21% Similarity=0.298 Sum_probs=50.4
Q ss_pred cccccccchHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHH
Q 036406 73 NNNKKLMHRDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKK 130 (241)
Q Consensus 73 ~~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~ 130 (241)
...+|..=|..||+|=-.+|+.|..||.++|......|.|+.++|.-|-+||..|++-
T Consensus 69 ~~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~ 126 (254)
T KOG3898|consen 69 LTLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEV 126 (254)
T ss_pred hhhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhccc
Confidence 3467777889999999999999999999999855566889899999999999998764
No 26
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=92.11 E-value=0.27 Score=44.94 Aligned_cols=59 Identities=19% Similarity=0.262 Sum_probs=52.9
Q ss_pred ccccccchHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHH
Q 036406 74 NNKKLMHRDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKKIK 132 (241)
Q Consensus 74 ~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v~ 132 (241)
..++..-+..||+|=..+|..|..||-.+|......|.|.-++|--|-.||--|-..++
T Consensus 172 ~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~ 230 (285)
T KOG4395|consen 172 SHRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLD 230 (285)
T ss_pred HhhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhc
Confidence 36778889999999999999999999999999998899999999999999988766553
No 27
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=92.09 E-value=1.6 Score=30.04 Aligned_cols=43 Identities=21% Similarity=0.232 Sum_probs=36.4
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
++++.|.++..+|.++|+.|.++.+.+.++.....|++.-.+.
T Consensus 9 d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~~~v~~~~~ 51 (70)
T cd04873 9 DRPGLLADITRVLADLGLNIHDARISTTGERALDVFYVTDSDG 51 (70)
T ss_pred CCCCHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEECCCC
Confidence 4788999999999999999999999887777777777765543
No 28
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=90.95 E-value=2.4 Score=30.69 Aligned_cols=43 Identities=14% Similarity=0.227 Sum_probs=37.2
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEee--eCCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTR--VDERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~--~~~~vl~tI~akv~~~ 229 (241)
+++++|.+|..+|.+.|+.+.+++... .++.....|.++|.+.
T Consensus 15 dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d~ 59 (80)
T PF13291_consen 15 DRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKDL 59 (80)
T ss_dssp --TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESSH
T ss_pred cCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECCH
Confidence 478999999999999999999999988 4778888999999764
No 29
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=90.81 E-value=1.4 Score=46.68 Aligned_cols=51 Identities=12% Similarity=0.103 Sum_probs=43.0
Q ss_pred EEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 177 IEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 177 veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
.+|.+.+ . +++++|++|..+|..+||+|++|.|++.|++++-+|.+.-.++
T Consensus 815 T~i~V~a-~-DrpGLLa~I~~~L~~~~l~I~~AkI~T~g~~v~D~F~V~d~~g 865 (895)
T PRK00275 815 TVLEIIA-P-DRPGLLARIGRIFLEFDLSLQNAKIATLGERVEDVFFITDADN 865 (895)
T ss_pred EEEEEEE-C-CCCCHHHHHHHHHHHCCCEEEEeEEEecCCEEEEEEEEECCCC
Confidence 3444444 3 5899999999999999999999999999999999999975544
No 30
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=90.31 E-value=2 Score=31.25 Aligned_cols=41 Identities=12% Similarity=0.169 Sum_probs=36.3
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEec
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELN 227 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~ 227 (241)
++++.+..+..+|.++|.+++++..+..++.+...+.+.+.
T Consensus 11 DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~ 51 (76)
T PF13740_consen 11 DRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIP 51 (76)
T ss_dssp --TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEES
T ss_pred CCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeC
Confidence 58999999999999999999999999999999999888876
No 31
>PRK05007 PII uridylyl-transferase; Provisional
Probab=90.07 E-value=0.93 Score=47.85 Aligned_cols=42 Identities=19% Similarity=0.230 Sum_probs=38.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNN 228 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~ 228 (241)
+++|+|++|..+|.++|++|.+|-|++.|+++.-+|.+.-.+
T Consensus 817 DRpGLL~~I~~~l~~~~l~I~~AkI~T~gera~DvFyV~~~~ 858 (884)
T PRK05007 817 DQPGLLARVGKIFADLGISLHGARITTIGERVEDLFILATAD 858 (884)
T ss_pred CchHHHHHHHHHHHHCCcEEEEEEEeccCceEEEEEEEEcCC
Confidence 589999999999999999999999999999999999986443
No 32
>PRK04374 PII uridylyl-transferase; Provisional
Probab=88.29 E-value=2.2 Score=45.18 Aligned_cols=62 Identities=19% Similarity=0.088 Sum_probs=46.8
Q ss_pred CceEEEeee--ceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 166 NRFVVHQSL--VGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 166 ~~V~V~~~~--~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
+.|.+.... .-..|.+.+ . +++++|++|..+|..+|++|++|.|++.|+++.-+|.+.-.++
T Consensus 784 ~~V~~~~~~~~~~t~leI~a-~-DrpGLLa~Ia~~l~~~~l~I~~AkI~T~g~~a~D~F~V~d~~g 847 (869)
T PRK04374 784 PRVEFSESAGGRRTRISLVA-P-DRPGLLADVAHVLRMQHLRVHDARIATFGERAEDQFQITDEHD 847 (869)
T ss_pred CeEEEeecCCCCeEEEEEEe-C-CcCcHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEECCCC
Confidence 345554332 223444443 3 5899999999999999999999999999999999999975443
No 33
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=88.19 E-value=5.2 Score=26.99 Aligned_cols=30 Identities=20% Similarity=0.306 Sum_probs=27.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDE 216 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~ 216 (241)
.++|.|.++..+|.++|+.|.++.....++
T Consensus 9 drpG~l~~v~~~la~~~inI~~~~~~~~~~ 38 (66)
T PF01842_consen 9 DRPGILADVTEILADHGINIDSISQSSDKD 38 (66)
T ss_dssp TSTTHHHHHHHHHHHTTEEEEEEEEEEESS
T ss_pred CCCCHHHHHHHHHHHcCCCHHHeEEEecCC
Confidence 589999999999999999999999988776
No 34
>PRK03059 PII uridylyl-transferase; Provisional
Probab=87.59 E-value=2.9 Score=44.09 Aligned_cols=46 Identities=17% Similarity=0.160 Sum_probs=40.1
Q ss_pred EEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEE
Q 036406 177 IEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQA 224 (241)
Q Consensus 177 veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~a 224 (241)
.+|.+.+ . +++++|++|..+|..+|++|++|.+++.|++++-+|.+
T Consensus 787 T~i~V~a-~-DrpGLLa~Ia~~L~~~~l~I~~AkI~T~~~~v~DvF~V 832 (856)
T PRK03059 787 YILSVSA-N-DRPGLLYAIARVLAEHRVSVHTAKINTLGERVEDTFLI 832 (856)
T ss_pred EEEEEEe-C-CcchHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEE
Confidence 3455444 3 58999999999999999999999999999999999998
No 35
>PRK03381 PII uridylyl-transferase; Provisional
Probab=87.24 E-value=2.4 Score=44.20 Aligned_cols=52 Identities=17% Similarity=0.034 Sum_probs=44.4
Q ss_pred eceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEec
Q 036406 174 LVGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELN 227 (241)
Q Consensus 174 ~~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~ 227 (241)
....+|.+.|. +++++|++|..+|..+|++|++|.+.+.+|.++-+|.+.-.
T Consensus 597 ~~~~~V~V~~~--DrpGLfa~i~~vL~~~glnI~dA~i~t~dg~~ld~F~V~~~ 648 (774)
T PRK03381 597 PHMVEVTVVAP--DRRGLLSKAAGVLALHRLRVRSASVRSHDGVAVLEFVVSPR 648 (774)
T ss_pred CCeEEEEEEec--CCccHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEECC
Confidence 35677877653 59999999999999999999999999989999999888743
No 36
>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=87.11 E-value=3.5 Score=29.02 Aligned_cols=43 Identities=9% Similarity=0.019 Sum_probs=36.2
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee-CCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV-DERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~-~~~vl~tI~akv~~~ 229 (241)
++++.|.+|..+|.++|..|.+++.... ++.....|.+++.+.
T Consensus 8 d~~g~L~~i~~~i~~~~~nI~~v~~~~~~~~~~~~~~~vev~~~ 51 (74)
T cd04887 8 NRPGMLGRVTTAIGEAGGDIGAIDLVEQGRDYTVRDITVDAPSE 51 (74)
T ss_pred CCCchHHHHHHHHHHcCCcEEEEEEEEecCCEEEEEEEEEcCCH
Confidence 4788999999999999999999998775 466777788887664
No 37
>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=86.97 E-value=3.6 Score=27.96 Aligned_cols=42 Identities=17% Similarity=0.258 Sum_probs=33.5
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee-----CCeEEEEEEEEecC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV-----DERLLHTIQAELNN 228 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~-----~~~vl~tI~akv~~ 228 (241)
++++.|.+|+.+|.+.|++|.+...... ++.....|.+.+.+
T Consensus 7 d~~G~L~~i~~~i~~~~~nI~~i~~~~~~~~~~~~~~~~~i~v~~~~ 53 (73)
T cd04886 7 DRPGQLAKLLAVIAEAGANIIEVSHDRAFKTLPLGEVEVELTLETRG 53 (73)
T ss_pred CCCChHHHHHHHHHHcCCCEEEEEEEeccCCCCCceEEEEEEEEeCC
Confidence 4788999999999999999998887654 35566667777654
No 38
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=86.93 E-value=3.6 Score=43.40 Aligned_cols=62 Identities=18% Similarity=0.126 Sum_probs=47.8
Q ss_pred CceEEEee--eceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEee-eCCeEEEEEEEEecCC
Q 036406 166 NRFVVHQS--LVGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTR-VDERLLHTIQAELNNV 229 (241)
Q Consensus 166 ~~V~V~~~--~~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~-~~~~vl~tI~akv~~~ 229 (241)
|.|.+... ....+|.+.+. +++++|++|..+|..+||+|++|.+.+ .+|.++-+|.+.-.++
T Consensus 665 ~~V~i~~~~~~~~t~V~V~~~--DrpGLfa~Ia~~L~~~~L~I~~A~I~T~~~g~alD~F~V~d~~g 729 (854)
T PRK01759 665 LLVKISNRFSRGGTEIFIYCQ--DQANLFLKVVSTIGAKKLSIHDAQIITSQDGYVLDSFIVTELNG 729 (854)
T ss_pred CEEEEEecCCCCeEEEEEEec--CCccHHHHHHHHHHHCCCeEEEEEEEEccCCEEEEEEEEeCCCC
Confidence 44555433 34456666553 589999999999999999999999866 8999999999875544
No 39
>PRK03381 PII uridylyl-transferase; Provisional
Probab=86.82 E-value=3.3 Score=43.14 Aligned_cols=51 Identities=8% Similarity=0.013 Sum_probs=42.7
Q ss_pred EEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 177 IEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 177 veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
..|.+.+ . +++++|.+|..+|.++|++|++|.+++.|++++-+|.+.=.++
T Consensus 708 t~i~V~a-~-DrpGLla~Ia~~L~~~~lnI~~AkI~T~g~~a~D~F~V~d~~g 758 (774)
T PRK03381 708 TVLEVRA-A-DRPGLLARLARALERAGVDVRWARVATLGADVVDVFYVTGAAG 758 (774)
T ss_pred EEEEEEe-C-CchhHHHHHHHHHHHCCCeEEEEEEeecCCeEEEEEEEECCCC
Confidence 3444443 3 5899999999999999999999999999999999999875444
No 40
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=86.45 E-value=2.1 Score=45.05 Aligned_cols=43 Identities=16% Similarity=0.128 Sum_probs=39.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
+++|+|.+|..+|.++|++|.+|-|+|.|+++.-+|.+.-.++
T Consensus 792 DrpGLL~~I~~~l~~~~l~i~~AkI~T~gerv~D~Fyv~~~~g 834 (854)
T PRK01759 792 DRAGLLAQVSQVFSELNLNLLNAKITTIGEKAEDFFILTNQQG 834 (854)
T ss_pred CchHHHHHHHHHHHHCCCEEEEEEEcccCceEEEEEEEECCCC
Confidence 5899999999999999999999999999999999999864433
No 41
>PRK03059 PII uridylyl-transferase; Provisional
Probab=85.91 E-value=3 Score=43.95 Aligned_cols=54 Identities=13% Similarity=0.102 Sum_probs=45.1
Q ss_pred eceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEE-eeeCCeEEEEEEEEecCC
Q 036406 174 LVGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVS-TRVDERLLHTIQAELNNV 229 (241)
Q Consensus 174 ~~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~-S~~~~~vl~tI~akv~~~ 229 (241)
....+|.+.|. +++++|+++..+|..+||+|++|.+ |+.+|.++-+|.+.-.++
T Consensus 676 ~~~~~v~i~~~--d~~gLFa~i~g~l~~~~l~I~~A~i~t~~~g~~ld~f~V~~~~~ 730 (856)
T PRK03059 676 GEGLQVMVYTP--DQPDLFARICGYFDRAGFSILDARVHTTRHGYALDTFQVLDPEE 730 (856)
T ss_pred CCeEEEEEEec--CCCcHHHHHHHHHHHCCCceeeeEEEEcCCCeEEEEEEEeCCCC
Confidence 36678887763 5899999999999999999999998 568899999998875433
No 42
>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=85.84 E-value=4.8 Score=29.39 Aligned_cols=47 Identities=11% Similarity=0.101 Sum_probs=40.3
Q ss_pred EEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEec
Q 036406 179 IAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELN 227 (241)
Q Consensus 179 I~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~ 227 (241)
|.+.| ++++|...+|-..|.++|..+++++....++.++..+.+.+.
T Consensus 4 ltv~g--~Dr~GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~~~~ 50 (77)
T cd04893 4 ISALG--TDRPGILNELTRAVSESGCNILDSRMAILGTEFALTMLVEGS 50 (77)
T ss_pred EEEEe--CCCChHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEEEec
Confidence 34444 368999999999999999999999999999999888888765
No 43
>PRK05092 PII uridylyl-transferase; Provisional
Probab=85.36 E-value=4.6 Score=42.86 Aligned_cols=62 Identities=13% Similarity=-0.010 Sum_probs=47.4
Q ss_pred CceEEEee--eceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 166 NRFVVHQS--LVGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 166 ~~V~V~~~--~~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
|.|.+... .....|.|.+ .+++++|.+|..+|.++|++|.+|.+++.++++.-+|.+.-.++
T Consensus 831 ~~V~~~~~~s~~~t~i~I~~--~DrpGLl~~I~~~l~~~gl~I~~A~I~T~~~~~~D~F~v~d~~g 894 (931)
T PRK05092 831 PRVTIDNEASNRFTVIEVNG--RDRPGLLYDLTRALSDLNLNIASAHIATYGERAVDVFYVTDLFG 894 (931)
T ss_pred CEEEEeeCCCCCeEEEEEEE--CCcCcHHHHHHHHHHHCCceEEEEEEEEcCCEEEEEEEEeCCCC
Confidence 34555433 2223444444 25899999999999999999999999999999999999976554
No 44
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=85.11 E-value=3.2 Score=43.96 Aligned_cols=54 Identities=13% Similarity=0.004 Sum_probs=45.3
Q ss_pred ceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEE-eeeCCeEEEEEEEEecCCc
Q 036406 175 VGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVS-TRVDERLLHTIQAELNNVV 230 (241)
Q Consensus 175 ~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~-S~~~~~vl~tI~akv~~~~ 230 (241)
.+.+|.|.|. +++++|.++..+|..+||+|++|.+ |+.+|.++-+|.+.-.++.
T Consensus 703 ~~t~V~V~~~--DrpgLFa~i~g~L~~~~lnI~~A~I~Tt~dg~alD~F~V~d~~g~ 757 (895)
T PRK00275 703 GGTQIFIYAP--DQHDFFAATVAAMDQLNLNIHDARIITSSSQFTLDTYIVLDDDGE 757 (895)
T ss_pred CeEEEEEEeC--CCCcHHHHHHHHHHHCCCeEEEEEEEEcCCCeEEEEEEEeCCCCC
Confidence 5678887763 5899999999999999999999997 5678889999988765543
No 45
>PRK05007 PII uridylyl-transferase; Provisional
Probab=84.62 E-value=5.6 Score=42.12 Aligned_cols=62 Identities=15% Similarity=0.034 Sum_probs=46.9
Q ss_pred CceEEEee--eceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEee-eCCeEEEEEEEEecCC
Q 036406 166 NRFVVHQS--LVGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTR-VDERLLHTIQAELNNV 229 (241)
Q Consensus 166 ~~V~V~~~--~~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~-~~~~vl~tI~akv~~~ 229 (241)
|.|.+... ....+|.|.+. +++++|.+|..+|..+||+|++|.+.+ .+|.++-+|.+.-.++
T Consensus 689 p~V~i~~~~~~~~t~V~V~a~--DrpGLfa~Ia~~La~~~L~I~~A~I~T~~dg~alD~F~V~d~~g 753 (884)
T PRK05007 689 PLVLLSKQATRGGTEIFIWSP--DRPYLFAAVCAELDRRNLSVHDAQIFTSRDGMAMDTFIVLEPDG 753 (884)
T ss_pred CeEEEEecCCCCeEEEEEEec--CCcCHHHHHHHHHHHCCCEEEEEEEEEcCCCeEEEEEEEECCCC
Confidence 44555443 34567776553 589999999999999999999999766 5668988888875554
No 46
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=84.28 E-value=4.5 Score=42.44 Aligned_cols=54 Identities=20% Similarity=0.030 Sum_probs=44.9
Q ss_pred eceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEe-eeCCeEEEEEEEEecCC
Q 036406 174 LVGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVST-RVDERLLHTIQAELNNV 229 (241)
Q Consensus 174 ~~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S-~~~~~vl~tI~akv~~~ 229 (241)
....+|.|.+. +++++|++|..+|..+||+|++|.+. +.+|.++-+|.++-.++
T Consensus 666 ~~~t~i~V~~~--DrpgLla~i~~~L~~~~l~I~~A~I~tt~~g~~lD~F~V~~~~g 720 (850)
T TIGR01693 666 SGGTEVFIYAP--DQPGLFAKVAGALAMLSLSVHDAQVNTTKDGVALDTFVVQDLFG 720 (850)
T ss_pred CCeEEEEEEeC--CCCcHHHHHHHHHHHCCCeEEEEEEEEecCCEEEEEEEEECCCC
Confidence 34456666553 58999999999999999999999998 68999999999986654
No 47
>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=84.11 E-value=6.4 Score=27.63 Aligned_cols=43 Identities=21% Similarity=0.108 Sum_probs=33.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee-CCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV-DERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~-~~~vl~tI~akv~~~ 229 (241)
.+++.|.+|+..|.++|++|...+.+.. ++..-..|.+.+.+.
T Consensus 9 d~~g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~~~v~v~~~ 52 (76)
T cd04888 9 HRPGVLSKVLNTIAQVRGNVLTINQNIPIHGRANVTISIDTSTM 52 (76)
T ss_pred CCCchHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEEEEEEcCch
Confidence 3678999999999999999999887653 465666677766554
No 48
>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=83.53 E-value=5.2 Score=28.55 Aligned_cols=42 Identities=14% Similarity=0.188 Sum_probs=34.5
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCC-eEEEEEEEEecC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDE-RLLHTIQAELNN 228 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~-~vl~tI~akv~~ 228 (241)
.++|.|.+++..+.++|+.+++..+.+..+ ..-|.|.+.+..
T Consensus 8 d~pG~L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~f~id~~~ 50 (75)
T cd04880 8 NKPGALAKALKVFAERGINLTKIESRPSRKGLWEYEFFVDFEG 50 (75)
T ss_pred CcCCHHHHHHHHHHHCCCCEEEEEeeecCCCCceEEEEEEEEC
Confidence 478999999999999999999998887655 466777777654
No 49
>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=81.53 E-value=11 Score=26.89 Aligned_cols=41 Identities=7% Similarity=0.067 Sum_probs=33.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC------CeEEEEEEEEec
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD------ERLLHTIQAELN 227 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~------~~vl~tI~akv~ 227 (241)
++++.+.+|-+.|.++|+++.+....+.+ +.+...+.+.+.
T Consensus 8 D~~Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p 54 (81)
T cd04869 8 DRPGIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALP 54 (81)
T ss_pred CCCCHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecC
Confidence 58899999999999999999999998876 555556666654
No 50
>PRK04374 PII uridylyl-transferase; Provisional
Probab=80.98 E-value=6.6 Score=41.61 Aligned_cols=54 Identities=6% Similarity=0.091 Sum_probs=44.9
Q ss_pred eceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEee-eCCeEEEEEEEEecCC
Q 036406 174 LVGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTR-VDERLLHTIQAELNNV 229 (241)
Q Consensus 174 ~~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~-~~~~vl~tI~akv~~~ 229 (241)
....+|.+.+. +++++|+++.-+|..+||+|++|.+.+ .+|.++-+|.+.-.+.
T Consensus 688 ~~~~~v~v~~~--d~~gLFa~i~g~l~~~~lnI~~A~i~t~~~g~~ld~f~V~~~~~ 742 (869)
T PRK04374 688 NDALEVFVYSP--DRDGLFAAIVATLDRKGYGIHRARVLDAPHDAIFDVFEVLPQDT 742 (869)
T ss_pred CCeEEEEEEeC--CCccHHHHHHHHHHHCCCeEEEEEEEEcCCCEEEEEEEEeCCCC
Confidence 46678887763 589999999999999999999998876 7899999999864333
No 51
>PRK05092 PII uridylyl-transferase; Provisional
Probab=80.81 E-value=9.8 Score=40.44 Aligned_cols=62 Identities=15% Similarity=0.021 Sum_probs=47.6
Q ss_pred CceEEEee--eceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEee-eCCeEEEEEEEEecCC
Q 036406 166 NRFVVHQS--LVGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTR-VDERLLHTIQAELNNV 229 (241)
Q Consensus 166 ~~V~V~~~--~~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~-~~~~vl~tI~akv~~~ 229 (241)
+.|.+... ....+|.+.+. +++++|.+|..+|..+|++|++|.+.+ .+|.++-+|.+.-.++
T Consensus 720 ~~v~~~~~~~~~~t~v~I~~~--Dr~GLfa~i~~~L~~~glnI~~A~I~t~~dg~alD~F~V~~~~g 784 (931)
T PRK05092 720 LATEVRPDPARGVTEVTVLAA--DHPGLFSRIAGACAAAGANIVDARIFTTTDGRALDTFWIQDAFG 784 (931)
T ss_pred cEEEEEecCCCCeEEEEEEeC--CCCcHHHHHHHHHHHCCCcEEEEEEEEecCCeEEEEEEEECCCC
Confidence 33445443 35678887763 589999999999999999999999876 7888888888765443
No 52
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=80.24 E-value=4.2 Score=42.88 Aligned_cols=60 Identities=17% Similarity=0.175 Sum_probs=47.3
Q ss_pred CceEEEeee----ceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 166 NRFVVHQSL----VGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 166 ~~V~V~~~~----~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
|.|++.... ..+||. +. +++|+|.+|-.+|.+++|++++|.|+++|.++.-+|.+.....
T Consensus 779 p~v~i~~t~~~~~t~lEv~---al-DRpGLLa~v~~v~~dl~l~i~~AkItT~GErveD~F~vt~~~~ 842 (867)
T COG2844 779 PRVTILPTASNDKTVLEVR---AL-DRPGLLAALAGVFADLGLSLHSAKITTFGERVEDVFIVTDADG 842 (867)
T ss_pred CceeeccccCCCceEEEEE---eC-CcccHHHHHHHHHHhcccceeeeeeccccccceeEEEEecccc
Confidence 556665542 335554 23 5899999999999999999999999999999988887776555
No 53
>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=80.20 E-value=6.1 Score=41.43 Aligned_cols=43 Identities=16% Similarity=0.054 Sum_probs=39.3
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
+++|+|.+|..+|.++|++|.+|.+++.++++.-+|.+....+
T Consensus 788 DrpGll~~i~~~l~~~~~~i~~a~i~t~~~~~~d~F~v~~~~g 830 (850)
T TIGR01693 788 DRPGLLARVGRTLEELGLSIQSAKITTFGEKAEDVFYVTDLFG 830 (850)
T ss_pred CccHHHHHHHHHHHHCCCeEEEEEEEecCccceeEEEEECCCC
Confidence 5899999999999999999999999999999999998876544
No 54
>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=78.25 E-value=12 Score=25.42 Aligned_cols=36 Identities=8% Similarity=0.003 Sum_probs=27.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC-CeEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD-ERLLHTI 222 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~-~~vl~tI 222 (241)
.+++.|.+++..|.++++.|.+.+....+ +....++
T Consensus 9 d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~i 45 (72)
T cd04874 9 DKPGVLRDLTGVIAEHGGNITYTQQFIEREGKARIYM 45 (72)
T ss_pred CCCChHHHHHHHHHhCCCCEEEEEEeccCCCeEEEEE
Confidence 47889999999999999999988876653 4433333
No 55
>PRK00194 hypothetical protein; Validated
Probab=77.78 E-value=7.2 Score=28.83 Aligned_cols=48 Identities=13% Similarity=0.138 Sum_probs=38.7
Q ss_pred EEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecC
Q 036406 179 IAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNN 228 (241)
Q Consensus 179 I~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~ 228 (241)
|.+.| .+++|.+.+|...|-++|+.|++.+....++.++..+.+.+..
T Consensus 6 ltv~g--~DrpGiva~vt~~la~~g~nI~~~~~~~~~~~~~~~~~v~~~~ 53 (90)
T PRK00194 6 ITVIG--KDKVGIIAGVSTVLAELNVNILDISQTIMDGYFTMIMLVDISE 53 (90)
T ss_pred EEEEc--CCCCCHHHHHHHHHHHcCCCEEehhhHhhCCeeEEEEEEEecC
Confidence 44444 3589999999999999999999998888888777777777654
No 56
>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=77.56 E-value=14 Score=26.73 Aligned_cols=43 Identities=14% Similarity=0.118 Sum_probs=34.6
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC-CeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD-ERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~-~~vl~tI~akv~~~ 229 (241)
++++.|.+++..+.++|+.+++..+.+.. +...|+|++.+...
T Consensus 10 d~~G~L~~il~~f~~~~ini~~i~s~p~~~~~~~~~f~vd~~~~ 53 (80)
T cd04905 10 NKPGALYDVLGVFAERGINLTKIESRPSKGGLWEYVFFIDFEGH 53 (80)
T ss_pred CCCCHHHHHHHHHHHCCcCEEEEEEEEcCCCCceEEEEEEEECC
Confidence 47889999999999999999999877753 45667877777643
No 57
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=77.41 E-value=2.3 Score=41.67 Aligned_cols=43 Identities=30% Similarity=0.429 Sum_probs=37.0
Q ss_pred hHHHHHHHHHHHHhHHHHHccCCCCC----cCCCCchhhhHHHHHHHHHH
Q 036406 81 RDVERQRRQEMATLYASLRALLPLEF----IKGKRSISDQMNEGVNYVKY 126 (241)
Q Consensus 81 ~~~ER~RR~~mn~~f~~LrsLlP~~~----~~~K~Si~~~l~eAI~YIk~ 126 (241)
+-+-|.||++=|.-|..|..|||... ..||+|+ +.-|..|||-
T Consensus 6 KnaA~tRRekEN~EF~eLAklLPLa~AItsQlDKasi---iRLtTsYlKm 52 (598)
T KOG3559|consen 6 KNAARTRREKENYEFYELAKLLPLASAITSQLDKASI---IRLTTSYLKM 52 (598)
T ss_pred hhHHHHHHHhhcchHHHHHhhccchhhhhhccchhhh---hhHHHHHHHH
Confidence 34669999999999999999999653 4689999 9999999974
No 58
>PRK04435 hypothetical protein; Provisional
Probab=76.72 E-value=13 Score=30.90 Aligned_cols=43 Identities=23% Similarity=0.299 Sum_probs=35.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEee-eCCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTR-VDERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~-~~~~vl~tI~akv~~~ 229 (241)
.+++.|++|+..|.++|+.|.+.+.+. .+|....+|.+.+.+.
T Consensus 78 Dr~GlLs~Il~~IA~~~aNIltI~q~i~~~g~a~vs~tVevs~~ 121 (147)
T PRK04435 78 DRSGTLSKVLNVIAEAGGNILTINQSIPLQGRANVTISIDTSSM 121 (147)
T ss_pred cCCCHHHHHHHHHHHcCCCeEEEEEEcCCCCEEEEEEEEEeCCh
Confidence 477899999999999999999987655 4677777888888665
No 59
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=76.23 E-value=1.8 Score=44.60 Aligned_cols=49 Identities=33% Similarity=0.436 Sum_probs=41.7
Q ss_pred ccccccchHHHHHHHHHHHHhHHHHHccCCCCC----cCCCCchhhhHHHHHHHHH
Q 036406 74 NNKKLMHRDVERQRRQEMATLYASLRALLPLEF----IKGKRSISDQMNEGVNYVK 125 (241)
Q Consensus 74 ~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~----~~~K~Si~~~l~eAI~YIk 125 (241)
.-+|..-..+=|-||.|=|.-|+.|.-+||... ..||+|| +.-||.|++
T Consensus 44 ~~rkEkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSi---mRLtISyLR 96 (768)
T KOG3558|consen 44 ELRKEKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASI---MRLTISYLR 96 (768)
T ss_pred HHHhhhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHH---HHHHHHHHH
Confidence 344666778889999999999999999999643 4689999 999999986
No 60
>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=75.18 E-value=8.7 Score=28.43 Aligned_cols=43 Identities=9% Similarity=0.106 Sum_probs=37.1
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecC
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNN 228 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~ 228 (241)
++++|.+.+|...|-++|+++++++..+.++.++..+.+.+..
T Consensus 9 ~D~pGiva~vt~~la~~g~nI~~~~~~~~~~~f~~~~~v~~~~ 51 (88)
T cd04872 9 KDRVGIVAGVSTKLAELNVNILDISQTIMDGYFTMIMIVDISE 51 (88)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEechhHhhCCccEEEEEEEeCC
Confidence 3589999999999999999999999888888877777777654
No 61
>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=73.65 E-value=16 Score=25.90 Aligned_cols=28 Identities=14% Similarity=0.055 Sum_probs=25.5
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEee
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTR 213 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~ 213 (241)
.+++|.+.+|-..|-++|+.+++....+
T Consensus 7 ~D~~Giv~~it~~l~~~g~nI~~~~~~~ 34 (74)
T cd04875 7 PDRPGIVAAVSGFLAEHGGNIVESDQFV 34 (74)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEeeeeee
Confidence 3589999999999999999999998875
No 62
>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=73.58 E-value=19 Score=23.10 Aligned_cols=41 Identities=12% Similarity=0.176 Sum_probs=31.3
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC-CeEEEEEEEEec
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD-ERLLHTIQAELN 227 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~-~~vl~tI~akv~ 227 (241)
.+++.+.+++..|.++++++.+..+...+ +.....+..++.
T Consensus 7 ~~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 48 (71)
T cd04876 7 DRPGLLADITTVIAEEKINILSVNTRTDDDGLATIRLTLEVR 48 (71)
T ss_pred ccCcHHHHHHHHHHhCCCCEEEEEeEECCCCEEEEEEEEEEC
Confidence 46789999999999999999999887655 444455555544
No 63
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=72.69 E-value=3.3 Score=35.44 Aligned_cols=52 Identities=21% Similarity=0.291 Sum_probs=34.3
Q ss_pred cccccchHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHH
Q 036406 75 NKKLMHRDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYL 127 (241)
Q Consensus 75 ~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~L 127 (241)
.+-.++...||+|-+.++..|.-|+.|+|.....+|+-+ -.|.-+-.||..|
T Consensus 21 ~~~~~r~~~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~-ktlr~~~~~~~~~ 72 (173)
T KOG4447|consen 21 EEECDRQRKERGRKRRLSDASTLLGKLEPGSPADGKRGK-KTLRIGTDSIQSL 72 (173)
T ss_pred hhhhhhhHHHHhHHhhhhhhhhhccccCCCCCCcccccc-cccccCCCchhhH
Confidence 333444558999999999999999999998655443322 1144444555443
No 64
>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=71.28 E-value=16 Score=26.14 Aligned_cols=44 Identities=18% Similarity=0.214 Sum_probs=36.4
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCC
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNV 229 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~ 229 (241)
.+++|...++-++|.++|+++.+.+.+..++.+...+.+.+...
T Consensus 7 ~DrpGiv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~~v~~p~~ 50 (75)
T cd04870 7 PDRPGLTSALTEVLAAHGVRILDVGQAVIHGRLSLGILVQIPDS 50 (75)
T ss_pred CCCCCHHHHHHHHHHHCCCCEEecccEEEcCeeEEEEEEEcCCC
Confidence 36899999999999999999999998888887666666665443
No 65
>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=71.07 E-value=11 Score=25.35 Aligned_cols=39 Identities=18% Similarity=0.280 Sum_probs=29.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC--CeEEEEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD--ERLLHTIQAE 225 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~--~~vl~tI~ak 225 (241)
++++.|.+++..|.++|+.|.+....... +...+.|+.+
T Consensus 8 d~pG~L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~ve 48 (65)
T cd04882 8 DKPGGLHEILQILSEEGINIEYMYAFVEKKGGKALLIFRTE 48 (65)
T ss_pred CCCcHHHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEeC
Confidence 58899999999999999999877655443 4554555443
No 66
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=69.04 E-value=16 Score=24.32 Aligned_cols=38 Identities=13% Similarity=0.137 Sum_probs=30.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC--CeEEEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD--ERLLHTIQA 224 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~--~~vl~tI~a 224 (241)
++++.+.+++..|.++|+.+.+..+...+ +....++..
T Consensus 8 d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v 47 (71)
T cd04879 8 DVPGVIGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDV 47 (71)
T ss_pred CCCCHHHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEc
Confidence 47789999999999999999999887754 565555555
No 67
>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=68.57 E-value=26 Score=24.94 Aligned_cols=38 Identities=11% Similarity=0.102 Sum_probs=29.7
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEec
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELN 227 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~ 227 (241)
++.++|.+|+.++.++|..+.+.++.+. +.+. +..++.
T Consensus 9 dr~Gll~dI~~~i~~~~~nI~~~~~~~~-~~i~--l~i~v~ 46 (74)
T cd04877 9 DRLGITQEVLDLLVEHNIDLRGIEIDPK-GRIY--LNFPTI 46 (74)
T ss_pred ccchHHHHHHHHHHHCCCceEEEEEecC-CeEE--EEeEec
Confidence 4778999999999999999999998765 4433 444444
No 68
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. Members of this CD belong to the superfamily of ACT regulatory domains. Pairs of ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. The ACT domain has been detected in a number of diverse proteins; some of these proteins are involved in amino acid and purine biosynthesis, phenylalanine hydroxylation, regulation of bacterial metabolism and transcription, and many remain to be characterized. ACT domain-containing enzymes involved in amino acid and purine synthesis are in many cases allosteric enzymes with complex regulation enforced by the binding of ligands. The ACT domain is commonly involved in the binding of a small regulatory molecule, such as the amino acids L-Ser and L-Phe in the case of D-3-phosphoglycerate dehydrogenase and the bifunctional chorismate mutase-p
Probab=67.86 E-value=24 Score=21.21 Aligned_cols=28 Identities=25% Similarity=0.318 Sum_probs=24.4
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEeeeC
Q 036406 188 QELPLSKVLEVLLDEGLCVVNCVSTRVD 215 (241)
Q Consensus 188 ~~~~Lsrvl~aLeelgLdVvsa~~S~~~ 215 (241)
+++.+.+++..|..+|+.+........+
T Consensus 8 ~~~~l~~i~~~l~~~~~~i~~~~~~~~~ 35 (60)
T cd02116 8 RPGLLAKVLSVLAEAGINITSIEQRTSG 35 (60)
T ss_pred CCchHHHHHHHHHHCCCcEEEEEeEEcC
Confidence 6678999999999999999999876643
No 69
>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=66.76 E-value=21 Score=23.75 Aligned_cols=40 Identities=15% Similarity=0.121 Sum_probs=31.2
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC-CeEEEEEEEEe
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD-ERLLHTIQAEL 226 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~-~~vl~tI~akv 226 (241)
.+++.|.++...|.++|+.|.+......+ +..+..|....
T Consensus 7 d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v~~ 47 (56)
T cd04889 7 NKPGRLAEVTEILAEAGINIKAISIAETRGEFGILRLIFSD 47 (56)
T ss_pred CCCChHHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEECC
Confidence 47899999999999999999888876654 56655555443
No 70
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=66.32 E-value=4.3 Score=41.11 Aligned_cols=37 Identities=24% Similarity=0.417 Sum_probs=31.8
Q ss_pred HHHHHHHHhHHHHHccCCCC----CcCCCCchhhhHHHHHHHHH
Q 036406 86 QRRQEMATLYASLRALLPLE----FIKGKRSISDQMNEGVNYVK 125 (241)
Q Consensus 86 ~RR~~mn~~f~~LrsLlP~~----~~~~K~Si~~~l~eAI~YIk 125 (241)
+-|+++|.-+..|.||||-. ++.||.|+ |.-+|.|++
T Consensus 35 RHRdRLNaELD~lAsLLPfpqdiisKLDkLSV---LRLSVSyLr 75 (712)
T KOG3560|consen 35 RHRDRLNAELDHLASLLPFPQDIISKLDKLSV---LRLSVSYLR 75 (712)
T ss_pred hHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhh---hhhhHHHHH
Confidence 35788999999999999954 57789999 999999975
No 71
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=65.75 E-value=37 Score=22.64 Aligned_cols=40 Identities=13% Similarity=0.042 Sum_probs=31.2
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee--CCeEEEEEEEEe
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV--DERLLHTIQAEL 226 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~--~~~vl~tI~akv 226 (241)
++++.|.+++..|.++|+.+.+.+.... ++.....+...+
T Consensus 9 d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 50 (72)
T cd04878 9 NEPGVLNRISGLFARRGFNIESLTVGPTEDPGISRITIVVEG 50 (72)
T ss_pred CCCcHHHHHHHHHHhCCCCEEEEEeeecCCCCeEEEEEEEEC
Confidence 4778999999999999999999987664 455555566554
No 72
>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=65.68 E-value=21 Score=24.75 Aligned_cols=40 Identities=15% Similarity=0.196 Sum_probs=30.7
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNN 228 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~ 228 (241)
+++|.|.+++..|.+.|+.|.+......++. ..++....+
T Consensus 10 d~pG~La~v~~~l~~~~inI~~i~~~~~~~~--~~~rl~~~~ 49 (66)
T cd04908 10 NKPGRLAAVTEILSEAGINIRALSIADTSEF--GILRLIVSD 49 (66)
T ss_pred CCCChHHHHHHHHHHCCCCEEEEEEEecCCC--CEEEEEECC
Confidence 5789999999999999999998887666554 444444433
No 73
>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=60.76 E-value=43 Score=22.49 Aligned_cols=36 Identities=6% Similarity=0.036 Sum_probs=25.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTI 222 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI 222 (241)
..++.+.+++++|.+.|+.|.-.+.+..+..+.+++
T Consensus 13 ~~~~~~~~i~~~l~~~~I~v~~i~~~~s~~~is~~v 48 (66)
T cd04922 13 GTPGVAATFFSALAKANVNIRAIAQGSSERNISAVI 48 (66)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEE
Confidence 456789999999999999997665444344444444
No 74
>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=60.75 E-value=26 Score=22.30 Aligned_cols=36 Identities=14% Similarity=0.191 Sum_probs=26.1
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEE
Q 036406 188 QELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQ 223 (241)
Q Consensus 188 ~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~ 223 (241)
.++.+.+++++|.+.++.|...+.+..+..+..++.
T Consensus 13 ~~~~~~~i~~~l~~~~i~i~~i~~~~~~~~~s~~v~ 48 (60)
T cd04868 13 TPGVAAKIFSALAEAGINVDMISQSESEVNISFTVD 48 (60)
T ss_pred CCCHHHHHHHHHHHCCCcEEEEEcCCCcEEEEEEEe
Confidence 456899999999999999987766544344444443
No 75
>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=58.70 E-value=57 Score=22.42 Aligned_cols=43 Identities=12% Similarity=0.254 Sum_probs=32.0
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeee--CCeEEEEEEEEecC
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRV--DERLLHTIQAELNN 228 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~--~~~vl~tI~akv~~ 228 (241)
+++++.|.+++..|.++|+.+.+...... ++.....|+....+
T Consensus 9 ~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~ 53 (72)
T cd04883 9 PDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMN 53 (72)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCC
Confidence 35778999999999999999997765442 45666677766533
No 76
>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=58.63 E-value=41 Score=23.61 Aligned_cols=28 Identities=11% Similarity=0.159 Sum_probs=24.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV 214 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~ 214 (241)
+++|.|.+++..|.++|..|++......
T Consensus 8 d~pG~L~~l~~~i~~~g~nI~~i~~~~~ 35 (72)
T cd04884 8 DKPGTLKPVVDTLREFNARIISILTAFE 35 (72)
T ss_pred CCCccHHHHHHHHHHCCCeEEEEEeccc
Confidence 5889999999999999999999876664
No 77
>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=58.50 E-value=41 Score=22.41 Aligned_cols=36 Identities=22% Similarity=0.289 Sum_probs=27.5
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee--CCeEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV--DERLLHTI 222 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~--~~~vl~tI 222 (241)
++++.|.++...|.++|+.+.+...... ++.....|
T Consensus 8 d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~i~i 45 (71)
T cd04903 8 DKPGAIAKVTSVLADHEINIAFMRVSRKEKGDQALMVI 45 (71)
T ss_pred CCCChHHHHHHHHHHcCcCeeeeEEEeccCCCeEEEEE
Confidence 5778999999999999999998876652 34444344
No 78
>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=58.21 E-value=45 Score=22.70 Aligned_cols=41 Identities=15% Similarity=0.250 Sum_probs=30.7
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee-C-CeEEEEEEEEec
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV-D-ERLLHTIQAELN 227 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~-~-~~vl~tI~akv~ 227 (241)
++++.|.++...|.++|..+.+.+.... + +.....+...+.
T Consensus 9 d~~g~l~~i~~~l~~~~i~I~~~~~~~~~~~~~~~~~i~~~~~ 51 (79)
T cd04881 9 DKPGVLAKITGILAEHGISIESVIQKEADGGETAPVVIVTHET 51 (79)
T ss_pred CCCcHHHHHHHHHHHcCCCeEEEEEcccCCCCceeEEEEEccC
Confidence 4778999999999999999999887654 3 555445555443
No 79
>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=57.19 E-value=53 Score=25.09 Aligned_cols=43 Identities=16% Similarity=0.103 Sum_probs=34.5
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeeeCCe-EEEEEEEEecC
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRVDER-LLHTIQAELNN 228 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~-vl~tI~akv~~ 228 (241)
+.+++.|.++|..+.+.|+.+.+..+-+..+. .-|.|.+.+..
T Consensus 22 ~~~pGsL~~vL~~Fa~~~INLt~IeSRP~~~~~~~Y~FfVDieg 65 (90)
T cd04931 22 KEEVGALAKVLRLFEEKDINLTHIESRPSRLNKDEYEFFINLDK 65 (90)
T ss_pred CCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEc
Confidence 34789999999999999999999999885433 55777777654
No 80
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=56.74 E-value=31 Score=36.65 Aligned_cols=56 Identities=21% Similarity=0.159 Sum_probs=46.4
Q ss_pred EEEeeeceEEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEE-eeeCCeEEEEEEEEe
Q 036406 169 VVHQSLVGIEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVS-TRVDERLLHTIQAEL 226 (241)
Q Consensus 169 ~V~~~~~~veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~-S~~~~~vl~tI~akv 226 (241)
.++....+-||++-|+ +++.+|..+..++...|++|+.|.+ ++.+|..+-||.+.-
T Consensus 677 ~~r~~~~~teV~V~a~--d~p~Lfa~v~~~~~~~g~~i~dAqi~tt~dG~alDtfiv~~ 733 (867)
T COG2844 677 SVRPHSGGTEVFVYAP--DRPRLFAVVCAALSRRGLSIVDAQIFTTRDGYALDTFIVLE 733 (867)
T ss_pred eecccCCceEEEEEcC--CCccHHHHHHHHHccCCCceeeeEEEEccCCceeeeEEEec
Confidence 4455567889998864 5889999999999999999999987 558898999887663
No 81
>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=56.62 E-value=58 Score=22.62 Aligned_cols=36 Identities=17% Similarity=0.209 Sum_probs=26.6
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEE
Q 036406 188 QELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQ 223 (241)
Q Consensus 188 ~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~ 223 (241)
.++.+.+++.+|.+.|+.|.-.+.++.+-.+...+.
T Consensus 13 ~~~~~~~i~~aL~~~~I~v~~i~~g~s~~sis~~v~ 48 (65)
T cd04918 13 SSLILERAFHVLYTKGVNVQMISQGASKVNISLIVN 48 (65)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCccceEEEEEe
Confidence 456899999999999999976665555555544443
No 82
>PRK07334 threonine dehydratase; Provisional
Probab=56.37 E-value=47 Score=31.67 Aligned_cols=51 Identities=10% Similarity=0.169 Sum_probs=39.7
Q ss_pred EEEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeee-----CCeEEEEEEEEecCC
Q 036406 177 IEIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRV-----DERLLHTIQAELNNV 229 (241)
Q Consensus 177 veI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~-----~~~vl~tI~akv~~~ 229 (241)
+.|.+.. .+++++|.+|+.+|.+.++.|.++++.+. ++.....|..+|.+.
T Consensus 327 v~l~I~~--~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d~ 382 (403)
T PRK07334 327 ARLRVDI--RDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRDA 382 (403)
T ss_pred EEEEEEe--CCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCCH
Confidence 4455443 25889999999999999999999998764 567777788888764
No 83
>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=56.29 E-value=46 Score=23.94 Aligned_cols=42 Identities=12% Similarity=0.086 Sum_probs=34.3
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCe-EEEEEEEEecC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDER-LLHTIQAELNN 228 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~-vl~tI~akv~~ 228 (241)
.++|.|.+++..+...|+.+.+..+-+..+. .-|.|...+..
T Consensus 9 ~~pG~L~~vL~~f~~~~iNlt~IeSRP~~~~~~~y~Ffvd~~~ 51 (74)
T cd04904 9 EEVGALARALKLFEEFGVNLTHIESRPSRRNGSEYEFFVDCEV 51 (74)
T ss_pred CCCcHHHHHHHHHHHCCCcEEEEECCCCCCCCceEEEEEEEEc
Confidence 4788999999999999999999999886554 45777776654
No 84
>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=55.91 E-value=25 Score=24.19 Aligned_cols=40 Identities=15% Similarity=0.185 Sum_probs=32.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEee--eCCeEEEEEEEEe
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTR--VDERLLHTIQAEL 226 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~--~~~~vl~tI~akv 226 (241)
++++.+.++...|.++|+.+.+..+.. .++.....+.+..
T Consensus 8 d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~i~v~~ 49 (73)
T cd04902 8 DRPGVIGKVGTILGEAGINIAGMQVGRDEPGGEALMVLSVDE 49 (73)
T ss_pred CCCCHHHHHHHHHHHcCcChhheEeeccCCCCEEEEEEEeCC
Confidence 588999999999999999998887655 4567777776654
No 85
>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=53.05 E-value=57 Score=22.06 Aligned_cols=36 Identities=8% Similarity=0.017 Sum_probs=25.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTI 222 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI 222 (241)
..++.+.+++++|.+.|++|.-.+.+..+..+.+++
T Consensus 13 ~~~~~~~~if~~L~~~~I~v~~i~q~~s~~~isf~v 48 (66)
T cd04919 13 NMIGIAGRMFTTLADHRINIEMISQGASEINISCVI 48 (66)
T ss_pred CCcCHHHHHHHHHHHCCCCEEEEEecCccceEEEEE
Confidence 456789999999999999997665544444444444
No 86
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=52.76 E-value=38 Score=28.53 Aligned_cols=52 Identities=23% Similarity=0.227 Sum_probs=39.6
Q ss_pred EEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEe-eeCCeEEEEEEEEecCC
Q 036406 178 EIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVST-RVDERLLHTIQAELNNV 229 (241)
Q Consensus 178 eI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S-~~~~~vl~tI~akv~~~ 229 (241)
.+++.-...++-|.|+++++++.++++.|++.+=+ +.+|+.-.||.......
T Consensus 72 i~TL~l~ledr~G~LS~vLd~iA~~~~nvLTI~Q~ipl~g~Anvtlsi~~ssm 124 (150)
T COG4492 72 IITLSLSLEDRVGILSDVLDVIAREEINVLTIHQTIPLQGRANVTLSIDTSSM 124 (150)
T ss_pred EEEEEEEEhhhhhhHHHHHHHHHHhCCcEEEEecccccCceeeEEEEEEchhh
Confidence 34433334457789999999999999999998554 58999888887776644
No 87
>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=51.37 E-value=47 Score=22.44 Aligned_cols=35 Identities=17% Similarity=0.198 Sum_probs=27.0
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEE
Q 036406 188 QELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQA 224 (241)
Q Consensus 188 ~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~a 224 (241)
..+...+++++|++.|+.|..... ..+.+.+++..
T Consensus 13 ~~~~~~~if~~l~~~~i~v~~i~t--~~~~is~~v~~ 47 (62)
T cd04890 13 EVGFLRKIFEILEKHGISVDLIPT--SENSVTLYLDD 47 (62)
T ss_pred ccCHHHHHHHHHHHcCCeEEEEec--CCCEEEEEEeh
Confidence 567899999999999999998754 33556666654
No 88
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=50.23 E-value=81 Score=22.54 Aligned_cols=36 Identities=22% Similarity=0.231 Sum_probs=27.4
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQA 224 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~a 224 (241)
..++.+.+++++|.+.|+.|..... .+..+..++..
T Consensus 13 ~~~g~~~~if~~L~~~~I~v~~i~~--s~~~is~~v~~ 48 (75)
T cd04912 13 GAHGFLAKVFEIFAKHGLSVDLIST--SEVSVSLTLDP 48 (75)
T ss_pred CCccHHHHHHHHHHHcCCeEEEEEc--CCcEEEEEEEc
Confidence 4567899999999999999987753 34556666554
No 89
>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=49.76 E-value=84 Score=22.99 Aligned_cols=43 Identities=19% Similarity=0.166 Sum_probs=34.4
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC-CeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD-ERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~-~~vl~tI~akv~~~ 229 (241)
.+++.|.+++..++..|+.+.+..+-+.. ...-|.|.+.+...
T Consensus 9 ~~~g~L~~iL~~f~~~~inl~~IeSRP~~~~~~~y~F~id~e~~ 52 (74)
T cd04929 9 NEVGGLAKALKLFQELGINVVHIESRKSKRRSSEFEIFVDCECD 52 (74)
T ss_pred CCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEcC
Confidence 46889999999999999999999887743 44567777776543
No 90
>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=48.66 E-value=72 Score=20.61 Aligned_cols=27 Identities=7% Similarity=0.180 Sum_probs=22.4
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEee
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTR 213 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~ 213 (241)
...+.+.+++++|.+.++.|...+.+.
T Consensus 12 ~~~~~~~~i~~~l~~~~i~v~~i~~~~ 38 (65)
T cd04892 12 GTPGVAARIFSALAEAGINIIMISQGS 38 (65)
T ss_pred CCccHHHHHHHHHHHCCCcEEEEEcCC
Confidence 355689999999999999999876654
No 91
>PRK08577 hypothetical protein; Provisional
Probab=46.95 E-value=1.4e+02 Score=24.04 Aligned_cols=43 Identities=16% Similarity=0.234 Sum_probs=33.0
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee--CCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV--DERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~--~~~vl~tI~akv~~~ 229 (241)
++++.|.+++..|.+++.++.+.+.... ++.....+.+.+.+.
T Consensus 65 Dr~GvLa~I~~~l~~~~inI~~i~~~~~~~~~~~~i~l~vev~~~ 109 (136)
T PRK08577 65 DRPGVLAKITGLLAEHGVDILATECEELKRGELAECVIIVDLSKS 109 (136)
T ss_pred CCCCHHHHHHHHHHHCCCCEEEEEEEEecCCCEEEEEEEEEeCCc
Confidence 4788999999999999999998877664 344444666676654
No 92
>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=46.22 E-value=88 Score=20.90 Aligned_cols=36 Identities=6% Similarity=0.030 Sum_probs=24.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTI 222 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI 222 (241)
+.++.+.+++.+|.+.|+.|.-.+.+..+..+..++
T Consensus 13 ~~~~~~~~i~~~L~~~~i~v~~i~~~~s~~~isf~v 48 (66)
T cd04916 13 NTVGVSARATAALAKAGINIRMINQGSSEISIMIGV 48 (66)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEE
Confidence 456789999999999999997665443333333333
No 93
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=43.97 E-value=20 Score=30.32 Aligned_cols=29 Identities=31% Similarity=0.417 Sum_probs=24.8
Q ss_pred cccccccchHHHHHHHHHHHHhHHHHHcc
Q 036406 73 NNNKKLMHRDVERQRRQEMATLYASLRAL 101 (241)
Q Consensus 73 ~~~~k~~H~~~ER~RR~~mn~~f~~LrsL 101 (241)
....|.+.+..||+||---...|.-||.+
T Consensus 8 t~kErEnnk~RERrRRAIaakIfaGLR~~ 36 (150)
T PF05687_consen 8 TWKERENNKRRERRRRAIAAKIFAGLRAH 36 (150)
T ss_pred cHhhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44667778889999999999999999986
No 94
>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=43.78 E-value=17 Score=24.94 Aligned_cols=42 Identities=10% Similarity=0.022 Sum_probs=31.6
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEec
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELN 227 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~ 227 (241)
.++++.|.+++..|.+.|+.+...+....++.....+...+.
T Consensus 7 ~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~a~~~~~~~~~ 48 (69)
T cd04901 7 KNVPGVLGQINTILAEHNINIAAQYLQTRGEIGYVVIDIDSE 48 (69)
T ss_pred cCCCcHHHHHHHHHHHcCCCHHHHhccCCCCEEEEEEEcCCC
Confidence 358899999999999999999777665555666555555543
No 95
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=40.13 E-value=72 Score=22.50 Aligned_cols=41 Identities=27% Similarity=0.459 Sum_probs=31.2
Q ss_pred HHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHHH
Q 036406 85 RQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKKIKELG 135 (241)
Q Consensus 85 R~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v~~L~ 135 (241)
|.-|=.+...+..+..++- .+| .++|.+||+++-+.++.+.
T Consensus 17 R~~RHD~~NhLqvI~gllq----lg~------~~~a~eYi~~~~~~~~~~s 57 (62)
T PF14689_consen 17 RAQRHDFLNHLQVIYGLLQ----LGK------YEEAKEYIKELSKDLQQES 57 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHH----TT-------HHHHHHHHHHHHHHHHHHH
T ss_pred HHHhHHHHHHHHHHHHHHH----CCC------HHHHHHHHHHHHHHHHHHH
Confidence 6666677777888888872 222 7899999999999888774
No 96
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=38.75 E-value=65 Score=23.86 Aligned_cols=27 Identities=30% Similarity=0.458 Sum_probs=23.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 036406 116 QMNEGVNYVKYLEKKIKELGVKRDELK 142 (241)
Q Consensus 116 ~l~eAI~YIk~Lq~~v~~L~~~k~el~ 142 (241)
-+..||+-|.-||.++++|+.+...+.
T Consensus 12 ki~~aveti~~Lq~e~eeLke~n~~L~ 38 (72)
T PF06005_consen 12 KIQQAVETIALLQMENEELKEKNNELK 38 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 378899999999999999999865554
No 97
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=37.94 E-value=1.4e+02 Score=30.85 Aligned_cols=43 Identities=14% Similarity=0.219 Sum_probs=36.3
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee-CCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV-DERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~-~~~vl~tI~akv~~~ 229 (241)
.+.++|.+|..+|.+.+..|.++++... ++.....|..+|.+-
T Consensus 619 dr~GlLadI~~~ia~~~~nI~~v~~~~~~~~~~~~~~~ieV~~~ 662 (683)
T TIGR00691 619 DRKGVLSDLTTAISENDSNIVSISTKTYGKREAILNITVEIKNY 662 (683)
T ss_pred cCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCEEEEEEEEEECCH
Confidence 4788999999999999999999998776 466667888888764
No 98
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.45 E-value=67 Score=24.15 Aligned_cols=27 Identities=22% Similarity=0.469 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036406 117 MNEGVNYVKYLEKKIKELGVKRDELKR 143 (241)
Q Consensus 117 l~eAI~YIk~Lq~~v~~L~~~k~el~~ 143 (241)
+..||+-|.-||-.|++|.++...+..
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~~ 39 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLSQ 39 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhHH
Confidence 678999999999999999999886643
No 99
>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=35.90 E-value=1.4e+02 Score=20.78 Aligned_cols=42 Identities=14% Similarity=0.072 Sum_probs=29.7
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeeeC-CeEEEEEEEEecC
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRVD-ERLLHTIQAELNN 228 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~-~~vl~tI~akv~~ 228 (241)
++++|.|.++++.|.+ |.+|+..+....+ +.....+.+++.+
T Consensus 6 pdkPG~l~~~~~~i~~-~~nI~~~~~~~~~~~~~~v~v~ie~~~ 48 (68)
T cd04885 6 PERPGALKKFLELLGP-PRNITEFHYRNQGGDEARVLVGIQVPD 48 (68)
T ss_pred CCCCCHHHHHHHHhCC-CCcEEEEEEEcCCCCceEEEEEEEeCC
Confidence 3688999999999999 9999988776632 2233344445544
No 100
>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=35.29 E-value=1.5e+02 Score=20.34 Aligned_cols=21 Identities=19% Similarity=0.313 Sum_probs=19.1
Q ss_pred CCCchHHHHHHHHHhCCcEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVV 207 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVv 207 (241)
+.++.+.+++.+|.+.|+.|.
T Consensus 13 ~~~gi~~~if~aL~~~~I~v~ 33 (64)
T cd04937 13 GVPGVMAKIVGALSKEGIEIL 33 (64)
T ss_pred CCcCHHHHHHHHHHHCCCCEE
Confidence 467889999999999999997
No 101
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=35.17 E-value=1.6e+02 Score=20.70 Aligned_cols=39 Identities=15% Similarity=-0.007 Sum_probs=29.9
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEee--eCCeEEEEEEEEe
Q 036406 188 QELPLSKVLEVLLDEGLCVVNCVSTR--VDERLLHTIQAEL 226 (241)
Q Consensus 188 ~~~~Lsrvl~aLeelgLdVvsa~~S~--~~~~vl~tI~akv 226 (241)
+++.|.||+..+..-|+.+-+.++.. .++..-.+|.+.-
T Consensus 2 ~~GvL~Ri~~vf~rRg~nI~sl~v~~~~~~~~~riti~v~~ 42 (63)
T PF13710_consen 2 QPGVLNRITGVFRRRGFNIESLSVGPTEDPGISRITIVVSG 42 (63)
T ss_dssp STTHHHHHHHHHHTTT-EECEEEEEE-SSTTEEEEEEEEES
T ss_pred CcHHHHHHHHHHhcCCeEEeeEEeeecCCCCEEEEEEEEee
Confidence 56899999999999999999999888 5555555655543
No 102
>smart00338 BRLZ basic region leucin zipper.
Probab=34.57 E-value=61 Score=22.76 Aligned_cols=23 Identities=26% Similarity=0.497 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 036406 121 VNYVKYLEKKIKELGVKRDELKR 143 (241)
Q Consensus 121 I~YIk~Lq~~v~~L~~~k~el~~ 143 (241)
-.||..|+.+++.|+....+|..
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~ 47 (65)
T smart00338 25 KAEIEELERKVEQLEAENERLKK 47 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45888888888888888777754
No 103
>PF14992 TMCO5: TMCO5 family
Probab=34.04 E-value=54 Score=30.56 Aligned_cols=34 Identities=15% Similarity=0.306 Sum_probs=28.5
Q ss_pred CCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 036406 109 GKRSISDQMNEGVNYVKYLEKKIKELGVKRDELK 142 (241)
Q Consensus 109 ~K~Si~~~l~eAI~YIk~Lq~~v~~L~~~k~el~ 142 (241)
+-+++..+..++++||+.|++.++.++..|+.+.
T Consensus 138 d~~~v~~l~eDq~~~i~klkE~L~rmE~ekE~~l 171 (280)
T PF14992_consen 138 DYQQVHQLCEDQANEIKKLKEKLRRMEEEKEMLL 171 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456778899999999999999999999877653
No 104
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=33.93 E-value=67 Score=22.54 Aligned_cols=23 Identities=39% Similarity=0.699 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 036406 121 VNYVKYLEKKIKELGVKRDELKR 143 (241)
Q Consensus 121 I~YIk~Lq~~v~~L~~~k~el~~ 143 (241)
..||.+|+.++..|+...+.|..
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~ 47 (64)
T PF00170_consen 25 KQYIEELEEKVEELESENEELKK 47 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHHHHHHHHH
Confidence 46888888888888887777654
No 105
>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=33.50 E-value=1.5e+02 Score=21.52 Aligned_cols=37 Identities=14% Similarity=0.177 Sum_probs=27.7
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAE 225 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~ak 225 (241)
..++.+.+++++|++.|+.|-.... ..+.+.+++...
T Consensus 13 ~~~g~~~~IF~~La~~~I~vDmI~~--s~~~isftv~~~ 49 (75)
T cd04935 13 QQVGFLADVFAPFKKHGVSVDLVST--SETNVTVSLDPD 49 (75)
T ss_pred CccCHHHHHHHHHHHcCCcEEEEEe--CCCEEEEEEeCc
Confidence 3567899999999999999987754 335566666544
No 106
>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=33.38 E-value=1.4e+02 Score=19.48 Aligned_cols=34 Identities=9% Similarity=0.194 Sum_probs=24.6
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTI 222 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI 222 (241)
..++.+.+++.+|.+.++.|...+.+ +..+..++
T Consensus 12 ~~~~~~~~i~~~L~~~~i~v~~i~~s--~~~is~~v 45 (63)
T cd04923 12 SHPGVAAKMFKALAEAGINIEMISTS--EIKISCLV 45 (63)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEcc--CCeEEEEE
Confidence 35678999999999999999877643 34444433
No 107
>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=33.34 E-value=1.5e+02 Score=23.62 Aligned_cols=43 Identities=14% Similarity=-0.035 Sum_probs=33.7
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCe-EEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDER-LLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~-vl~tI~akv~~~ 229 (241)
.++|.|.++|..+..+|+.+.+..+-+..+. .-|.|.+.+...
T Consensus 50 ~~pGsL~~iL~~Fa~~gINLt~IESRP~~~~~~eY~FfIdieg~ 93 (115)
T cd04930 50 EGFSSLSRILKVFETFEAKIHHLESRPSRKEGGDLEVLVRCEVH 93 (115)
T ss_pred CCCcHHHHHHHHHHHCCCCEEEEECCcCCCCCceEEEEEEEEeC
Confidence 4788999999999999999999998886433 446666666543
No 108
>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=32.70 E-value=1.6e+02 Score=20.03 Aligned_cols=28 Identities=18% Similarity=0.312 Sum_probs=24.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV 214 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~ 214 (241)
++++.|.+++..|.++|+.+.+......
T Consensus 10 d~~G~L~~l~~~l~~~~i~i~~~~~~~~ 37 (69)
T cd04909 10 DEPGVIAEVTQILGDAGISIKNIEILEI 37 (69)
T ss_pred CCCCHHHHHHHHHHHcCCCceeeEeEEe
Confidence 5888999999999999999998865553
No 109
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=32.70 E-value=48 Score=21.08 Aligned_cols=19 Identities=26% Similarity=0.457 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHhHHHHHc
Q 036406 82 DVERQRRQEMATLYASLRA 100 (241)
Q Consensus 82 ~~ER~RR~~mn~~f~~Lrs 100 (241)
+.=|+||++++..+..||.
T Consensus 11 eqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 11 EQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3448899999999999985
No 110
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=32.69 E-value=2e+02 Score=30.13 Aligned_cols=43 Identities=9% Similarity=0.072 Sum_probs=35.6
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC-CeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD-ERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~-~~vl~tI~akv~~~ 229 (241)
.+.++|.+|..+|.+.++.+.++++...+ +.+...|..+|.+.
T Consensus 635 dr~GlL~dI~~~i~~~~~nI~~v~~~~~~~~~~~~~~~ieV~~~ 678 (702)
T PRK11092 635 NHQGALANLTAAINTTGSNIQSLNTEEKDGRVYSAFIRLTARDR 678 (702)
T ss_pred CCCCHHHHHHHHHHHCCCCeEEEEEEEcCCCEEEEEEEEEECCH
Confidence 47889999999999999999999987754 45566788888764
No 111
>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=32.43 E-value=2e+02 Score=20.90 Aligned_cols=36 Identities=17% Similarity=0.169 Sum_probs=27.0
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQA 224 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~a 224 (241)
..++.+.+|+.+|.+.|+.|-.... ....+.+++..
T Consensus 13 ~~~g~~~~IF~~La~~~I~VDmI~~--s~~~iSftv~~ 48 (75)
T cd04932 13 HAQGFLAKVFGILAKHNISVDLITT--SEISVALTLDN 48 (75)
T ss_pred CCcCHHHHHHHHHHHcCCcEEEEee--cCCEEEEEEec
Confidence 4678899999999999999987754 23555555554
No 112
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=30.44 E-value=16 Score=38.09 Aligned_cols=68 Identities=16% Similarity=0.235 Sum_probs=52.3
Q ss_pred cccccccchHHHHHHHHHHHHhHHHHHccCCCCCcC--CCCchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 036406 73 NNNKKLMHRDVERQRRQEMATLYASLRALLPLEFIK--GKRSISDQMNEGVNYVKYLEKKIKELGVKRDE 140 (241)
Q Consensus 73 ~~~~k~~H~~~ER~RR~~mn~~f~~LrsLlP~~~~~--~K~Si~~~l~eAI~YIk~Lq~~v~~L~~~k~e 140 (241)
...+.+.|.-+|..||..++-.|..|.++.-+.... .|.+.+..+...+.||.-++.+...+.++-..
T Consensus 648 ~k~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~~ 717 (856)
T KOG3582|consen 648 AKNRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAHS 717 (856)
T ss_pred ccCCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhhh
Confidence 458899999999999999999999999998665432 25555555888899999888777666654333
No 113
>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=29.94 E-value=2e+02 Score=20.13 Aligned_cols=35 Identities=11% Similarity=0.140 Sum_probs=25.5
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEE
Q 036406 188 QELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTI 222 (241)
Q Consensus 188 ~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI 222 (241)
.++.+.+++.+|.+.|++|.-.+.+..+-.+...+
T Consensus 14 ~~gv~~ki~~~L~~~~I~v~~i~~~~s~~~is~~V 48 (66)
T cd04915 14 TPGVLARGLAALAEAGIEPIAAHQSMRNVDVQFVV 48 (66)
T ss_pred cchHHHHHHHHHHHCCCCEEEEEecCCeeEEEEEE
Confidence 45689999999999999997666655444444433
No 114
>cd04924 ACT_AK-Arch_2 ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). Included in this CD is the second of two ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). The first or N-terminal ACT domain of these proteins cluster with the ThrA-like ACT 1 domains (ACT_AKi-HSDH-ThrA-like_1) which includes the threonine-sensitive archaeal Methanococcus jannaschii aspartokinase ACT 1 domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.77 E-value=1.7e+02 Score=19.37 Aligned_cols=36 Identities=11% Similarity=0.103 Sum_probs=24.7
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTI 222 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI 222 (241)
+.++.+.+++.+|.+.|+.|.-.+.+..+..+.+++
T Consensus 13 ~~~~~~~~i~~~L~~~~I~v~~i~q~~s~~~isf~i 48 (66)
T cd04924 13 GTPGVAGRVFGALGKAGINVIMISQGSSEYNISFVV 48 (66)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEecCccceEEEEE
Confidence 456789999999999999996555443333333333
No 115
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=29.68 E-value=2.4e+02 Score=29.81 Aligned_cols=43 Identities=16% Similarity=0.210 Sum_probs=35.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeee--CCeEEEEEEEEecCC
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRV--DERLLHTIQAELNNV 229 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~--~~~vl~tI~akv~~~ 229 (241)
++.++|.+|..+|.+.++.|.++++... ++.....|..+|.+-
T Consensus 675 Dr~GlL~dIt~~is~~~~nI~~v~~~~~~~~~~~~~~~~ieV~~~ 719 (743)
T PRK10872 675 DRSGLLRDITTILANEKVNVLGVASRSDTKQQLATIDMTIEIYNL 719 (743)
T ss_pred CCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCCEEEEEEEEEECCH
Confidence 4788999999999999999999998764 466666788888764
No 116
>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=29.62 E-value=1.6e+02 Score=20.67 Aligned_cols=35 Identities=9% Similarity=0.124 Sum_probs=24.9
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHT 221 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~t 221 (241)
...+.+.+++++|.+.++.|.-.+.+..+..+.++
T Consensus 13 ~~~~~~~~i~~~L~~~~I~v~~i~~~~~~~~isf~ 47 (80)
T cd04921 13 GVPGIAARIFSALARAGINVILISQASSEHSISFV 47 (80)
T ss_pred CCccHHHHHHHHHHHCCCcEEEEEecCCcceEEEE
Confidence 35678999999999999999766655433333333
No 117
>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=29.48 E-value=1.8e+02 Score=21.48 Aligned_cols=47 Identities=11% Similarity=0.097 Sum_probs=34.9
Q ss_pred EEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEec
Q 036406 178 EIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELN 227 (241)
Q Consensus 178 eI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~ 227 (241)
+|+++|+ ++.++-.++.+.+-+.||.+.-.-+++.|. ..|.+.--+.
T Consensus 2 vitvnCP--DktGLgcdlcr~il~fGl~i~rgd~sTDGk-WCyiv~wVv~ 48 (69)
T cd04894 2 VITINCP--DKTGLGCDLCRIILEFGLNITRGDDSTDGR-WCYIVFWVVP 48 (69)
T ss_pred EEEEeCC--CccCcccHHHHHHHHhceEEEecccccCCc-EEEEEEEEec
Confidence 3556663 577888999999999999999999988665 5555444443
No 118
>cd04933 ACT_AK1-AT_1 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the first of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine. This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. Like the Escherichia coli AKIII (LysC), Arabidopsis AK1 binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. A loop in common is involved in the binding of both Lys and S-adenosylmethionine providing an explanation for the synergistic inhibition by these effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.10 E-value=2.4e+02 Score=20.86 Aligned_cols=36 Identities=19% Similarity=0.175 Sum_probs=27.4
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQA 224 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~a 224 (241)
..++.+.+|+++|++.|+.|-.... ..+.+.+++..
T Consensus 13 ~~~g~~a~IF~~La~~~InVDmI~q--s~~sISftV~~ 48 (78)
T cd04933 13 GQYGFLAKVFSIFETLGISVDVVAT--SEVSISLTLDP 48 (78)
T ss_pred CccCHHHHHHHHHHHcCCcEEEEEe--cCCEEEEEEEh
Confidence 4678899999999999999987754 33556666654
No 119
>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=28.93 E-value=1.4e+02 Score=20.84 Aligned_cols=24 Identities=13% Similarity=0.210 Sum_probs=20.5
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEE
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCV 210 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~ 210 (241)
+.++.+.+++.+|.+.|+.|.-.+
T Consensus 19 ~~~Gv~a~i~~~La~~~I~i~~is 42 (65)
T PF13840_consen 19 DVPGVAAKIFSALAEAGINIFMIS 42 (65)
T ss_dssp TSHHHHHHHHHHHHHTTS-ECEEE
T ss_pred CcccHHHHHHHHHHHCCCCEEEEE
Confidence 378899999999999999998766
No 120
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=28.83 E-value=2.1e+02 Score=24.17 Aligned_cols=40 Identities=15% Similarity=0.082 Sum_probs=32.8
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC--CeEEEEEEEEe
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD--ERLLHTIQAEL 226 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~--~~vl~tI~akv 226 (241)
.++|.|.+|...+...|+.+.+.++...+ +....+|++.-
T Consensus 10 n~pGvL~rI~~lf~rrg~NI~Sl~v~~t~~~~~sriti~V~~ 51 (157)
T TIGR00119 10 NEPGVLSRVAGLFTRRGFNIESLTVGPTEDPDLSRMTIVVVG 51 (157)
T ss_pred CCCcHHHHHHHHHHhCCceEEEEEEeecCCCCEEEEEEEEEC
Confidence 48899999999999999999999888754 45556777654
No 121
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=27.76 E-value=2.6e+02 Score=25.69 Aligned_cols=47 Identities=17% Similarity=0.217 Sum_probs=36.3
Q ss_pred EEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEee--eCCeEEEEEEEEe
Q 036406 178 EIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTR--VDERLLHTIQAEL 226 (241)
Q Consensus 178 eI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~--~~~~vl~tI~akv 226 (241)
-|++.| .+++|...+|-.+|-++|+.+.+.+.+. .+|.+.-.+.+.+
T Consensus 8 vitv~G--~DrpGIVa~Vt~~La~~g~NI~d~s~~~~~~~g~F~m~i~v~~ 56 (286)
T PRK06027 8 VLTLSC--PDRPGIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEFEG 56 (286)
T ss_pred EEEEEC--CCCCcHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEEEe
Confidence 344443 3699999999999999999999999998 8885444455554
No 122
>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=27.72 E-value=1.8e+02 Score=18.94 Aligned_cols=26 Identities=15% Similarity=0.234 Sum_probs=21.6
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEe
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVST 212 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S 212 (241)
+.++.+.+++.+|.+.|+.|...+.+
T Consensus 12 ~~~~~~~~i~~~L~~~~i~v~~i~~s 37 (63)
T cd04936 12 SHPGVAAKMFEALAEAGINIEMISTS 37 (63)
T ss_pred CCccHHHHHHHHHHHCCCcEEEEEcc
Confidence 45678999999999999999877643
No 123
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=27.71 E-value=2.2e+02 Score=27.03 Aligned_cols=35 Identities=20% Similarity=0.322 Sum_probs=31.0
Q ss_pred CCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036406 109 GKRSISDQMNEGVNYVKYLEKKIKELGVKRDELKR 143 (241)
Q Consensus 109 ~K~Si~~~l~eAI~YIk~Lq~~v~~L~~~k~el~~ 143 (241)
.+.+++..|.++-+-.+.|+..+++|..+..++.+
T Consensus 66 ~~~~La~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qG 100 (319)
T PF09789_consen 66 ENKNLAQLLSESREQNKKLKEEVEELRQKLNEAQG 100 (319)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56788899999999999999999999998877765
No 124
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=27.55 E-value=2e+02 Score=24.44 Aligned_cols=40 Identities=15% Similarity=0.052 Sum_probs=32.6
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEeeeC--CeEEEEEEEEe
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTRVD--ERLLHTIQAEL 226 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~~~--~~vl~tI~akv 226 (241)
.++|.|.+|...+...|+.+.+.++.... +....+|++..
T Consensus 11 N~pGvL~rI~~lf~rrg~NI~Sl~v~~te~~~~sriti~V~~ 52 (161)
T PRK11895 11 NEPGVLSRVAGLFSRRGYNIESLTVGPTEDPGLSRMTIVTSG 52 (161)
T ss_pred CCCcHHHHHHHHHHhCCCcEEEEEeeecCCCCEEEEEEEEEC
Confidence 48899999999999999999999887754 55556777664
No 125
>PHA03165 hypothetical protein; Provisional
Probab=27.04 E-value=24 Score=24.50 Aligned_cols=12 Identities=42% Similarity=1.018 Sum_probs=9.2
Q ss_pred CCCCccC-Cceee
Q 036406 1 MFPLHSG-DELFI 12 (241)
Q Consensus 1 ~~~~~~~-~~~~~ 12 (241)
.||..+| ||||-
T Consensus 8 lfpiprgadefwe 20 (57)
T PHA03165 8 LFPIPRGADEFWE 20 (57)
T ss_pred cccCCCCchhhhc
Confidence 4888888 88874
No 126
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=26.72 E-value=2.2e+02 Score=23.88 Aligned_cols=50 Identities=28% Similarity=0.412 Sum_probs=35.4
Q ss_pred hHHHHHHHHHHHHhHHHHHccCCCCCcCCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 036406 81 RDVERQRRQEMATLYASLRALLPLEFIKGKRSISDQMNEGVNYVKYLEKKIKELGVKRDELKRL 144 (241)
Q Consensus 81 ~~~ER~RR~~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~YIk~Lq~~v~~L~~~k~el~~~ 144 (241)
...+|+-|.++.++-..++++ |. .||=++|.| |++++.+|+++.+++...
T Consensus 39 ~~~~~~l~~Ei~~l~~E~~~i----------S~---qDeFAkwaK-l~Rk~~kl~~el~~~~~~ 88 (161)
T PF04420_consen 39 SKEQRQLRKEILQLKRELNAI----------SA---QDEFAKWAK-LNRKLDKLEEELEKLNKS 88 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHTTS-----------T---TTSHHHHHH-HHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHcC----------Cc---HHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 445677777777777777665 33 556677887 789998888877776543
No 127
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=26.52 E-value=1.3e+02 Score=22.96 Aligned_cols=27 Identities=22% Similarity=0.469 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036406 117 MNEGVNYVKYLEKKIKELGVKRDELKR 143 (241)
Q Consensus 117 l~eAI~YIk~Lq~~v~~L~~~k~el~~ 143 (241)
+..||+-|--||-+|++|+++...+..
T Consensus 13 IqqAvdtI~LLqmEieELKekn~~L~~ 39 (79)
T PRK15422 13 VQQAIDTITLLQMEIEELKEKNNSLSQ 39 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788999999999999999999877765
No 128
>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=26.16 E-value=1.8e+02 Score=18.46 Aligned_cols=27 Identities=19% Similarity=0.241 Sum_probs=22.1
Q ss_pred CCCchHHHHHHHHHhCCcEEEEEEEee
Q 036406 187 EQELPLSKVLEVLLDEGLCVVNCVSTR 213 (241)
Q Consensus 187 ~~~~~Lsrvl~aLeelgLdVvsa~~S~ 213 (241)
..++.+.+++.+|.+.|+.|...+.+.
T Consensus 10 ~~~~~~~~i~~~L~~~~i~i~~i~~~~ 36 (61)
T cd04891 10 DKPGVAAKIFSALAEAGINVDMIVQSV 36 (61)
T ss_pred CCCcHHHHHHHHHHHcCCcEEEEEEcC
Confidence 456789999999999999998765543
No 129
>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=26.03 E-value=2e+02 Score=20.77 Aligned_cols=35 Identities=11% Similarity=0.087 Sum_probs=26.6
Q ss_pred CCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEE
Q 036406 188 QELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQA 224 (241)
Q Consensus 188 ~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~a 224 (241)
.++.+.+++++|++.|+.|-.... ..+.+.+++..
T Consensus 14 ~~g~~~~If~~la~~~I~vd~I~~--s~~~isftv~~ 48 (73)
T cd04934 14 SHGFLARIFAILDKYRLSVDLIST--SEVHVSMALHM 48 (73)
T ss_pred ccCHHHHHHHHHHHcCCcEEEEEe--CCCEEEEEEeh
Confidence 567899999999999999987754 33556666654
No 130
>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=26.00 E-value=2.1e+02 Score=20.96 Aligned_cols=42 Identities=12% Similarity=0.024 Sum_probs=26.1
Q ss_pred CCCCCchHHHHHHHHHhCCcEEEEEEEeeeC-CeEEEEEEEEecC
Q 036406 185 YLEQELPLSKVLEVLLDEGLCVVNCVSTRVD-ERLLHTIQAELNN 228 (241)
Q Consensus 185 ~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~-~~vl~tI~akv~~ 228 (241)
.++++|.|.+++.+|- +.+|........+ +..-..|..++.+
T Consensus 8 ipD~PG~L~~ll~~l~--~anI~~~~y~~~~~~~~~v~i~ie~~~ 50 (85)
T cd04906 8 IPERPGSFKKFCELIG--PRNITEFNYRYADEKDAHIFVGVSVAN 50 (85)
T ss_pred cCCCCcHHHHHHHHhC--CCceeEEEEEccCCCeeEEEEEEEeCC
Confidence 3468899999999998 6666665554422 3333344445444
No 131
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=25.33 E-value=1.6e+02 Score=27.97 Aligned_cols=28 Identities=18% Similarity=0.356 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 036406 117 MNEGVNYVKYLEKKIKELGVKRDELKRL 144 (241)
Q Consensus 117 l~eAI~YIk~Lq~~v~~L~~~k~el~~~ 144 (241)
|+++=+-|.+|+++++.|++...++++.
T Consensus 291 lDe~~krL~ELrR~vr~L~k~l~~l~~~ 318 (320)
T TIGR01834 291 LDEAHQRIQQLRREVKSLKKRLGDLEAN 318 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 8999999999999999999888877653
No 132
>PRK08198 threonine dehydratase; Provisional
Probab=23.79 E-value=3.4e+02 Score=25.70 Aligned_cols=43 Identities=16% Similarity=0.210 Sum_probs=34.6
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeee-----CCeEEEEEEEEecC
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRV-----DERLLHTIQAELNN 228 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~-----~~~vl~tI~akv~~ 228 (241)
.++++.|.+++..|-+.|..|+..+.... .+.+-.+|.+++.+
T Consensus 335 ~D~PG~L~~ll~~i~~~g~NI~~i~~~~~~~~~~~~~~~v~v~ie~~~ 382 (404)
T PRK08198 335 PDRPGQLAKLLSIIAELGANVIDVDHDRFSPDLRLGEVEVELTLETRG 382 (404)
T ss_pred CCCCCHHHHHHHHHhhCCCceEEEEEEEccCCCCCceEEEEEEEEeCC
Confidence 46899999999999999999998887642 35677777777754
No 133
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=23.55 E-value=3.5e+02 Score=24.90 Aligned_cols=48 Identities=15% Similarity=0.115 Sum_probs=34.0
Q ss_pred EEEEeecCCCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEec
Q 036406 178 EIAYSCGYLEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELN 227 (241)
Q Consensus 178 eI~i~~~~~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~ 227 (241)
.|.+.| .+++|...+|-..|-++|+++.+.+..+..+.-++++.+++.
T Consensus 9 vitv~G--~DrpGIVa~VT~~La~~~vNI~dls~~~~~~~~~F~m~~~~~ 56 (286)
T PRK13011 9 VLTLSC--PSAAGIVAAVTGFLAEHGCYITELHSFDDRLSGRFFMRVEFH 56 (286)
T ss_pred EEEEEe--CCCCCHHHHHHHHHHhCCCCEEEeeeeecCCCCeEEEEEEEe
Confidence 344444 369999999999999999999999887422332333555554
No 134
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=22.25 E-value=2.5e+02 Score=19.21 Aligned_cols=32 Identities=16% Similarity=0.241 Sum_probs=25.9
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036406 112 SISDQMNEGVNYVKYLEKKIKELGVKRDELKR 143 (241)
Q Consensus 112 Si~~~l~eAI~YIk~Lq~~v~~L~~~k~el~~ 143 (241)
|+...-+.+-++|..|..++..+.++.+.++.
T Consensus 13 slv~FQ~~v~~~lq~Lt~kL~~vs~RLe~LEn 44 (47)
T PF10393_consen 13 SLVAFQNKVTSALQSLTQKLDAVSKRLEALEN 44 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 55566788889999999999999888877754
No 135
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=22.17 E-value=1.8e+02 Score=25.27 Aligned_cols=41 Identities=5% Similarity=-0.008 Sum_probs=34.6
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEe
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAEL 226 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv 226 (241)
.+++|...+|-++|.++|..++.++.+..+|.+--.+.+..
T Consensus 16 ~DrpGIVa~vs~~l~~~g~NI~ds~~t~lgg~Fa~i~lvs~ 56 (190)
T PRK11589 16 ADRPGIVNTITRHVSSCGCNIEDSRLAMLGEEFTFIMLLSG 56 (190)
T ss_pred CCCChHHHHHHHHHHHcCCCeeehhhHhhCCceEEEEEEeC
Confidence 36999999999999999999999999999997655555533
No 136
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=21.55 E-value=3e+02 Score=28.77 Aligned_cols=40 Identities=10% Similarity=0.129 Sum_probs=34.4
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEe
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAEL 226 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv 226 (241)
++..+.|++++-+|--+|+.|.+|.+.+ +|.....+.+..
T Consensus 555 ~~~~~~~~~~~~~~a~~~~~~~~a~~~~-~~~~~~~~~v~~ 594 (693)
T PRK00227 555 GDYPRELVRVLALIAAKGWNILSARMVA-NGPWSAEFDVRA 594 (693)
T ss_pred CCcccHHHHHHHHHHhcCceeeEeEEec-CCceEEEEEEec
Confidence 4688999999999999999999999999 777766666654
No 137
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=21.47 E-value=1.8e+02 Score=22.18 Aligned_cols=27 Identities=19% Similarity=0.367 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036406 117 MNEGVNYVKYLEKKIKELGVKRDELKR 143 (241)
Q Consensus 117 l~eAI~YIk~Lq~~v~~L~~~k~el~~ 143 (241)
+..|-+-|-++|.+++.|+.++.++..
T Consensus 10 ieK~k~Kiae~Q~rlK~Le~qk~E~EN 36 (83)
T PF14193_consen 10 IEKTKEKIAELQARLKELEAQKTEAEN 36 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556667888999999999999888764
No 138
>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=21.29 E-value=4.1e+02 Score=24.37 Aligned_cols=43 Identities=9% Similarity=0.169 Sum_probs=33.6
Q ss_pred CCCCchHHHHHHHHHhCCcEEEEEEEeeeC--CeEEEEEEEEecC
Q 036406 186 LEQELPLSKVLEVLLDEGLCVVNCVSTRVD--ERLLHTIQAELNN 228 (241)
Q Consensus 186 ~~~~~~Lsrvl~aLeelgLdVvsa~~S~~~--~~vl~tI~akv~~ 228 (241)
++++|...+|-..|-++|+.+++++-+... +.++-.+.+.+..
T Consensus 8 ~D~~GIVA~Vt~~La~~g~NI~d~sq~~~~~~~~F~mr~~v~~~~ 52 (280)
T TIGR00655 8 PDQKGLVAAISTFIAKHGANIISNDQHTDPETGRFFMRVEFQLEG 52 (280)
T ss_pred CCCCChHHHHHHHHHHCCCCEEeeeEEEcCCCCeEEEEEEEEeCC
Confidence 468999999999999999999999888743 6555555555443
No 139
>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=21.27 E-value=3.8e+02 Score=25.06 Aligned_cols=44 Identities=16% Similarity=0.118 Sum_probs=34.2
Q ss_pred CCCCCchHHHHHHHHHhCCcEEEEEEEee-----eCCeEEEEEEEEecC
Q 036406 185 YLEQELPLSKVLEVLLDEGLCVVNCVSTR-----VDERLLHTIQAELNN 228 (241)
Q Consensus 185 ~~~~~~~Lsrvl~aLeelgLdVvsa~~S~-----~~~~vl~tI~akv~~ 228 (241)
.+++++.|.++++.+.+.|.+|++..... ..+....+|.++..+
T Consensus 312 l~D~pG~L~~v~~~i~~~~~NI~~i~~~r~~~~~~~~~~~v~v~vet~~ 360 (380)
T TIGR01127 312 LPDRPGALYHLLESIAEARANIVKIDHDRLSKEIPPGFAMVEITLETRG 360 (380)
T ss_pred eCCCCCHHHHHHHHHhcCCCcEEEEEeeccccCCCCceEEEEEEEEeCC
Confidence 44689999999999999999999886652 235666777777753
No 140
>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=21.07 E-value=2.7e+02 Score=19.86 Aligned_cols=48 Identities=19% Similarity=0.194 Sum_probs=31.1
Q ss_pred ceEEEeeeceEEEEEeecCCCC----CchHHHHHHHHHhCCcEEEEEEEeee
Q 036406 167 RFVVHQSLVGIEIAYSCGYLEQ----ELPLSKVLEVLLDEGLCVVNCVSTRV 214 (241)
Q Consensus 167 ~V~V~~~~~~veI~i~~~~~~~----~~~Lsrvl~aLeelgLdVvsa~~S~~ 214 (241)
.|.+...+..+.|.+.+...+- ..-+..+-++|...|+.+.+.+++..
T Consensus 28 ~v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~~~~~~v~~~ 79 (85)
T PF02120_consen 28 EVKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGLEVVNLSVSQG 79 (85)
T ss_dssp EEEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-EEEEEEEESS
T ss_pred EEEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEEEEC
Confidence 3556656778888877643210 11366788999999999998887753
No 141
>COG4710 Predicted DNA-binding protein with an HTH domain [General function prediction only]
Probab=20.86 E-value=1.6e+02 Score=22.25 Aligned_cols=33 Identities=18% Similarity=0.272 Sum_probs=20.4
Q ss_pred HHHHhHHHHHccCCCCCcCCCCchhhhHHHHHH-HHHHHHH
Q 036406 90 EMATLYASLRALLPLEFIKGKRSISDQMNEGVN-YVKYLEK 129 (241)
Q Consensus 90 ~mn~~f~~LrsLlP~~~~~~K~Si~~~l~eAI~-YIk~Lq~ 129 (241)
+|.+++..|.+-. ...|+-. |.|||+ ||.+++.
T Consensus 15 E~~eRL~~Ls~~t----grtkayy---vrEaIE~~ieemED 48 (80)
T COG4710 15 ELKERLDNLSKNT----GRTKAYY---VREAIEAYIEEMED 48 (80)
T ss_pred HHHHHHHHHHHhc----CCchhHH---HHHHHHHHHHHHHH
Confidence 3455555555433 3446666 999996 7777654
No 142
>PF06399 GFRP: GTP cyclohydrolase I feedback regulatory protein (GFRP); InterPro: IPR009112 GTP cyclohydrolase I feedback regulatory protein (GFRP) in mammals helps regulate the biosynthesis of tetrahydrobiopterin through the feedback inhibition of the rate-limiting enzyme GTP cyclohydrolase I (GTPCHI). Tetrahydrobiopterin is the cofactor required for the hydroxylation of aromatic amino acids. The crystal structure of GFRP reveals that the protein forms a homopentamer []. In the presence of phenylalanine, the stimulatory complex consists of a GTPCHI decamer sandwiched by two GFRP pentamers, which is thought to enhance GTPCHI activity by locking the enzyme in the active state []. The structure of GFRP consists of two alpha/beta layers arranged beta(2)-alpha-beta(2)-alpha-beta(2), with antiparallel beta-sheets in the order 342165.; GO: 0009890 negative regulation of biosynthetic process; PDB: 1IS7_N 1IS8_Q 1WPL_T 1JG5_C.
Probab=20.84 E-value=2.8e+02 Score=21.37 Aligned_cols=30 Identities=33% Similarity=0.316 Sum_probs=24.9
Q ss_pred HHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEE
Q 036406 192 LSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQ 223 (241)
Q Consensus 192 Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~ 223 (241)
=..|+..||..|..|+ ..+-++.....|+|
T Consensus 52 Pr~VLnKLE~~G~kVv--smtgvgqt~vWtLH 81 (83)
T PF06399_consen 52 PRVVLNKLEKMGYKVV--SMTGVGQTLVWTLH 81 (83)
T ss_dssp HHHHHHHHHHTTEEEE--EEEEETTEEEEEEE
T ss_pred hHHHHHHHHhcCeEEE--EEeccCceEEEEEe
Confidence 3469999999999999 56678888888887
No 143
>PF13224 DUF4032: Domain of unknown function (DUF4032)
Probab=20.58 E-value=1.7e+02 Score=25.15 Aligned_cols=41 Identities=17% Similarity=0.091 Sum_probs=34.2
Q ss_pred chHHHHHHHHHhCCcEEEEEEEeeeCCeEEEEEEEEecCCc
Q 036406 190 LPLSKVLEVLLDEGLCVVNCVSTRVDERLLHTIQAELNNVV 230 (241)
Q Consensus 190 ~~Lsrvl~aLeelgLdVvsa~~S~~~~~vl~tI~akv~~~~ 230 (241)
.-..+=+..|.++|++|--..+++..+.--..|+.+|.+..
T Consensus 19 ~ri~~ri~rLN~LGFdV~El~~~~~~~g~~~~i~p~Vvd~g 59 (165)
T PF13224_consen 19 WRIEERIRRLNELGFDVGELEITTDDDGTRLRIQPKVVDAG 59 (165)
T ss_pred HHHHHHHHHHHhcCCceeeeEeEEcCCCCEEEEEeeEeCCc
Confidence 45667789999999999999999987777778888887763
Done!