Query 035343
Match_columns 67
No_of_seqs 27 out of 29
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 11:06:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035343.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035343hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd04895 ACT_ACR_1 ACT domain-c 96.9 0.00071 1.5E-08 41.7 2.1 26 1-27 45-70 (72)
2 cd04897 ACT_ACR_3 ACT domain-c 94.9 0.036 7.8E-07 34.4 3.2 26 1-27 45-70 (75)
3 cd04925 ACT_ACR_2 ACT domain-c 94.6 0.053 1.2E-06 31.8 3.3 29 1-29 44-72 (74)
4 cd04896 ACT_ACR-like_3 ACT dom 93.7 0.083 1.8E-06 32.8 2.9 28 1-30 46-73 (75)
5 PF11523 DUF3223: Protein of u 93.4 0.067 1.5E-06 33.0 2.1 33 7-44 9-41 (76)
6 PF11333 DUF3135: Protein of u 90.0 0.34 7.3E-06 30.9 2.6 26 13-38 15-40 (83)
7 cd04900 ACT_UUR-like_1 ACT dom 84.0 1.4 3.1E-05 25.3 2.7 26 1-27 46-71 (73)
8 PRK05007 PII uridylyl-transfer 80.3 1.8 3.9E-05 36.3 3.0 27 1-29 852-878 (884)
9 cd04927 ACT_ACR-like_2 Second 80.1 2.8 6.1E-05 24.8 3.1 27 1-29 45-71 (76)
10 PRK05092 PII uridylyl-transfer 79.7 1.9 4.1E-05 36.1 3.0 35 1-36 887-921 (931)
11 PRK01759 glnD PII uridylyl-tra 77.0 2.3 5E-05 35.6 2.7 27 1-29 827-853 (854)
12 PRK14004 hisH imidazole glycer 74.7 0.84 1.8E-05 32.0 -0.3 9 30-38 188-196 (210)
13 PF14483 Cut8_M: Cut8 dimerisa 74.2 3.2 7E-05 23.1 2.0 21 24-44 17-37 (38)
14 cd04926 ACT_ACR_4 C-terminal 73.6 4 8.6E-05 23.6 2.4 23 1-25 45-67 (72)
15 PRK13146 hisH imidazole glycer 73.0 0.99 2.1E-05 31.1 -0.3 9 30-38 186-194 (209)
16 COG0512 PabA Anthranilate/para 70.5 1.3 2.8E-05 32.3 -0.2 7 30-36 168-174 (191)
17 CHL00188 hisH imidazole glycer 70.1 1.3 2.8E-05 31.1 -0.3 9 30-38 188-196 (210)
18 cd01748 GATase1_IGP_Synthase T 69.4 1.3 2.9E-05 29.5 -0.3 9 30-38 179-187 (198)
19 cd07858 STKc_TEY_MAPK_plant Ca 68.6 4.4 9.5E-05 27.9 2.1 17 18-34 321-337 (337)
20 PRK08857 para-aminobenzoate sy 67.8 1.5 3.3E-05 29.5 -0.3 8 30-37 170-177 (193)
21 CHL00101 trpG anthranilate syn 67.8 1.4 3.1E-05 29.6 -0.4 8 30-37 166-173 (190)
22 PF00117 GATase: Glutamine ami 67.5 1.6 3.4E-05 28.4 -0.2 11 30-40 169-179 (192)
23 cd04899 ACT_ACR-UUR-like_2 C-t 67.2 8.8 0.00019 20.9 2.8 25 1-27 44-68 (70)
24 PRK07649 para-aminobenzoate/an 67.1 1.5 3.3E-05 30.1 -0.4 8 30-37 165-172 (195)
25 PRK13170 hisH imidazole glycer 66.9 1.6 3.5E-05 29.7 -0.2 9 30-38 175-183 (196)
26 PRK13152 hisH imidazole glycer 65.0 1.8 3.9E-05 29.3 -0.3 9 30-38 180-188 (201)
27 PRK00275 glnD PII uridylyl-tra 64.2 8 0.00017 32.7 3.2 29 1-30 858-886 (895)
28 PRK05637 anthranilate synthase 64.0 2 4.3E-05 30.0 -0.3 8 30-37 182-189 (208)
29 PF09330 Lact-deh-memb: D-lact 64.0 4 8.7E-05 31.8 1.4 28 13-41 7-34 (291)
30 TIGR00566 trpG_papA glutamine 63.9 2 4.2E-05 29.0 -0.3 8 30-37 166-173 (188)
31 TIGR01855 IMP_synth_hisH imida 63.3 2.1 4.5E-05 29.0 -0.3 9 30-38 175-183 (196)
32 PRK13141 hisH imidazole glycer 63.3 2.1 4.6E-05 28.8 -0.2 9 30-38 180-188 (205)
33 PRK08007 para-aminobenzoate sy 62.6 2.2 4.7E-05 28.9 -0.3 8 30-37 165-172 (187)
34 TIGR01693 UTase_glnD [Protein- 61.8 9.4 0.0002 31.6 3.2 30 1-31 713-742 (850)
35 cd01742 GATase1_GMP_Synthase T 60.4 2.5 5.5E-05 27.3 -0.2 9 30-38 161-169 (181)
36 PF00380 Ribosomal_S9: Ribosom 60.4 12 0.00025 25.1 2.9 29 15-43 64-92 (121)
37 PRK13181 hisH imidazole glycer 59.9 2.6 5.6E-05 28.3 -0.3 8 30-37 178-185 (199)
38 PRK05670 anthranilate synthase 58.8 2.7 5.9E-05 28.0 -0.3 8 30-37 165-172 (189)
39 PRK06774 para-aminobenzoate sy 58.3 2.8 6.1E-05 28.0 -0.3 8 30-37 169-176 (191)
40 CHL00079 rps9 ribosomal protei 57.7 12 0.00025 25.6 2.6 29 14-42 72-100 (130)
41 PRK00758 GMP synthase subunit 56.9 3.1 6.8E-05 27.4 -0.3 8 30-37 158-165 (184)
42 cd01744 GATase1_CPSase Small c 56.6 3.3 7.1E-05 27.4 -0.2 10 29-38 156-165 (178)
43 PF13174 TPR_6: Tetratricopept 56.4 11 0.00024 17.4 1.8 13 24-36 21-33 (33)
44 PRK07569 bidirectional hydroge 56.4 11 0.00025 26.4 2.5 23 13-35 76-98 (234)
45 PF02518 HATPase_c: Histidine 56.2 8.9 0.00019 22.3 1.6 23 14-36 2-24 (111)
46 TIGR00888 guaA_Nterm GMP synth 55.6 3.3 7.2E-05 27.4 -0.3 9 30-38 161-169 (188)
47 cd01743 GATase1_Anthranilate_S 55.5 3.2 7E-05 27.3 -0.4 10 29-38 163-172 (184)
48 PRK00132 rpsI 30S ribosomal pr 55.3 15 0.00032 25.0 2.8 30 14-43 72-101 (130)
49 cd06930 NR_LBD_F2 Ligand-bindi 54.7 28 0.00061 21.7 3.8 30 11-40 119-152 (165)
50 PRK07765 para-aminobenzoate sy 54.6 3.6 7.9E-05 28.6 -0.3 8 30-37 169-176 (214)
51 PRK06895 putative anthranilate 54.3 3.7 8E-05 27.5 -0.3 7 30-36 166-172 (190)
52 PLN02335 anthranilate synthase 52.5 4 8.7E-05 28.6 -0.3 8 30-37 190-197 (222)
53 PRK13143 hisH imidazole glycer 51.5 4.4 9.6E-05 27.5 -0.2 9 30-38 176-184 (200)
54 COG0103 RpsI Ribosomal protein 51.0 18 0.00039 25.3 2.7 30 15-44 73-102 (130)
55 cd01747 GATase1_Glutamyl_Hydro 50.9 5 0.00011 29.2 -0.1 15 30-45 208-222 (273)
56 COG0505 CarA Carbamoylphosphat 50.7 5 0.00011 32.1 -0.1 8 30-37 338-345 (368)
57 PRK04374 PII uridylyl-transfer 50.0 16 0.00035 31.0 2.8 27 1-29 840-866 (869)
58 PTZ00305 NADH:ubiquinone oxido 49.9 16 0.00035 28.3 2.6 23 13-35 142-164 (297)
59 cd06950 NR_LBD_Tlx_PNR_like Th 49.4 29 0.00062 23.8 3.5 30 11-40 144-177 (206)
60 cd06943 NR_LBD_RXR_like The li 49.2 33 0.00071 22.9 3.7 31 10-40 148-182 (207)
61 PRK06490 glutamine amidotransf 49.0 5.6 0.00012 28.3 -0.0 10 30-39 175-184 (239)
62 cd01433 Ribosomal_L16_L10e Rib 49.0 19 0.00041 22.9 2.4 37 12-48 19-68 (112)
63 PF08818 DUF1801: Domain of un 46.5 12 0.00025 22.2 1.1 28 15-46 3-30 (103)
64 PLN02771 carbamoyl-phosphate s 46.1 6 0.00013 31.5 -0.3 8 30-37 398-405 (415)
65 cd06952 NR_LBD_TR2_like The li 45.8 35 0.00075 23.3 3.4 31 10-40 146-180 (222)
66 PF00226 DnaJ: DnaJ domain; I 45.8 21 0.00046 19.6 2.0 24 15-38 11-34 (64)
67 smart00430 HOLI Ligand binding 45.4 26 0.00057 20.9 2.5 25 9-33 112-138 (163)
68 cd06940 NR_LBD_REV_ERB The lig 45.3 39 0.00085 22.9 3.6 31 10-40 129-163 (189)
69 cd01745 GATase1_2 Subgroup of 44.3 6.7 0.00014 26.4 -0.2 9 30-38 167-175 (189)
70 TIGR01368 CPSaseIIsmall carbam 43.9 6.5 0.00014 30.2 -0.4 9 29-37 331-339 (358)
71 cd04369 Bromodomain Bromodomai 43.5 34 0.00073 19.0 2.7 29 15-44 61-89 (99)
72 PRK13142 hisH imidazole glycer 43.1 6.9 0.00015 27.6 -0.3 9 30-38 166-174 (192)
73 CHL00197 carA carbamoyl-phosph 42.0 7.5 0.00016 30.3 -0.3 8 30-37 350-357 (382)
74 smart00271 DnaJ DnaJ molecular 41.8 27 0.00058 18.7 2.0 23 16-38 13-35 (60)
75 TIGR01693 UTase_glnD [Protein- 41.8 23 0.0005 29.3 2.5 27 1-29 823-849 (850)
76 PRK12564 carbamoyl phosphate s 41.2 7.7 0.00017 29.8 -0.3 9 29-37 335-343 (360)
77 TIGR03582 EF_0829 PRD domain p 41.1 16 0.00035 24.3 1.2 32 2-33 50-86 (107)
78 PRK12838 carbamoyl phosphate s 40.7 7.8 0.00017 29.7 -0.4 8 30-37 326-333 (354)
79 PF06226 DUF1007: Protein of u 40.7 35 0.00077 23.8 2.9 27 8-34 62-88 (212)
80 TIGR01973 NuoG NADH-quinone ox 40.6 26 0.00057 27.6 2.5 23 13-35 72-94 (603)
81 cd06257 DnaJ DnaJ domain or J- 40.4 29 0.00063 18.1 2.0 24 15-38 11-34 (55)
82 PRK09065 glutamine amidotransf 39.5 9.7 0.00021 26.8 -0.0 11 30-40 182-192 (237)
83 PTZ00173 60S ribosomal protein 38.5 48 0.001 24.8 3.4 19 13-31 60-78 (213)
84 PRK09522 bifunctional glutamin 37.8 9.4 0.0002 30.6 -0.3 8 30-37 167-174 (531)
85 cd07070 NR_LBD_SF-1 The ligand 37.8 55 0.0012 23.1 3.6 31 10-40 160-194 (237)
86 PF05763 DUF835: Protein of un 37.6 39 0.00085 22.6 2.7 30 1-31 44-73 (136)
87 cd07859 STKc_TDY_MAPK_plant Ca 36.8 32 0.0007 23.1 2.2 16 19-34 323-338 (338)
88 PF12229 PG_binding_4: Putativ 36.8 19 0.00041 20.9 0.9 27 2-28 83-109 (114)
89 cd07068 NR_LBD_ER_like The lig 34.8 65 0.0014 22.1 3.4 27 12-38 146-177 (221)
90 PF00252 Ribosomal_L16: Riboso 34.7 42 0.00092 22.2 2.5 19 13-31 41-59 (133)
91 cd01741 GATase1_1 Subgroup of 34.1 12 0.00026 24.4 -0.2 6 30-35 175-180 (188)
92 COG5002 VicK Signal transducti 33.9 40 0.00087 28.0 2.6 24 14-37 339-362 (459)
93 KOG0026 Anthranilate synthase, 33.1 12 0.00026 28.3 -0.4 8 30-37 191-198 (223)
94 PF08469 NPHI_C: Nucleoside tr 33.0 32 0.0007 24.7 1.8 32 1-32 15-51 (148)
95 cd06929 NR_LBD_F1 Ligand-bindi 32.8 93 0.002 19.7 3.7 30 11-40 120-153 (174)
96 PRK13525 glutamine amidotransf 32.6 12 0.00027 25.3 -0.4 9 30-38 167-175 (189)
97 PLN00210 40S ribosomal protein 32.6 59 0.0013 22.4 2.9 21 14-34 72-92 (141)
98 COG1701 Uncharacterized protei 32.5 47 0.001 25.7 2.7 29 8-37 47-75 (256)
99 PRK07053 glutamine amidotransf 32.5 15 0.00032 26.1 -0.0 11 30-40 174-184 (234)
100 cd06932 NR_LBD_PPAR The ligand 32.4 71 0.0015 23.0 3.5 30 10-39 181-214 (259)
101 cd07069 NR_LBD_Lrh-1 The ligan 32.3 80 0.0017 22.5 3.7 30 11-40 163-196 (241)
102 PF03914 CBF: CBF/Mak21 family 32.2 37 0.00079 22.3 1.8 24 23-46 87-110 (164)
103 PRK08250 glutamine amidotransf 32.2 15 0.00033 25.9 -0.0 11 30-40 176-186 (235)
104 cd01749 GATase1_PB Glutamine A 32.0 13 0.00029 24.8 -0.3 10 30-39 166-175 (183)
105 cd06951 NR_LBD_Dax1_like The l 32.0 72 0.0016 22.3 3.4 29 11-40 152-184 (222)
106 PRK01759 glnD PII uridylyl-tra 31.6 53 0.0012 27.7 3.1 28 1-30 722-749 (854)
107 cd06934 NR_LBD_PXR_like The li 31.4 69 0.0015 22.4 3.2 27 10-36 152-182 (226)
108 cd06944 NR_LBD_Ftz-F1_like The 31.3 79 0.0017 22.1 3.5 28 12-39 162-193 (237)
109 cd06953 NR_LBD_DHR4_like The l 31.1 88 0.0019 21.6 3.6 29 11-39 149-181 (213)
110 cd06937 NR_LBD_RAR The ligand 30.7 83 0.0018 22.1 3.5 30 10-39 155-188 (231)
111 cd06941 NR_LBD_DmE78_like The 30.7 88 0.0019 20.9 3.5 28 11-38 120-151 (195)
112 PRK09203 rplP 50S ribosomal pr 30.6 51 0.0011 22.3 2.4 18 12-29 41-58 (138)
113 PF06628 Catalase-rel: Catalas 30.5 39 0.00085 19.9 1.6 24 20-43 43-66 (68)
114 PF10523 BEN: BEN domain; Int 29.4 98 0.0021 17.4 3.1 22 7-28 32-53 (79)
115 PF06743 FAST_1: FAST kinase-l 29.4 8.2 0.00018 22.9 -1.5 32 30-61 11-48 (71)
116 cd06948 NR_LBD_COUP-TF Ligand 29.2 91 0.002 21.8 3.5 29 11-39 150-182 (236)
117 KOG1224 Para-aminobenzoate (PA 29.2 15 0.00033 31.9 -0.4 8 30-37 194-201 (767)
118 PRK09129 NADH dehydrogenase su 29.2 53 0.0011 26.7 2.6 23 13-35 74-96 (776)
119 cd06931 NR_LBD_HNF4_like The l 29.2 1.2E+02 0.0026 20.5 4.0 31 9-39 148-182 (222)
120 PLN02889 oxo-acid-lyase/anthra 29.2 16 0.00035 31.9 -0.3 7 30-36 312-318 (918)
121 KOG1474 Transcription initiati 28.8 46 0.001 27.4 2.2 37 9-46 277-313 (640)
122 PF02852 Pyr_redox_dim: Pyridi 28.6 24 0.00051 21.4 0.4 16 26-41 92-107 (110)
123 PLN02347 GMP synthetase 28.5 17 0.00037 29.4 -0.3 9 30-38 179-187 (536)
124 TIGR01164 rplP_bact ribosomal 28.3 62 0.0014 21.6 2.4 19 12-30 40-58 (126)
125 TIGR03800 PLP_synth_Pdx2 pyrid 27.4 17 0.00038 24.7 -0.3 9 30-38 166-174 (184)
126 PF06348 DUF1059: Protein of u 27.3 70 0.0015 18.6 2.3 17 9-25 38-54 (57)
127 PRK13527 glutamine amidotransf 27.0 18 0.0004 24.3 -0.3 9 30-38 177-185 (200)
128 PRK05007 PII uridylyl-transfer 26.9 73 0.0016 27.1 3.1 31 1-33 746-776 (884)
129 PRK00275 glnD PII uridylyl-tra 26.8 73 0.0016 27.2 3.1 41 1-43 749-790 (895)
130 COG1222 RPT1 ATP-dependent 26S 26.5 46 0.001 27.2 1.8 32 16-55 158-189 (406)
131 cd05495 Bromo_cbp_like Bromodo 26.4 77 0.0017 20.1 2.5 26 15-40 1-26 (108)
132 PRK05665 amidotransferase; Pro 26.2 23 0.0005 25.3 0.1 11 30-40 182-192 (240)
133 PF02075 RuvC: Crossover junct 26.0 64 0.0014 21.4 2.2 29 8-36 33-61 (149)
134 PF11842 DUF3362: Domain of un 26.0 40 0.00088 23.9 1.3 28 8-37 31-59 (150)
135 PRK11366 puuD gamma-glutamyl-g 25.9 20 0.00043 25.6 -0.3 8 30-37 219-226 (254)
136 COG0118 HisH Glutamine amidotr 25.6 26 0.00056 25.9 0.3 11 30-40 181-191 (204)
137 PF10588 NADH-G_4Fe-4S_3: NADH 25.5 49 0.0011 18.1 1.3 14 22-35 1-14 (41)
138 cd06949 NR_LBD_ER Ligand bindi 25.3 1.1E+02 0.0025 21.5 3.4 21 12-32 157-177 (235)
139 PRK14607 bifunctional glutamin 25.2 21 0.00046 28.3 -0.3 8 30-37 166-173 (534)
140 PRK00474 rps9p 30S ribosomal p 24.7 87 0.0019 21.4 2.7 29 14-42 72-102 (134)
141 TIGR03627 arch_S9P archaeal ri 24.7 88 0.0019 21.3 2.7 29 14-42 68-98 (130)
142 PF08557 Lipid_DES: Sphingolip 24.6 31 0.00067 19.7 0.4 12 28-39 21-32 (39)
143 PRK00074 guaA GMP synthase; Re 24.6 22 0.00048 28.1 -0.3 9 30-38 166-174 (511)
144 PRK07860 NADH dehydrogenase su 24.4 72 0.0016 26.5 2.6 32 5-36 68-102 (797)
145 PF15237 PTRF_SDPR: PTRF/SDPR 24.1 50 0.0011 25.3 1.6 16 8-23 206-221 (246)
146 cd06942 NR_LBD_Sex_1_like The 24.0 1.4E+02 0.0031 20.0 3.6 31 10-40 120-154 (191)
147 COG0518 GuaA GMP synthase - Gl 24.0 19 0.00041 25.3 -0.7 9 30-38 171-179 (198)
148 PLN02617 imidazole glycerol ph 23.8 23 0.0005 28.7 -0.3 8 30-37 188-195 (538)
149 PF09409 PUB: PUB domain; Int 23.8 1.1E+02 0.0023 18.3 2.7 19 18-38 10-28 (87)
150 TIGR01737 FGAM_synth_I phospho 23.6 23 0.0005 24.7 -0.3 9 30-38 199-207 (227)
151 PTZ00100 DnaJ chaperone protei 23.4 70 0.0015 21.5 2.0 22 15-36 76-97 (116)
152 cd06946 NR_LBD_ERR The ligand 23.3 1.5E+02 0.0032 20.2 3.6 22 11-32 145-166 (221)
153 PF01011 PQQ: PQQ enzyme repea 23.1 36 0.00079 17.5 0.5 11 2-12 13-23 (38)
154 PRK03381 PII uridylyl-transfer 23.1 61 0.0013 27.1 2.0 23 1-26 751-773 (774)
155 PF09365 DUF2461: Conserved hy 22.8 70 0.0015 22.7 2.0 17 13-29 116-132 (212)
156 cd01917 ACS_2 Acetyl-CoA synth 22.6 77 0.0017 24.7 2.3 42 3-45 41-82 (287)
157 COG0642 BaeS Signal transducti 22.5 1.1E+02 0.0024 19.2 2.7 21 14-34 225-245 (336)
158 cd07348 NR_LBD_NGFI-B The liga 22.3 1.4E+02 0.003 21.4 3.5 23 10-32 156-178 (238)
159 PF01415 IL7: Interleukin 7/9 22.1 74 0.0016 22.4 2.0 23 16-39 8-30 (129)
160 PF14098 SSPI: Small, acid-sol 21.8 48 0.001 20.8 0.9 16 20-35 2-17 (65)
161 cd07349 NR_LBD_SHP The ligand 21.7 1.5E+02 0.0033 20.9 3.5 31 10-40 148-182 (222)
162 KOG3009 Predicted carbohydrate 21.6 28 0.0006 29.8 -0.3 20 27-46 23-42 (614)
163 PF11943 DUF3460: Protein of u 21.6 56 0.0012 20.2 1.2 21 25-45 10-30 (60)
164 PF07879 PHB_acc_N: PHB/PHA ac 21.5 58 0.0013 20.4 1.2 19 1-19 35-53 (64)
165 PRK13566 anthranilate synthase 21.1 28 0.00061 29.2 -0.3 8 30-37 692-699 (720)
166 PRK12814 putative NADPH-depend 21.0 96 0.0021 25.0 2.6 24 13-36 76-99 (652)
167 TIGR01815 TrpE-clade3 anthrani 21.0 28 0.0006 29.3 -0.4 8 29-36 681-688 (717)
168 PRK07567 glutamine amidotransf 20.9 31 0.00068 24.4 -0.1 11 30-40 186-196 (242)
169 cd04873 ACT_UUR-ACR-like ACT d 20.8 1.5E+02 0.0032 15.5 2.8 19 7-26 49-67 (70)
170 PRK09130 NADH dehydrogenase su 20.7 94 0.002 25.6 2.6 23 13-35 75-97 (687)
171 smart00830 CM_2 Chorismate mut 20.7 1E+02 0.0023 17.5 2.1 28 6-33 30-57 (79)
172 PHA02749 hypothetical protein; 20.1 43 0.00093 26.5 0.5 15 25-39 132-146 (322)
173 cd07071 NR_LBD_Nurr1 The ligan 20.1 1.7E+02 0.0037 20.9 3.5 24 9-32 155-178 (238)
174 CHL00044 rpl16 ribosomal prote 20.1 1.1E+02 0.0023 20.8 2.3 20 12-31 41-60 (135)
No 1
>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=96.88 E-value=0.00071 Score=41.70 Aligned_cols=26 Identities=15% Similarity=0.189 Sum_probs=23.4
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVIN 27 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiN 27 (67)
|||+|. .|+||.||+++++||.++..
T Consensus 45 FyV~d~-~g~kl~d~~~~~~l~~~L~~ 70 (72)
T cd04895 45 FHVTDQ-LGNKLTDDSLIAYIEKSLGT 70 (72)
T ss_pred EEEECC-CCCCCCCHHHHHHHHHHhcc
Confidence 799988 89999999999999998753
No 2
>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=94.91 E-value=0.036 Score=34.43 Aligned_cols=26 Identities=8% Similarity=0.065 Sum_probs=22.3
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVIN 27 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiN 27 (67)
|||++. .|+|+.+++++|+||..+..
T Consensus 45 FyV~d~-~g~kl~~~~~~~~l~~~L~~ 70 (75)
T cd04897 45 YYIRHK-DGRTLSTEGERQRVIKCLEA 70 (75)
T ss_pred EEEEcC-CCCccCCHHHHHHHHHHHHH
Confidence 788776 59999999999999988764
No 3
>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=94.64 E-value=0.053 Score=31.84 Aligned_cols=29 Identities=31% Similarity=0.367 Sum_probs=25.0
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNL 29 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNl 29 (67)
|+|++.++|.++.++++++.||.+|.+-|
T Consensus 44 f~V~d~~~~~~~~~~~~~~~i~~~L~~~l 72 (74)
T cd04925 44 IYVRDEETGAPIDDPIRLASIEDRLDNVL 72 (74)
T ss_pred EEEEcCcCCCCCCCHHHHHHHHHHHHHHh
Confidence 68888887888999999999999987654
No 4
>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=93.71 E-value=0.083 Score=32.81 Aligned_cols=28 Identities=18% Similarity=0.413 Sum_probs=24.1
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNLL 30 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNll 30 (67)
||| ...|+|+.+++++++||..+...|.
T Consensus 46 Fyv--~~~g~kl~d~~~~~~L~~~L~~~l~ 73 (75)
T cd04896 46 FIV--QSDGKKIMDPKKQAALCARLREEMV 73 (75)
T ss_pred EEE--eCCCCccCCHHHHHHHHHHHHHHhc
Confidence 678 3668999999999999999988774
No 5
>PF11523 DUF3223: Protein of unknown function (DUF3223); InterPro: IPR021602 This family of proteins has no known function. ; PDB: 2K0M_A.
Probab=93.36 E-value=0.067 Score=33.05 Aligned_cols=33 Identities=27% Similarity=0.698 Sum_probs=22.2
Q ss_pred CCCCccCCHHHHHHHHHHHHHHHHhhCccchhhhhccc
Q 035343 7 DTGRKVDDPEVLEAIRLIVINNLLQYHPESSSQLAMGV 44 (67)
Q Consensus 7 ~Tg~KV~~~e~LE~IRlTIiNNll~yHPEsse~la~G~ 44 (67)
..|+++.+++ -..++..||+|||+..+.+..|.
T Consensus 9 ~~g~~l~~~d-----~~~~l~~ll~~HP~~~~KiG~Gi 41 (76)
T PF11523_consen 9 PDGERLSEED-----EKSVLEALLKYHPEAEEKIGCGI 41 (76)
T ss_dssp -TTEE--HHH------HHHHHHHHHTSTTHHHHHTT-E
T ss_pred CCcCCcCHHH-----HHHHHHHHHHhCCcHHHhhcCCe
Confidence 3455555333 35788999999999999998875
No 6
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=90.01 E-value=0.34 Score=30.85 Aligned_cols=26 Identities=31% Similarity=0.631 Sum_probs=23.5
Q ss_pred CCHHHHHHHHHHHHHHHHhhCccchh
Q 035343 13 DDPEVLEAIRLIVINNLLQYHPESSS 38 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~yHPEsse 38 (67)
.|||.||++|...|.+++.-.||.-.
T Consensus 15 ~dPe~fe~lr~~~~ee~I~~a~~~~q 40 (83)
T PF11333_consen 15 NDPEAFEQLRQELIEEMIESAPEEMQ 40 (83)
T ss_pred hCHHHHHHHHHHHHHHHHHhCCHHHH
Confidence 58999999999999999999988653
No 7
>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=83.95 E-value=1.4 Score=25.29 Aligned_cols=26 Identities=19% Similarity=0.345 Sum_probs=20.5
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVIN 27 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiN 27 (67)
|+|++. .|.++.+++++++||..|.+
T Consensus 46 F~v~~~-~~~~~~~~~~~~~l~~~L~~ 71 (73)
T cd04900 46 FVVLDP-DGEPIGERERLARIREALED 71 (73)
T ss_pred EEEECC-CCCCCChHHHHHHHHHHHHh
Confidence 677764 56678899999999988865
No 8
>PRK05007 PII uridylyl-transferase; Provisional
Probab=80.30 E-value=1.8 Score=36.32 Aligned_cols=27 Identities=19% Similarity=0.377 Sum_probs=24.4
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNL 29 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNl 29 (67)
|||++. +|+|++ ++++++||..+++-|
T Consensus 852 FyV~~~-~g~~l~-~~~~~~l~~~L~~~l 878 (884)
T PRK05007 852 FILATA-DRRALN-EELQQELRQRLTEAL 878 (884)
T ss_pred EEEEcC-CCCcCC-HHHHHHHHHHHHHHH
Confidence 799877 889999 899999999999887
No 9
>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=80.06 E-value=2.8 Score=24.78 Aligned_cols=27 Identities=7% Similarity=-0.038 Sum_probs=20.3
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNL 29 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNl 29 (67)
|||+|. .|. +.+++++++||..+.+-|
T Consensus 45 F~V~d~-~~~-~~~~~~~~~l~~~L~~~L 71 (76)
T cd04927 45 FFITDA-REL-LHTKKRREETYDYLRAVL 71 (76)
T ss_pred EEEeCC-CCC-CCCHHHHHHHHHHHHHHH
Confidence 678877 333 678899999999887644
No 10
>PRK05092 PII uridylyl-transferase; Provisional
Probab=79.72 E-value=1.9 Score=36.10 Aligned_cols=35 Identities=20% Similarity=0.216 Sum_probs=28.7
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHHHhhCccc
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNLLQYHPES 36 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNll~yHPEs 36 (67)
|||++. .|+|+.+|+++++||.++...|..-.+|.
T Consensus 887 F~v~d~-~g~~i~~~~~~~~l~~~L~~~L~~~~~~~ 921 (931)
T PRK05092 887 FYVTDL-FGLKITNEARQAAIRRALLAALAEGEAEA 921 (931)
T ss_pred EEEeCC-CCCcCCCHHHHHHHHHHHHHHhcCccccc
Confidence 688877 58899999999999999999886644443
No 11
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=76.99 E-value=2.3 Score=35.56 Aligned_cols=27 Identities=26% Similarity=0.524 Sum_probs=23.2
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNL 29 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNl 29 (67)
|||++. +|+|++++++ ++|+..++..|
T Consensus 827 Fyv~~~-~g~~l~~~~~-~~l~~~L~~~l 853 (854)
T PRK01759 827 FILTNQ-QGQALDEEER-KALKSRLLSNL 853 (854)
T ss_pred EEEECC-CCCcCChHHH-HHHHHHHHHHh
Confidence 799985 6999999988 99999988764
No 12
>PRK14004 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=74.72 E-value=0.84 Score=31.99 Aligned_cols=9 Identities=56% Similarity=0.955 Sum_probs=8.0
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|||||++.
T Consensus 188 vQFHPE~s~ 196 (210)
T PRK14004 188 TQFHPEKSH 196 (210)
T ss_pred EeCCcccCc
Confidence 699999886
No 13
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=74.16 E-value=3.2 Score=23.09 Aligned_cols=21 Identities=19% Similarity=0.330 Sum_probs=16.9
Q ss_pred HHHHHHHhhCccchhhhhccc
Q 035343 24 IVINNLLQYHPESSSQLAMGV 44 (67)
Q Consensus 24 TIiNNll~yHPEsse~la~G~ 44 (67)
.+|.+|.+.|||.++.+...+
T Consensus 17 ~lL~~l~~~HPei~~~i~~~~ 37 (38)
T PF14483_consen 17 SLLQSLCERHPEIQQEIRSIA 37 (38)
T ss_dssp HHHHHHHHHSTHHHHHHHTTS
T ss_pred HHHHHHHHhChhHHHHHHhhC
Confidence 578899999999998876543
No 14
>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=73.62 E-value=4 Score=23.59 Aligned_cols=23 Identities=30% Similarity=0.608 Sum_probs=17.5
Q ss_pred CceeecCCCCccCCHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIV 25 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTI 25 (67)
|+|++.+ |.++ +++++++||.+|
T Consensus 45 f~v~~~~-~~~~-~~~~~~~l~~~l 67 (72)
T cd04926 45 FYVTDAN-GNPV-DPKTIEAVRQEI 67 (72)
T ss_pred EEEECCC-CCcC-CHHHHHHHHHHh
Confidence 5677765 5566 789999999876
No 15
>PRK13146 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=73.04 E-value=0.99 Score=31.12 Aligned_cols=9 Identities=56% Similarity=0.970 Sum_probs=7.7
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|||||++.
T Consensus 186 vQFHPE~s~ 194 (209)
T PRK13146 186 TQFHPEKSQ 194 (209)
T ss_pred EEcCCcccH
Confidence 699999974
No 16
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=70.53 E-value=1.3 Score=32.26 Aligned_cols=7 Identities=71% Similarity=1.379 Sum_probs=6.4
Q ss_pred HhhCccc
Q 035343 30 LQYHPES 36 (67)
Q Consensus 30 l~yHPEs 36 (67)
+||||||
T Consensus 168 vQFHPES 174 (191)
T COG0512 168 VQFHPES 174 (191)
T ss_pred EecCCcc
Confidence 7999998
No 17
>CHL00188 hisH imidazole glycerol phosphate synthase subunit hisH; Provisional
Probab=70.07 E-value=1.3 Score=31.09 Aligned_cols=9 Identities=56% Similarity=1.128 Sum_probs=7.5
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|||||++.
T Consensus 188 vQFHPE~s~ 196 (210)
T CHL00188 188 MQFHPEKSG 196 (210)
T ss_pred EecCCcccc
Confidence 599999983
No 18
>cd01748 GATase1_IGP_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS). Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS). IGPS incorporates ammonia derived from glutamine into N1-[(5'-phosphoribulosyl)-formimino]-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to form 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR) and imidazole glycerol phosphate (IGP). The glutamine amidotransferase domain generates the ammonia nucleophile which is channeled from the glutaminase active site to the PRFAR active site. IGPS belong to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site.
Probab=69.43 E-value=1.3 Score=29.52 Aligned_cols=9 Identities=56% Similarity=0.977 Sum_probs=7.6
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||++.
T Consensus 179 vQFHPE~~~ 187 (198)
T cd01748 179 TQFHPEKSG 187 (198)
T ss_pred EECCCcccc
Confidence 699999874
No 19
>cd07858 STKc_TEY_MAPK_plant Catalytic domain of the Serine/Threonine Kinases, TEY Mitogen-Activated Protein Kinases from Plants. Serine/Threonine Kinases (STKs), Plant TEY Mitogen-Activated Protein Kinase (MAPK) subfamily, catalytic (c) domain. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The TEY MAPK subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. MAPKs are important mediators of cellular responses to extracellular signals. In plants, MAPKs are associated with physiological, developmental, hormonal, and stress responses. Some plants show numerous gene duplications of MAPKs. Arabidopsis thaliana harbors at least 20 MAPKs, named AtMPK1-20. There are two subtypes of plant MAPKs based on the conserved phosphorylation motif present in the activati
Probab=68.63 E-value=4.4 Score=27.91 Aligned_cols=17 Identities=41% Similarity=0.829 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHhhCc
Q 035343 18 LEAIRLIVINNLLQYHP 34 (67)
Q Consensus 18 LE~IRlTIiNNll~yHP 34 (67)
.++|..-|+|-||+|||
T Consensus 321 ~~~~~~~~~~~~~~~~~ 337 (337)
T cd07858 321 EEDIKELIYNEMLAYHP 337 (337)
T ss_pred HHHHHHHHHHHHhhcCC
Confidence 45777889999999998
No 20
>PRK08857 para-aminobenzoate synthase component II; Provisional
Probab=67.83 E-value=1.5 Score=29.50 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=7.2
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||+.
T Consensus 170 vQfHPE~~ 177 (193)
T PRK08857 170 VQFHPESI 177 (193)
T ss_pred EeeCCCcC
Confidence 69999987
No 21
>CHL00101 trpG anthranilate synthase component 2
Probab=67.75 E-value=1.4 Score=29.65 Aligned_cols=8 Identities=63% Similarity=1.161 Sum_probs=7.0
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|+|||++
T Consensus 166 vQfHPE~~ 173 (190)
T CHL00101 166 IQFHPESL 173 (190)
T ss_pred EEeCCccC
Confidence 79999985
No 22
>PF00117 GATase: Glutamine amidotransferase class-I; InterPro: IPR017926 Glutamine amidotransferase (GATase) enzymes catalyse the removal of the ammonia group from glutamine and then transfer this group to a substrate to form a new carbon-nitrogen group []. The GATase domain exists either as a separate polypeptidic subunit or as part of a larger polypeptide fused in different ways to a synthase domain. Two classes of GATase domains have been identified [, ]: class-I (also known as trpG-type or triad) and class-II (also known as purF-type or Ntn). Class-I (or type 1) GATase domains have been found in the following enzymes: The second component of anthranilate synthase (AS) []. AS catalyzes the biosynthesis of anthranilate from chorismate and glutamine. AS is generally a dimeric enzyme: the first component can synthesize anthranilate using ammonia rather than glutamine, whereas component II provides the GATase activity []. In some bacteria and in fungi the GATase component of AS is part of a multifunctional protein that also catalyzes other steps of the biosynthesis of tryptophan. The second component of 4-amino-4-deoxychorismate (ADC) synthase, a dimeric prokaryotic enzyme that functions in the pathway that catalyzes the biosynthesis of para-aminobenzoate (PABA) from chorismate and glutamine. The second component (gene pabA) provides the GATase activity []. CTP synthase. CTP synthase catalyzes the final reaction in the biosynthesis of pyrimidine, the ATP-dependent formation of CTP from UTP and glutamine. CTP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the C-terminal section []. GMP synthase (glutamine-hydrolyzing). GMP synthase catalyzes the ATP-dependent formation of GMP from xanthosine 5'-phosphate and glutamine. GMP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the N-terminal section [, ]. Glutamine-dependent carbamoyl-phosphate synthase (GD-CPSase); an enzyme involved in both arginine and pyrimidine biosynthesis and which catalyzes the ATP-dependent formation of carbamoyl phosphate from glutamine and carbon dioxide. In bacteria GD-CPSase is composed of two subunits: the large chain (gene carB) provides the CPSase activity, while the small chain (gene carA) provides the GATase activity. In yeast the enzyme involved in arginine biosynthesis is also composed of two subunits: CPA1 (GATase), and CPA2 (CPSase). In most eukaryotes, the first three steps of pyrimidine biosynthesis are catalyzed by a large multifunctional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals). The GATase domain is located at the N-terminal extremity of this polyprotein []. Phosphoribosylformylglycinamidine synthase, an enzyme that catalyzes the fourth step in the de novo biosynthesis of purines. In some species of bacteria and rchaea, FGAM synthase II is composed of two subunits: a small chain (gene purQ) which provides the GATase activity and a large chain (gene purL) which provides the aminator activity. In eukaryotes and Gram-negative bacteria a single polypeptide (large type of purL) contains a FGAM synthethase domain and the GATase as the C-terminal domain []. Imidazole glycerol phosphate synthase subunit hisH, an enzyme that catalyzes the fifth step in the biosynthesis of histidine. A triad of conserved Cys-His-Glu forms the active site, wherein the catalytic cysteine is essential for the amidotransferase activity [, ]. Different structures show that the active site Cys of type 1 GATase is located at the tip of a nucleophile elbow.; PDB: 1I7S_D 1I7Q_D 3UOW_B 1GPM_C 1O1Y_A 2VXO_A 2VPI_B 1OX5_B 1OX6_B 1OX4_B ....
Probab=67.45 E-value=1.6 Score=28.38 Aligned_cols=11 Identities=55% Similarity=0.797 Sum_probs=8.6
Q ss_pred HhhCccchhhh
Q 035343 30 LQYHPESSSQL 40 (67)
Q Consensus 30 l~yHPEsse~l 40 (67)
+|+|||++...
T Consensus 169 ~QfHPE~~~~~ 179 (192)
T PF00117_consen 169 VQFHPEFSSSP 179 (192)
T ss_dssp ESSBTTSTTST
T ss_pred EecCCcCCCCC
Confidence 69999987643
No 23
>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=67.21 E-value=8.8 Score=20.90 Aligned_cols=25 Identities=28% Similarity=0.279 Sum_probs=17.9
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVIN 27 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiN 27 (67)
|+|.+.+.+. .+.+++++||..|.+
T Consensus 44 f~i~~~~~~~--~~~~~~~~i~~~l~~ 68 (70)
T cd04899 44 FYVTDADGQP--LDPERQEALRAALGE 68 (70)
T ss_pred EEEECCCCCc--CCHHHHHHHHHHHHh
Confidence 4667766554 567899999988754
No 24
>PRK07649 para-aminobenzoate/anthranilate synthase glutamine amidotransferase component II; Validated
Probab=67.12 E-value=1.5 Score=30.06 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=6.8
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||+.
T Consensus 165 vQFHPE~~ 172 (195)
T PRK07649 165 VQFHPESI 172 (195)
T ss_pred EEECCCCC
Confidence 69999975
No 25
>PRK13170 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=66.90 E-value=1.6 Score=29.67 Aligned_cols=9 Identities=56% Similarity=1.080 Sum_probs=7.7
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||++.
T Consensus 175 ~QFHPE~~~ 183 (196)
T PRK13170 175 VQFHPERSG 183 (196)
T ss_pred EECCCCCcc
Confidence 699999984
No 26
>PRK13152 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=65.04 E-value=1.8 Score=29.30 Aligned_cols=9 Identities=56% Similarity=0.970 Sum_probs=7.5
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||++.
T Consensus 180 vQFHPE~~~ 188 (201)
T PRK13152 180 TQFHPEKSQ 188 (201)
T ss_pred EeCCCeecC
Confidence 699999874
No 27
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=64.19 E-value=8 Score=32.72 Aligned_cols=29 Identities=10% Similarity=0.283 Sum_probs=24.6
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNLL 30 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNll 30 (67)
|||++. .|.++.+++++++|+.++.+-|-
T Consensus 858 F~V~d~-~g~~l~~~~~~~~l~~~L~~~L~ 886 (895)
T PRK00275 858 FFITDA-DNQPLSDPQLCSRLQDAICEQLD 886 (895)
T ss_pred EEEECC-CCCCCCCHHHHHHHHHHHHHHHh
Confidence 688876 67899999999999999987663
No 28
>PRK05637 anthranilate synthase component II; Provisional
Probab=64.02 E-value=2 Score=30.00 Aligned_cols=8 Identities=75% Similarity=1.257 Sum_probs=6.7
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+||||||.
T Consensus 182 vQfHPE~~ 189 (208)
T PRK05637 182 LQFHPESV 189 (208)
T ss_pred EEeCCccC
Confidence 69999984
No 29
>PF09330 Lact-deh-memb: D-lactate dehydrogenase, membrane binding; InterPro: IPR015409 Members of this entry are predominantly found in prokaryotic D-lactate dehydrogenase, forming the cap-membrane-binding domain, which consists of a large seven-stranded antiparallel beta-sheet flanked on both sides by alpha-helices. They allow for membrane association []. ; GO: 0050660 flavin adenine dinucleotide binding, 0055085 transmembrane transport; PDB: 1F0X_A.
Probab=64.01 E-value=4 Score=31.80 Aligned_cols=28 Identities=29% Similarity=0.517 Sum_probs=20.8
Q ss_pred CCHHHHHHHHHHHHHHHHhhCccchhhhh
Q 035343 13 DDPEVLEAIRLIVINNLLQYHPESSSQLA 41 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~yHPEsse~la 41 (67)
.||+.|++||-.|++|+ +-=|.|+|++-
T Consensus 7 Nd~~~L~~lRR~iL~~f-~~LPisgEYmH 34 (291)
T PF09330_consen 7 NDPAVLTDLRRHILSNF-KNLPISGEYMH 34 (291)
T ss_dssp S-HHHHHHHHHHHHHH--SS--SEEEEEE
T ss_pred CCHHHHHHHHHHHHhCC-ccCChhhhhhh
Confidence 48999999999999985 56699999864
No 30
>TIGR00566 trpG_papA glutamine amidotransferase of anthranilate synthase or aminodeoxychorismate synthase. This model describes the glutamine amidotransferase domain or peptide of the tryptophan-biosynthetic pathway enzyme anthranilate synthase or of the folate biosynthetic pathway enzyme para-aminobenzoate synthase. In at least one case, a single polypeptide from Bacillus subtilis was shown to have both functions. This model covers a subset of the sequences described by the pfam model GATase.
Probab=63.90 E-value=2 Score=29.03 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=6.8
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||+.
T Consensus 166 vQfHPE~~ 173 (188)
T TIGR00566 166 VQFHPESI 173 (188)
T ss_pred EEeCCCcc
Confidence 69999984
No 31
>TIGR01855 IMP_synth_hisH imidazole glycerol phosphate synthase, glutamine amidotransferase subunit. This model represents the glutamine amidotransferase subunit (or domain, in eukaryotic systems) of imidazole glycerol phosphate synthase. This subunit catalyzes step 5 of histidine biosynthesis from PRPP. The other subunit, the cyclase, catalyzes step 6.
Probab=63.31 E-value=2.1 Score=29.01 Aligned_cols=9 Identities=56% Similarity=0.977 Sum_probs=7.3
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|||||++.
T Consensus 175 vQFHPE~~~ 183 (196)
T TIGR01855 175 TQFHPEKSG 183 (196)
T ss_pred EECCCccCc
Confidence 699999863
No 32
>PRK13141 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=63.26 E-value=2.1 Score=28.80 Aligned_cols=9 Identities=56% Similarity=0.981 Sum_probs=7.4
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|||||++.
T Consensus 180 vQfHPE~~~ 188 (205)
T PRK13141 180 AQFHPEKSG 188 (205)
T ss_pred EeCCCccch
Confidence 699999863
No 33
>PRK08007 para-aminobenzoate synthase component II; Provisional
Probab=62.62 E-value=2.2 Score=28.88 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=6.8
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||+-
T Consensus 165 vQfHPE~~ 172 (187)
T PRK08007 165 VQFHPESI 172 (187)
T ss_pred EEeCCccc
Confidence 69999983
No 34
>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=61.82 E-value=9.4 Score=31.57 Aligned_cols=30 Identities=10% Similarity=0.087 Sum_probs=24.8
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHHHh
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNLLQ 31 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNll~ 31 (67)
|||++. .|+++.++++++.|+.+|.+.|-.
T Consensus 713 F~V~~~-~g~~~~~~~~~~~i~~~L~~~L~~ 742 (850)
T TIGR01693 713 FVVQDL-FGSPPAAERVFQELLQGLVDVLAG 742 (850)
T ss_pred EEEECC-CCCCCCcHHHHHHHHHHHHHHHcC
Confidence 677775 478999999999999999887743
No 35
>cd01742 GATase1_GMP_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. Glutamine amidotransferase (GATase) activity catalyse the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. GMP synthetase catalyses the amination of the nucleotide precursor xanthosine 5'-monophospahte to form GMP. GMP synthetase belongs to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site.
Probab=60.41 E-value=2.5 Score=27.33 Aligned_cols=9 Identities=44% Similarity=1.003 Sum_probs=7.8
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||.+.
T Consensus 161 ~QfHPE~~~ 169 (181)
T cd01742 161 VQFHPEVTH 169 (181)
T ss_pred EEcCCcccc
Confidence 699999985
No 36
>PF00380 Ribosomal_S9: Ribosomal protein S9/S16; InterPro: IPR000754 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S9 is one of the proteins from the small ribosomal subunit. It belongs to the S9P family of ribosomal proteins which, on the basis of sequence similarities [, ], groups bacterial; algal chloroplast; cyanelle and archaeal S9 proteins; and mammalian; plant; and yeast mitochondrial ribosomal S9 proteins. These proteins adopt a beta-alpha-beta fold similar to that found in numerous RNA/DNA-binding proteins, as well as in kinases from the GHMP kinase family [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V46_I 3T1H_I 3MR8_I 3F1G_I 3D5C_I 3D5A_I 2WDG_I 3MS0_I 2WDM_I 2J02_I ....
Probab=60.36 E-value=12 Score=25.09 Aligned_cols=29 Identities=24% Similarity=0.425 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHhhCccchhhhhcc
Q 035343 15 PEVLEAIRLIVINNLLQYHPESSSQLAMG 43 (67)
Q Consensus 15 ~e~LE~IRlTIiNNll~yHPEsse~la~G 43 (67)
+.+-++||+.|-.-|+++.|+..+.|..-
T Consensus 64 ~gQa~Air~aiaraL~~~~~~~~~~Lk~~ 92 (121)
T PF00380_consen 64 SGQAGAIRLAIARALVKFNPSLKPELKKA 92 (121)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTCHHHHCTT
T ss_pred eeehHHHHHHHHHHHHHHhHHHHHHHhhC
Confidence 67889999999999999999988888654
No 37
>PRK13181 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=59.87 E-value=2.6 Score=28.34 Aligned_cols=8 Identities=63% Similarity=1.211 Sum_probs=6.9
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|+|||++
T Consensus 178 vQFHPE~~ 185 (199)
T PRK13181 178 VQFHPEKS 185 (199)
T ss_pred EECCCccC
Confidence 69999976
No 38
>PRK05670 anthranilate synthase component II; Provisional
Probab=58.80 E-value=2.7 Score=28.01 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=6.9
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|+|||++
T Consensus 165 vQfHPE~~ 172 (189)
T PRK05670 165 VQFHPESI 172 (189)
T ss_pred EeeCCCcC
Confidence 69999985
No 39
>PRK06774 para-aminobenzoate synthase component II; Provisional
Probab=58.34 E-value=2.8 Score=28.00 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=6.8
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|+|||+.
T Consensus 169 vQfHPE~~ 176 (191)
T PRK06774 169 VQFHPESI 176 (191)
T ss_pred EEECCCcC
Confidence 69999983
No 40
>CHL00079 rps9 ribosomal protein S9
Probab=57.71 E-value=12 Score=25.60 Aligned_cols=29 Identities=31% Similarity=0.308 Sum_probs=25.6
Q ss_pred CHHHHHHHHHHHHHHHHhhCccchhhhhc
Q 035343 14 DPEVLEAIRLIVINNLLQYHPESSSQLAM 42 (67)
Q Consensus 14 ~~e~LE~IRlTIiNNll~yHPEsse~la~ 42 (67)
-+.+-++||+.|-.-|++|.||....|-.
T Consensus 72 ~sgQa~Air~aIaraLv~~~~~~k~~Lk~ 100 (130)
T CHL00079 72 LTGQAEAIRLGLARALCKINPENRKSLKK 100 (130)
T ss_pred hhHHHHHHHHHHHHHHHHHCHHHHHHHHH
Confidence 46788999999999999999998888863
No 41
>PRK00758 GMP synthase subunit A; Validated
Probab=56.94 E-value=3.1 Score=27.44 Aligned_cols=8 Identities=50% Similarity=1.120 Sum_probs=6.8
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|+|||++
T Consensus 158 ~QfHPE~~ 165 (184)
T PRK00758 158 VQFHPEVA 165 (184)
T ss_pred EEcCCccC
Confidence 59999985
No 42
>cd01744 GATase1_CPSase Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II. This group of sequences represents the small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II. CPSase II catalyzes the production of carbomyl phosphate (CP) from bicarbonate, glutamine and two molecules of MgATP. The reaction is believed to proceed by a series of four biochemical reactions involving a minimum of three discrete highly reactive intermediates. The synthesis of CP is critical for the initiation of two separate biosynthetic pathways. In one CP is coupled to aspartate, its carbon and nitrogen nuclei ultimately incorporated into the aromatic moieties of pyrimidine nucleotides. In the second pathway CP is condensed with ornithine at the start of the urea cycle and is utilized for the detoxification of ammonia and biosynthesis of arginine. CPSases may be encoded by one or by several genes, depending on the species. The E.coli enzyme is
Probab=56.62 E-value=3.3 Score=27.45 Aligned_cols=10 Identities=50% Similarity=0.946 Sum_probs=7.9
Q ss_pred HHhhCccchh
Q 035343 29 LLQYHPESSS 38 (67)
Q Consensus 29 ll~yHPEsse 38 (67)
=+|+|||+..
T Consensus 156 GvQfHPE~~~ 165 (178)
T cd01744 156 SVQFHPEASP 165 (178)
T ss_pred EEeeCCCCCC
Confidence 4699999854
No 43
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=56.44 E-value=11 Score=17.43 Aligned_cols=13 Identities=23% Similarity=0.386 Sum_probs=10.9
Q ss_pred HHHHHHHhhCccc
Q 035343 24 IVINNLLQYHPES 36 (67)
Q Consensus 24 TIiNNll~yHPEs 36 (67)
.+++.+++.||+|
T Consensus 21 ~~~~~~~~~~P~s 33 (33)
T PF13174_consen 21 EYFQRLIKRYPDS 33 (33)
T ss_dssp HHHHHHHHHSTTS
T ss_pred HHHHHHHHHCcCC
Confidence 4788899999986
No 44
>PRK07569 bidirectional hydrogenase complex protein HoxU; Validated
Probab=56.40 E-value=11 Score=26.37 Aligned_cols=23 Identities=13% Similarity=0.221 Sum_probs=21.4
Q ss_pred CCHHHHHHHHHHHHHHHHhhCcc
Q 035343 13 DDPEVLEAIRLIVINNLLQYHPE 35 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~yHPE 35 (67)
++++.+...|..|++-||.-||.
T Consensus 76 t~~~~~~~~rk~~l~~ll~~h~~ 98 (234)
T PRK07569 76 TNTPRLQEYRRMIVELLFAEGNH 98 (234)
T ss_pred ECCHHHHHHHHHHHHHHHHhccc
Confidence 47899999999999999999997
No 45
>PF02518 HATPase_c: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; InterPro: IPR003594 This domain is found in several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases [], heat shock protein HSP90 [, , ], phytochrome-like ATPases and DNA mismatch repair proteins. The fold of this domain consists of two layers, alpha/beta, which contains an 8-stranded mixed beta-sheet. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0005524 ATP binding; PDB: 3JZ3_A 3DGE_A 2C2A_A 2BU5_A 2BU8_A 2BU6_A 2BU7_A 2BU2_A 2BTZ_A 3K99_D ....
Probab=56.17 E-value=8.9 Score=22.35 Aligned_cols=23 Identities=30% Similarity=0.538 Sum_probs=21.2
Q ss_pred CHHHHHHHHHHHHHHHHhhCccc
Q 035343 14 DPEVLEAIRLIVINNLLQYHPES 36 (67)
Q Consensus 14 ~~e~LE~IRlTIiNNll~yHPEs 36 (67)
|+++|..|=..+|+|.++++|+.
T Consensus 2 d~~~l~~il~~ll~Na~~~~~~~ 24 (111)
T PF02518_consen 2 DPDRLRQILSELLDNAIKHSPEG 24 (111)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHT
T ss_pred cHHHHHHHHHHHHHHHHHHhcCC
Confidence 78899999999999999999985
No 46
>TIGR00888 guaA_Nterm GMP synthase (glutamine-hydrolyzing), N-terminal domain or A subunit. separate polypeptide chains in most of the Archaea. This N-terminal region would be the smaller subunit.
Probab=55.65 E-value=3.3 Score=27.40 Aligned_cols=9 Identities=44% Similarity=1.003 Sum_probs=7.4
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||.+.
T Consensus 161 ~QfHPE~~~ 169 (188)
T TIGR00888 161 VQFHPEVTH 169 (188)
T ss_pred EeeCCccCC
Confidence 699999864
No 47
>cd01743 GATase1_Anthranilate_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase. Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase (ASase). This group contains proteins similar to para-aminobenzoate (PABA) synthase and ASase. These enzymes catalyze similar reactions and produce similar products, PABA and ortho-aminobenzoate (anthranilate). Each enzyme is composed of non-identical subunits: a glutamine amidotransferase subunit (component II) and a subunit that produces an aminobenzoate products (component I). ASase catalyses the synthesis of anthranilate from chorismate and glutamine and is a tetrameric protein comprising two copies each of components I and II. Component II of ASase belongs to the family of triad GTases which hydrolyze glutamine and transfer nascent ammonia between the active sites. In some bacteria, such as Escherichia coli, component II can be much larger than in other organisms, due to the prese
Probab=55.48 E-value=3.2 Score=27.28 Aligned_cols=10 Identities=50% Similarity=0.690 Sum_probs=7.8
Q ss_pred HHhhCccchh
Q 035343 29 LLQYHPESSS 38 (67)
Q Consensus 29 ll~yHPEsse 38 (67)
=+|+|||+..
T Consensus 163 gvQfHPE~~~ 172 (184)
T cd01743 163 GVQFHPESIL 172 (184)
T ss_pred EEeeCCCcCC
Confidence 3799999854
No 48
>PRK00132 rpsI 30S ribosomal protein S9; Reviewed
Probab=55.31 E-value=15 Score=25.00 Aligned_cols=30 Identities=27% Similarity=0.314 Sum_probs=26.4
Q ss_pred CHHHHHHHHHHHHHHHHhhCccchhhhhcc
Q 035343 14 DPEVLEAIRLIVINNLLQYHPESSSQLAMG 43 (67)
Q Consensus 14 ~~e~LE~IRlTIiNNll~yHPEsse~la~G 43 (67)
-+.+-++||+.|-.-|++|.||..+.|...
T Consensus 72 ~sgQa~Air~aiaraLv~~~~~~r~~Lk~~ 101 (130)
T PRK00132 72 ISGQAGAIRHGIARALLEYDPDLRPALKKA 101 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHCHHHHHHHHHC
Confidence 367889999999999999999999888763
No 49
>cd06930 NR_LBD_F2 Ligand-binding domain of nuclear receptor family 2. Ligand-binding domain (LBD) of nuclear receptor (NR) family 2: This is one of the major subfamily of nuclear receptors, including some well known nuclear receptors such as glucocorticoid receptor (GR), mineralocorticoid receptor (MR), estrogen receptor (ER), progesterone receptor (PR), and androgen receptor (AR), other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=54.74 E-value=28 Score=21.70 Aligned_cols=30 Identities=13% Similarity=0.346 Sum_probs=24.0
Q ss_pred ccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 11 KVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 11 KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
.+.+++.++++|..+++-|.+| ||+....+
T Consensus 119 ~l~~~~~v~~~q~~~~~aL~~~~~~~~~~~~~R~ 152 (165)
T cd06930 119 GLKNQQQVEELQEKAQQALQEYIRKRYPQQPARF 152 (165)
T ss_pred CCcCHHHHHHHHHHHHHHHHHHHHhhCCCchhHH
Confidence 4678999999999999999987 66654443
No 50
>PRK07765 para-aminobenzoate synthase component II; Provisional
Probab=54.58 E-value=3.6 Score=28.59 Aligned_cols=8 Identities=63% Similarity=1.165 Sum_probs=6.9
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|+|||++
T Consensus 169 vQfHPE~~ 176 (214)
T PRK07765 169 VQFHPESV 176 (214)
T ss_pred EeeCCCcc
Confidence 69999975
No 51
>PRK06895 putative anthranilate synthase component II; Provisional
Probab=54.28 E-value=3.7 Score=27.48 Aligned_cols=7 Identities=71% Similarity=1.379 Sum_probs=6.3
Q ss_pred HhhCccc
Q 035343 30 LQYHPES 36 (67)
Q Consensus 30 l~yHPEs 36 (67)
+|+|||+
T Consensus 166 vQFHPE~ 172 (190)
T PRK06895 166 VQFHPES 172 (190)
T ss_pred EEeCCCc
Confidence 7999997
No 52
>PLN02335 anthranilate synthase
Probab=52.48 E-value=4 Score=28.59 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=7.1
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||+.
T Consensus 190 vQfHPE~~ 197 (222)
T PLN02335 190 VQFHPESI 197 (222)
T ss_pred EEeCCCCC
Confidence 79999985
No 53
>PRK13143 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=51.46 E-value=4.4 Score=27.48 Aligned_cols=9 Identities=56% Similarity=0.977 Sum_probs=7.4
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||++.
T Consensus 176 vQfHPE~~~ 184 (200)
T PRK13143 176 TQFHPEKSG 184 (200)
T ss_pred EeCCCccch
Confidence 699999863
No 54
>COG0103 RpsI Ribosomal protein S9 [Translation, ribosomal structure and biogenesis]
Probab=50.96 E-value=18 Score=25.25 Aligned_cols=30 Identities=27% Similarity=0.305 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHhhCccchhhhhccc
Q 035343 15 PEVLEAIRLIVINNLLQYHPESSSQLAMGV 44 (67)
Q Consensus 15 ~e~LE~IRlTIiNNll~yHPEsse~la~G~ 44 (67)
+-+-++||+.|-.-|++|.||.-..|...-
T Consensus 73 ~GQA~AiR~gIaRAL~~~~~~lr~~lk~~g 102 (130)
T COG0103 73 SGQAGAIRHGIARALVEYDPELRPALKKAG 102 (130)
T ss_pred hHHHHHHHHHHHHHHHHHCHHHHHHHHHCC
Confidence 457799999999999999999998886654
No 55
>cd01747 GATase1_Glutamyl_Hydrolase Type 1 glutamine amidotransferase (GATase1) domain found in gamma-Glutamyl Hydrolase. Type 1 glutamine amidotransferase (GATase1) domain found in gamma-Glutamyl Hydrolase. gamma-Glutamyl Hydrolase catalyzes the cleavage of the gamma-glutamyl chain of folylpoly-gamma-glutamyl substrates and is a central enzyme in folyl and antifolyl poly-gamma-glutamate metabolism. GATase activity involves the removal of the ammonia group from a glutamate molecule and its subsequent transfer to a specific substrate, thus creating a new carbon-nitrogen group on the substrate. gamma-Glutamyl hydrolases belong to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site.
Probab=50.94 E-value=5 Score=29.21 Aligned_cols=15 Identities=27% Similarity=0.585 Sum_probs=11.4
Q ss_pred HhhCccchhhhhcccc
Q 035343 30 LQYHPESSSQLAMGVT 45 (67)
Q Consensus 30 l~yHPEsse~la~G~~ 45 (67)
+|||||.+ ...+|..
T Consensus 208 vQFHPEks-~few~~~ 222 (273)
T cd01747 208 VQWHPEKN-AFEWKKS 222 (273)
T ss_pred EecCCCcc-ccccccc
Confidence 69999988 5666653
No 56
>COG0505 CarA Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]
Probab=50.74 E-value=5 Score=32.08 Aligned_cols=8 Identities=75% Similarity=1.364 Sum_probs=7.0
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||+|
T Consensus 338 VQ~HPEAs 345 (368)
T COG0505 338 VQYHPEAS 345 (368)
T ss_pred EccCCCCC
Confidence 69999986
No 57
>PRK04374 PII uridylyl-transferase; Provisional
Probab=49.96 E-value=16 Score=31.01 Aligned_cols=27 Identities=15% Similarity=0.213 Sum_probs=22.4
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNL 29 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNl 29 (67)
|||++. .|+++.++++ ++||..++.-|
T Consensus 840 F~V~d~-~g~~~~~~~~-~~l~~~L~~~l 866 (869)
T PRK04374 840 FQITDE-HDRPLSESAR-QALRDALCACL 866 (869)
T ss_pred EEEECC-CCCcCChHHH-HHHHHHHHHHh
Confidence 788876 5678888888 99999998766
No 58
>PTZ00305 NADH:ubiquinone oxidoreductase; Provisional
Probab=49.86 E-value=16 Score=28.34 Aligned_cols=23 Identities=22% Similarity=0.329 Sum_probs=21.7
Q ss_pred CCHHHHHHHHHHHHHHHHhhCcc
Q 035343 13 DDPEVLEAIRLIVINNLLQYHPE 35 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~yHPE 35 (67)
++++.+.+.|.+++.=||.-||-
T Consensus 142 T~Se~v~~~Rk~vLElLLs~Hp~ 164 (297)
T PTZ00305 142 TDSRLVRDAREGNVELILINHPN 164 (297)
T ss_pred eCCHHHHHHHHHHHHHHHhcCCC
Confidence 48999999999999999999997
No 59
>cd06950 NR_LBD_Tlx_PNR_like The ligand binding domain of Tailless-like proteins, orphan nuclear receptors. The ligand binding domain of the photoreceptor cell-specific nuclear receptor (PNR) like family: This family includes photoreceptor cell-specific nuclear receptor (PNR), Tailless (TLX), and related receptors. TLX is an orphan receptor that is expressed by neural stem/progenitor cells in the adult brain of the subventricular zone (SVZ) and the dentate gyrus (DG). It plays a key role in neural development by promoting cell cycle progression and preventing apoptosis in the developing brain. PNR is expressed only in the outer layer of retinal photoreceptor cells. It may be involved in the signaling pathway regulating photoreceptor differentiation and/or maintenance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, TLX and PNR have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge
Probab=49.43 E-value=29 Score=23.79 Aligned_cols=30 Identities=20% Similarity=0.246 Sum_probs=24.9
Q ss_pred ccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 11 KVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 11 KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
.+.+++.+|++|-.+.+.|.+| ||+....+
T Consensus 144 ~L~~~~~Ve~lq~~~~~aL~~y~~~~~~~~~~Rf 177 (206)
T cd06950 144 GLKDPAQVEALQDQAQLMLNKHIRTRYPTQPARF 177 (206)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHhCCCcccHH
Confidence 4788899999999999999887 88765544
No 60
>cd06943 NR_LBD_RXR_like The ligand binding domain of the retinoid X receptor and Ultraspiracle, members of nuclear receptor superfamily. The ligand binding domain of the retinoid X receptor (RXR) and Ultraspiracle (USP): This family includes two evolutionary related nuclear receptors: retinoid X receptor (RXR) and Ultraspiracle (USP). RXR is a nuclear receptor in mammalian and USP is its counterpart in invertebrates. The native ligand of retinoid X receptor is 9-cis retinoic acid (RA). RXR functions as a DNA binding partner by forming heterodimers with other nuclear receptors including CAR, FXR, LXR, PPAR, PXR, RAR, TR, and VDR. RXRs can play different roles in these heterodimers. It acts either as a structural component of the heterodimer complex, required for DNA binding but not acting as a receptor or as both a structural and a functional component of the heterodimer, allowing 9-cis RA to signal through the corresponding heterodimer. In addition, RXR can also form homodimers, func
Probab=49.19 E-value=33 Score=22.92 Aligned_cols=31 Identities=26% Similarity=0.518 Sum_probs=25.2
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
..+.+++.+|.+|..+.+-|.+| ||+....+
T Consensus 148 ~~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf 182 (207)
T cd06943 148 KGLKSRQEVESLREKVYASLEEYCRQKHPEQPGRF 182 (207)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccHH
Confidence 36778899999999999999987 78765444
No 61
>PRK06490 glutamine amidotransferase; Provisional
Probab=49.05 E-value=5.6 Score=28.27 Aligned_cols=10 Identities=50% Similarity=0.969 Sum_probs=8.3
Q ss_pred HhhCccchhh
Q 035343 30 LQYHPESSSQ 39 (67)
Q Consensus 30 l~yHPEsse~ 39 (67)
+|+|||++..
T Consensus 175 ~QfHPE~~~~ 184 (239)
T PRK06490 175 LQFHPEVTRA 184 (239)
T ss_pred EeeCccCCHH
Confidence 5999999854
No 62
>cd01433 Ribosomal_L16_L10e Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with the 30S subunit, binding of aminoacyl-tRNA and interaction with antibiotics. L16 is required for the function of elongation factor P (EF-P), a protein involved in peptide bond synthesis through the stimulation of peptidyl transferase activity by the ribosome. Mutations in L16 and the adjoining bases of 23S rRNA confer antibiotic resistance in bacteria, suggesting a role for L16 in the formation of the antibiotic binding site. The GTPase RbgA (YlqF) is essential for the assembly of the large subunit, and it is believed to regulate the incorporation of L16. L10e is the archaeal and eukaryotic cytosolic homolog of bacterial L16. L16 and L10e exhibit structural differences at the N-terminus.
Probab=49.02 E-value=19 Score=22.93 Aligned_cols=37 Identities=27% Similarity=0.282 Sum_probs=26.8
Q ss_pred cCCHHHHHHHHHHHHHHHHhh--------Ccc-----chhhhhcccccCC
Q 035343 12 VDDPEVLEAIRLIVINNLLQY--------HPE-----SSSQLAMGVTFGV 48 (67)
Q Consensus 12 V~~~e~LE~IRlTIiNNll~y--------HPE-----sse~la~G~~fg~ 48 (67)
-..++.||+.|++|..+|-.. ||- .+.+--||..+|.
T Consensus 19 ~i~~~~lEa~R~~i~r~l~k~~~~~~ir~~p~~~vt~k~~~~rMGkGKG~ 68 (112)
T cd01433 19 RITAEQLEAARIAINRYLKKKGGKLWIRVFPDHPVTKKPLETRMGKGKGK 68 (112)
T ss_pred eECHHHHHHHHHHHHHHhhhcCceEEEEecCCccEEECccccccCCCCCC
Confidence 457899999999999999875 442 2345667776664
No 63
>PF08818 DUF1801: Domain of unknown function (DU1801); InterPro: IPR014922 This large entry of bacterial proteins is uncharacterised. They contain a presumed domain about 110 amino acids in length. ; PDB: 2KL4_A 2OC6_B 2I8D_B.
Probab=46.46 E-value=12 Score=22.22 Aligned_cols=28 Identities=25% Similarity=0.491 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHhhCccchhhhhccccc
Q 035343 15 PEVLEAIRLIVINNLLQYHPESSSQLAMGVTF 46 (67)
Q Consensus 15 ~e~LE~IRlTIiNNll~yHPEsse~la~G~~f 46 (67)
-+.++++|-.| ++.+|+..|.+.+|.++
T Consensus 3 r~~~~~lr~li----~~~~P~~~e~ikwg~P~ 30 (103)
T PF08818_consen 3 REILEELRELI----LEAAPDLEEVIKWGMPA 30 (103)
T ss_dssp HHHHHHHHHHH----HHHSTTSEEEEETTEEE
T ss_pred HHHHHHHHHHH----HHhCcChhheeecceeE
Confidence 36778888776 46789999999999876
No 64
>PLN02771 carbamoyl-phosphate synthase (glutamine-hydrolyzing)
Probab=46.13 E-value=6 Score=31.49 Aligned_cols=8 Identities=88% Similarity=1.456 Sum_probs=6.8
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||++
T Consensus 398 VQFHPEa~ 405 (415)
T PLN02771 398 LQYHPEAS 405 (415)
T ss_pred EEcCCCCC
Confidence 69999984
No 65
>cd06952 NR_LBD_TR2_like The ligand binding domain of the orphan nuclear receptors TR4 and TR2. The ligand binding domain of the TR4 and TR2 (human testicular receptor 4 and 2): TR4 and TR2 are orphan nuclear receptors. Several isoforms of TR4 and TR2 have been isolated in various tissues. TR2 is abundantly expressed in the androgen-sensitive prostate. TR4 transcripts are expressed in many tissues, including central nervous system, adrenal gland, spleen, thyroid gland, and prostate. The expression of TR2 is negatively regulated by androgen, retinoids, and radiation. The expression of both mouse TR2 and TR4 is up-regulated by neurocytokine ciliary neurotrophic factor (CNTF) in mouse. It has shown that human TR2 binds to a wide spectrum of natural hormone response elements (HREs) with distinct affinities suggesting that TR2 may cross-talk with other gene expression regulation systems. The genes responding to TR2 or TR4 include genes that are regulated by retinoic acid receptor, vitamin D
Probab=45.78 E-value=35 Score=23.28 Aligned_cols=31 Identities=19% Similarity=0.274 Sum_probs=24.7
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
.-+++++..+++|-.|++.|-+| ||+.+..+
T Consensus 146 ~~l~~~~~v~~lq~~i~~aL~~y~~~~~p~~~~R~ 180 (222)
T cd06952 146 PGQELRQQIEKLQEKALMELRDYVGKTYPEDEYRL 180 (222)
T ss_pred cCCcCHHHHHHHHHHHHHHHHHHHHHhCCCcccHH
Confidence 34689999999999999998877 57766544
No 66
>PF00226 DnaJ: DnaJ domain; InterPro: IPR001623 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Such a structure is shown in the following schematic representation: +------------+-+-------+-----+-----------+--------------------------------+ | N-terminal | | Gly-R | | CXXCXGXG | C-terminal | +------------+-+-------+-----+-----------+--------------------------------+ It is thought that the 'J' domain of DnaJ mediates the interaction with the dnaK protein and consists of four helices, the second of which has a charged surface that includes at least one pair of basic residues that are essential for interaction with the ATPase domain of Hsp70. The J- and CRR-domains are found in many prokaryotic and eukaryotic proteins [], either together or separately. In yeast, J-domains have been classified into 3 groups; the class III proteins are functionally distinct and do not appear to act as molecular chaperones []. ; GO: 0031072 heat shock protein binding; PDB: 2GUZ_C 2L6L_A 1HDJ_A 2EJ7_A 1FPO_C 2CUG_A 2QSA_A 2OCH_A 3BVO_B 3APQ_A ....
Probab=45.77 E-value=21 Score=19.55 Aligned_cols=24 Identities=29% Similarity=0.297 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHhhCccchh
Q 035343 15 PEVLEAIRLIVINNLLQYHPESSS 38 (67)
Q Consensus 15 ~e~LE~IRlTIiNNll~yHPEsse 38 (67)
..-.++||..--+=+.++||+-..
T Consensus 11 ~~~~~eik~~y~~l~~~~HPD~~~ 34 (64)
T PF00226_consen 11 DASDEEIKKAYRRLSKQYHPDKNS 34 (64)
T ss_dssp TSSHHHHHHHHHHHHHHTSTTTGT
T ss_pred CCCHHHHHHHHHhhhhccccccch
Confidence 445788999999999999998743
No 67
>smart00430 HOLI Ligand binding domain of hormone receptors.
Probab=45.45 E-value=26 Score=20.88 Aligned_cols=25 Identities=28% Similarity=0.474 Sum_probs=21.2
Q ss_pred CCccCCH--HHHHHHHHHHHHHHHhhC
Q 035343 9 GRKVDDP--EVLEAIRLIVINNLLQYH 33 (67)
Q Consensus 9 g~KV~~~--e~LE~IRlTIiNNll~yH 33 (67)
+.++.++ +.+|++|..+++.|.+|-
T Consensus 112 ~~~l~~~~~~~~~~~~~~~~~~L~~y~ 138 (163)
T smart00430 112 GPGLSEEGKEILEKLQEKLANALHDYY 138 (163)
T ss_pred hhhhChHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777 899999999999998774
No 68
>cd06940 NR_LBD_REV_ERB The ligand binding domain of REV-ERB receptors, members of the nuclear receptor superfamily. The ligand binding domain (LBD) of REV-ERB receptors: REV-ERBs are transcriptional regulators belonging to the nuclear receptor superfamily. They regulate a number of physiological functions including the circadian rhythm, lipid metabolism, and cellular differentiation. The LBD domain of REV-ERB is unusual in the nuclear receptor family by lacking the AF-2 region that is responsible for coactivator interaction. REV-ERBs act as constitutive repressors because of their inability to bind coactivators. REV-ERB receptors can bind to two classes of DNA response elements as either a monomer or heterodimer, indicating functional diversity. When bound to the DNA, they recruit corepressors (NcoR/histone deacetylase 3) to the promoter, resulting in repression of the target gene. The porphyrin heme has been demonstrated to function as a ligand for REV-ERB. Like other members of
Probab=45.27 E-value=39 Score=22.87 Aligned_cols=31 Identities=23% Similarity=0.431 Sum_probs=25.8
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
..+.+++.+|++|..+++-|-.| ||+....+
T Consensus 129 ~~L~~~~~Ve~lq~~~~~aL~~~~~~~~p~~~~rf 163 (189)
T cd06940 129 SGLENVNLVEALQETLIRALRTLIAKNHPNEPSIF 163 (189)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCccHH
Confidence 46889999999999999988877 88866544
No 69
>cd01745 GATase1_2 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. This group contains a subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. GATase activity catalyses the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. Glutamine amidotransferases (GATase) includes the triad family of amidotransferases which have a conserved Cys-His-Glu catalytic triad in the glutaminase active site. In this subgroup this triad is conserved. GATase activity can be found in a range of biosynthetic enzymes, including: glutamine amidotransferase, formylglycinamide ribonucleotide, GMP synthetase , anthranilate synthase component II, glutamine-dependent carbamoyl phosphate synthase, cytidine triphosphate synthetase, gamma-glutamyl hydrolase, imidazole glycerol phosphate synthase and, cobyric acid synthase. Glutamine amidotransferase (GATase) domains can occur either as single polypeptides, as in glutamine
Probab=44.27 E-value=6.7 Score=26.39 Aligned_cols=9 Identities=44% Similarity=0.796 Sum_probs=7.3
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||...
T Consensus 167 vQfHPE~~~ 175 (189)
T cd01745 167 VQWHPEWLA 175 (189)
T ss_pred EecCCCcCc
Confidence 699999864
No 70
>TIGR01368 CPSaseIIsmall carbamoyl-phosphate synthase, small subunit. This model represents the whole of the small chain of the glutamine-dependent form (EC 6.3.5.5) of carbamoyl phosphate synthase, CPSase II. The C-terminal domain has glutamine amidotransferase activity. Note that the sequence from the mammalian urea cycle form has lost the active site Cys, resulting in an ammonia-dependent form, CPSase I (EC 6.3.4.16). CPSases of pyrimidine biosynthesis, arginine biosynthesis, and the urea cycle may be encoded by one or by several genes, depending on the species.
Probab=43.95 E-value=6.5 Score=30.21 Aligned_cols=9 Identities=67% Similarity=1.136 Sum_probs=7.4
Q ss_pred HHhhCccch
Q 035343 29 LLQYHPESS 37 (67)
Q Consensus 29 ll~yHPEss 37 (67)
=+|||||++
T Consensus 331 gVQfHPE~~ 339 (358)
T TIGR01368 331 SVQYHPEAS 339 (358)
T ss_pred EEEECCCCC
Confidence 379999985
No 71
>cd04369 Bromodomain Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=43.53 E-value=34 Score=19.05 Aligned_cols=29 Identities=21% Similarity=0.241 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHhhCccchhhhhccc
Q 035343 15 PEVLEAIRLIVINNLLQYHPESSSQLAMGV 44 (67)
Q Consensus 15 ~e~LE~IRlTIiNNll~yHPEsse~la~G~ 44 (67)
.+..+++|+ |++|-+.||+..+....++.
T Consensus 61 ~~f~~D~~l-i~~Na~~~n~~~~~~~~~a~ 89 (99)
T cd04369 61 EEFEADVRL-IFSNAKTYNGPGSPIYKDAK 89 (99)
T ss_pred HHHHHHHHH-HHHHHHHHCCCCCHHHHHHH
Confidence 345566665 57888999998877665543
No 72
>PRK13142 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=43.07 E-value=6.9 Score=27.64 Aligned_cols=9 Identities=56% Similarity=1.128 Sum_probs=7.6
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
.|||||.|.
T Consensus 166 ~QFHPEkS~ 174 (192)
T PRK13142 166 IQFHPEKSG 174 (192)
T ss_pred EecCcccCc
Confidence 489999975
No 73
>CHL00197 carA carbamoyl-phosphate synthase arginine-specific small subunit; Provisional
Probab=42.04 E-value=7.5 Score=30.31 Aligned_cols=8 Identities=75% Similarity=1.364 Sum_probs=7.0
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||++
T Consensus 350 VQFHPE~~ 357 (382)
T CHL00197 350 VQYHPEAS 357 (382)
T ss_pred EeeCCCCC
Confidence 69999984
No 74
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=41.77 E-value=27 Score=18.67 Aligned_cols=23 Identities=26% Similarity=0.488 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHhhCccchh
Q 035343 16 EVLEAIRLIVINNLLQYHPESSS 38 (67)
Q Consensus 16 e~LE~IRlTIiNNll~yHPEsse 38 (67)
...++||..--+=++++||....
T Consensus 13 ~~~~~ik~ay~~l~~~~HPD~~~ 35 (60)
T smart00271 13 ASLDEIKKAYRKLALKYHPDKNP 35 (60)
T ss_pred CCHHHHHHHHHHHHHHHCcCCCC
Confidence 45678888888888999998754
No 75
>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=41.77 E-value=23 Score=29.33 Aligned_cols=27 Identities=15% Similarity=0.148 Sum_probs=22.3
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNL 29 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNl 29 (67)
|||++.. |.|+++ ++++.|+..+++.+
T Consensus 823 F~v~~~~-g~~~~~-~~~~~l~~~L~~~l 849 (850)
T TIGR01693 823 FYVTDLF-GLKLTD-EEEQRLLEVLAASV 849 (850)
T ss_pred EEEECCC-CCCCCH-HHHHHHHHHHHHHh
Confidence 6777665 889988 89999999998865
No 76
>PRK12564 carbamoyl phosphate synthase small subunit; Reviewed
Probab=41.25 E-value=7.7 Score=29.78 Aligned_cols=9 Identities=67% Similarity=1.136 Sum_probs=7.3
Q ss_pred HHhhCccch
Q 035343 29 LLQYHPESS 37 (67)
Q Consensus 29 ll~yHPEss 37 (67)
=+|||||+.
T Consensus 335 gVQfHPE~~ 343 (360)
T PRK12564 335 SVQYHPEAS 343 (360)
T ss_pred EEEeCCcCC
Confidence 369999985
No 77
>TIGR03582 EF_0829 PRD domain protein EF_0829/AHA_3910. Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. This protein contains a PRD domain (see pfam00874). The function is unknown.
Probab=41.06 E-value=16 Score=24.32 Aligned_cols=32 Identities=19% Similarity=0.292 Sum_probs=22.8
Q ss_pred ceeecCCCCccC--CHHHHHHHHH---HHHHHHHhhC
Q 035343 2 MLVCSDTGRKVD--DPEVLEAIRL---IVINNLLQYH 33 (67)
Q Consensus 2 ~It~a~Tg~KV~--~~e~LE~IRl---TIiNNll~yH 33 (67)
.+.|+.|||++. |++++++|.. .|-+.+++.+
T Consensus 50 ml~Rs~~GE~lp~vD~~Lf~EIs~~sl~la~~v~~~f 86 (107)
T TIGR03582 50 MVYRSTTGETLPEVDRSLFDEISKESIKLAEEVVAAL 86 (107)
T ss_pred HHHHHHcCCcCCccCHHHHHHHHHHHHHHHHHHHHHh
Confidence 456889999985 9999999986 2334444443
No 78
>PRK12838 carbamoyl phosphate synthase small subunit; Reviewed
Probab=40.74 E-value=7.8 Score=29.73 Aligned_cols=8 Identities=50% Similarity=1.153 Sum_probs=6.7
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||+.
T Consensus 326 VQfHPE~~ 333 (354)
T PRK12838 326 VQFHPEAH 333 (354)
T ss_pred EEeCCCCC
Confidence 59999983
No 79
>PF06226 DUF1007: Protein of unknown function (DUF1007); InterPro: IPR010412 This is a family of conserved bacterial proteins with unknown function.
Probab=40.69 E-value=35 Score=23.84 Aligned_cols=27 Identities=33% Similarity=0.457 Sum_probs=23.6
Q ss_pred CCCccCCHHHHHHHHHHHHHHHHhhCc
Q 035343 8 TGRKVDDPEVLEAIRLIVINNLLQYHP 34 (67)
Q Consensus 8 Tg~KV~~~e~LE~IRlTIiNNll~yHP 34 (67)
.+..+.+++.|.++.-.+++||-.||=
T Consensus 62 ~~dg~~~~~el~~l~~~~~~~l~~~~y 88 (212)
T PF06226_consen 62 DGDGKLDPEELAALAKEIFDNLKEYNY 88 (212)
T ss_pred cccCCCCHHHHHHHHHHHHhhhhhcCc
Confidence 366788999999999999999998774
No 80
>TIGR01973 NuoG NADH-quinone oxidoreductase, chain G. This model represents the G subunit (one of 14: A-N) of the NADH-quinone oxidoreductase complex I which generally couples NADH and ubiquinone oxidation/reduction in bacteria and mammalian mitochondria while translocating protons, but may act on NADPH and/or plastoquinone in cyanobacteria and plant chloroplasts. This model excludes related subunits from formate dehydrogenase complexes.
Probab=40.59 E-value=26 Score=27.62 Aligned_cols=23 Identities=30% Similarity=0.333 Sum_probs=21.6
Q ss_pred CCHHHHHHHHHHHHHHHHhhCcc
Q 035343 13 DDPEVLEAIRLIVINNLLQYHPE 35 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~yHPE 35 (67)
++++.+++.|..++.-||.-||-
T Consensus 72 t~~~~~~~~r~~~~e~ll~~h~~ 94 (603)
T TIGR01973 72 TNSEKVKKAREGVMEFLLINHPL 94 (603)
T ss_pred eCCHHHHHHHHHHHHHHHhcCCC
Confidence 57999999999999999999996
No 81
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=40.41 E-value=29 Score=18.13 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHhhCccchh
Q 035343 15 PEVLEAIRLIVINNLLQYHPESSS 38 (67)
Q Consensus 15 ~e~LE~IRlTIiNNll~yHPEsse 38 (67)
....++||..--.=+.++||....
T Consensus 11 ~~~~~~ik~~y~~l~~~~HPD~~~ 34 (55)
T cd06257 11 DASDEEIKKAYRKLALKYHPDKNP 34 (55)
T ss_pred CCCHHHHHHHHHHHHHHHCcCCCC
Confidence 345678888887888999998764
No 82
>PRK09065 glutamine amidotransferase; Provisional
Probab=39.45 E-value=9.7 Score=26.79 Aligned_cols=11 Identities=36% Similarity=0.927 Sum_probs=8.6
Q ss_pred HhhCccchhhh
Q 035343 30 LQYHPESSSQL 40 (67)
Q Consensus 30 l~yHPEsse~l 40 (67)
+|+|||....+
T Consensus 182 vQfHPE~~~~~ 192 (237)
T PRK09065 182 VQFHPEFTAHI 192 (237)
T ss_pred EEeCCcCCHHH
Confidence 69999986654
No 83
>PTZ00173 60S ribosomal protein L10; Provisional
Probab=38.47 E-value=48 Score=24.80 Aligned_cols=19 Identities=26% Similarity=0.326 Sum_probs=16.3
Q ss_pred CCHHHHHHHHHHHHHHHHh
Q 035343 13 DDPEVLEAIRLIVINNLLQ 31 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~ 31 (67)
..++.||+.|.+|-.+|++
T Consensus 60 Iss~aLEAaRia~nr~l~K 78 (213)
T PTZ00173 60 ISSEALEAARISANKYMVK 78 (213)
T ss_pred ccHHHHHHHHHHHHHhhhh
Confidence 4689999999999999844
No 84
>PRK09522 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=37.81 E-value=9.4 Score=30.63 Aligned_cols=8 Identities=63% Similarity=1.140 Sum_probs=6.4
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+||||||-
T Consensus 167 VQFHPEs~ 174 (531)
T PRK09522 167 FQFHPESI 174 (531)
T ss_pred EEecCccc
Confidence 68999964
No 85
>cd07070 NR_LBD_SF-1 The ligand binding domain of nuclear receptor steroidogenic factor 1, a member of nuclear receptor superfamily. The ligand binding domain of nuclear receptor steroidogenic factor 1 (SF-1): SF-1, a member of the nuclear hormone receptor superfamily, is an essential regulator of endocrine development and function and is considered a master regulator of reproduction. Most nuclear receptors function as homodimer or heterodimers, however SF-1 binds to its target genes as a monomer, recognizing the variations of the DNA sequence motif, T/CCA AGGTCA. SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been determined as potential ligands of SF-1. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, SF-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=37.80 E-value=55 Score=23.06 Aligned_cols=31 Identities=13% Similarity=0.310 Sum_probs=25.7
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
.-+.++..+|.+|..+.+-|.+| ||..+..+
T Consensus 160 ~gL~~~~~Ve~lQe~~~~aL~~y~~~~~p~~~~Rf 194 (237)
T cd07070 160 KFLNNHSLVKDAQEKANAALLDYTLCHYPHCGDKF 194 (237)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHhcCCCcchHH
Confidence 35778899999999999999988 78776544
No 86
>PF05763 DUF835: Protein of unknown function (DUF835); InterPro: IPR008553 The members of this archaebacterial protein entry are around 250-300 amino acid residues in length. The function of these proteins is not known.
Probab=37.58 E-value=39 Score=22.62 Aligned_cols=30 Identities=17% Similarity=0.238 Sum_probs=25.1
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHHHh
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNLLQ 31 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNll~ 31 (67)
++||... |++-..|..|+.|..+|.+-|=+
T Consensus 44 iWlT~~~-~~~~I~Pt~L~~l~~~i~~fl~~ 73 (136)
T PF05763_consen 44 IWLTKVE-GENAISPTNLHKLLDTIVRFLKE 73 (136)
T ss_pred EEEeccC-CCCccCchhhHHHHHHHHHHHHh
Confidence 4678887 88999999999999998876655
No 87
>cd07859 STKc_TDY_MAPK_plant Catalytic domain of the Serine/Threonine Kinases, TDY Mitogen-Activated Protein Kinases from Plants. Serine/Threonine Kinases (STKs), Plant TDY Mitogen-Activated Protein Kinase (MAPK) subfamily, catalytic (c) domain. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The TDY MAPK subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. MAPKs are important mediators of cellular responses to extracellular signals. In plants, MAPKs are associated with physiological, developmental, hormonal, and stress responses. Some plants show numerous gene duplications of MAPKs. Arabidopsis thaliana harbors at least 20 MAPKs, named AtMPK1-20. Oryza sativa contains at least 17 MAPKs. There are two subtypes of plant MAPKs based on the conserved phos
Probab=36.85 E-value=32 Score=23.09 Aligned_cols=16 Identities=38% Similarity=0.928 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHhhCc
Q 035343 19 EAIRLIVINNLLQYHP 34 (67)
Q Consensus 19 E~IRlTIiNNll~yHP 34 (67)
+++|..+.+-++.|||
T Consensus 323 ~~~~~~~~~~~~~~~~ 338 (338)
T cd07859 323 EDVRELIYREILEYHP 338 (338)
T ss_pred HHHHHHHHHHHHhcCC
Confidence 6778888899999998
No 88
>PF12229 PG_binding_4: Putative peptidoglycan binding domain; InterPro: IPR022029 This domain is found associated with the L,D-transpeptidase domain PF03734 from PFAM. The structure of this domain has been solved and shows a mixed alpha-beta fold composed of nine beta strands and four alpha helices. This domain is usually found to be duplicated. Therefore, it seems likely that this domain acts to bind the two unlinked peptidoglycan chains and bring them into close association so they can be cross linked by the transpeptidase domain. ; PDB: 2HKL_C 1ZAT_A.
Probab=36.83 E-value=19 Score=20.90 Aligned_cols=27 Identities=26% Similarity=0.327 Sum_probs=18.3
Q ss_pred ceeecCCCCccCCHHHHHHHHHHHHHH
Q 035343 2 MLVCSDTGRKVDDPEVLEAIRLIVINN 28 (67)
Q Consensus 2 ~It~a~Tg~KV~~~e~LE~IRlTIiNN 28 (67)
.|+....|++|......++|...|.++
T Consensus 83 ~i~~~~~G~~id~~~~~~~i~~al~~~ 109 (114)
T PF12229_consen 83 TITPGQYGWKIDVDKLAEAIKKALKNG 109 (114)
T ss_dssp EE---SS-EEE-HHHHHHHHHHHHHTT
T ss_pred EEcCCcCeEEEcHHHHHHHHHHHHHcC
Confidence 467888999999999999998887664
No 89
>cd07068 NR_LBD_ER_like The ligand binding domain of estrogen receptor and estrogen receptor-related receptors. The ligand binding domain of estrogen receptor (ER) and estrogen receptor-related receptors (ERRs): Estrogen receptors are a group of receptors which are activated by the hormone estrogen. Estrogen regulates many physiological processes including reproduction, bone integrity, cardiovascular health, and behavior. The main mechanism of action of the estrogen receptor is as a transcription factor by binding to the estrogen response element of target genes upon activation by estrogen and then recruiting coactivator proteins which are responsible for the transcription of target genes. Additionally some ERs may associate with other membrane proteins and can be rapidly activated by exposure of cells to estrogen. ERRs are closely related to the estrogen receptor (ER) family. But, it lacks the ability to bind estrogen. ERRs can interfere with the classic ER-mediated estrogen signalin
Probab=34.82 E-value=65 Score=22.08 Aligned_cols=27 Identities=19% Similarity=0.469 Sum_probs=21.9
Q ss_pred cCCHHHHHHHHHHHHHHHHhh----Cc-cchh
Q 035343 12 VDDPEVLEAIRLIVINNLLQY----HP-ESSS 38 (67)
Q Consensus 12 V~~~e~LE~IRlTIiNNll~y----HP-Esse 38 (67)
+.+++.+|.+|..+++-|.+| || +...
T Consensus 146 L~~~~~V~~~q~~~~~aL~~y~~~~~~~~~~~ 177 (221)
T cd07068 146 LEDREAVQQLRDAILDALVDVEAKRHGSQQPR 177 (221)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHhCCCcccc
Confidence 478999999999999999877 66 4433
No 90
>PF00252 Ribosomal_L16: Ribosomal protein L16p/L10e; InterPro: IPR016180 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a structural domain with an alpha/beta-hammerhead fold, where the beta-hammerhead motif is similar to that in barrel-sandwich hybrids. Domains of this structure can be found in ribosomal proteins L10e and L16. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 2ZJR_J 1Y69_K 3DLL_J 2ZJQ_J 2ZJP_J 3PIO_J 3CF5_J 3PIP_J 2ZKR_h 3J11_O ....
Probab=34.67 E-value=42 Score=22.19 Aligned_cols=19 Identities=26% Similarity=0.253 Sum_probs=15.8
Q ss_pred CCHHHHHHHHHHHHHHHHh
Q 035343 13 DDPEVLEAIRLIVINNLLQ 31 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~ 31 (67)
..+..||++|++|..+|=.
T Consensus 41 l~~~qlEa~R~~i~r~lkk 59 (133)
T PF00252_consen 41 LTSNQLEAARIAINRYLKK 59 (133)
T ss_dssp EEHHHHHHHHHHHHHHHHH
T ss_pred echhhhHHHHHHHHHHhhh
Confidence 4578999999999998843
No 91
>cd01741 GATase1_1 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. This group contains a subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. GATase activity catalyses the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. Glutamine amidotransferases (GATase) includes the triad family of amidotransferases which have a conserved Cys-His-Glu catalytic triad in the glutaminase active site. In this subgroup this triad is conserved. GATase activity can be found in a range of biosynthetic enzymes, including: glutamine amidotransferase, formylglycinamide ribonucleotide, GMP synthetase , anthranilate synthase component II, glutamine-dependent carbamoyl phosphate synthase, cytidine triphosphate synthetase, gamma-glutamyl hydrolase, imidazole glycerol phosphate synthase and, cobyric acid synthase. Glutamine amidotransferase (GATase) domains can occur either as single polypeptides, as in glutamine
Probab=34.06 E-value=12 Score=24.40 Aligned_cols=6 Identities=83% Similarity=1.608 Sum_probs=5.0
Q ss_pred HhhCcc
Q 035343 30 LQYHPE 35 (67)
Q Consensus 30 l~yHPE 35 (67)
+|+|||
T Consensus 175 ~QfHPE 180 (188)
T cd01741 175 LQFHPE 180 (188)
T ss_pred EccCch
Confidence 588998
No 92
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=33.86 E-value=40 Score=27.98 Aligned_cols=24 Identities=29% Similarity=0.621 Sum_probs=21.5
Q ss_pred CHHHHHHHHHHHHHHHHhhCccch
Q 035343 14 DPEVLEAIRLIVINNLLQYHPESS 37 (67)
Q Consensus 14 ~~e~LE~IRlTIiNNll~yHPEss 37 (67)
||+.+-++=.-||+|-++|-|+-+
T Consensus 339 D~DK~tQVldNii~NA~KYsP~Gg 362 (459)
T COG5002 339 DPDKMTQVLDNIISNALKYSPDGG 362 (459)
T ss_pred ChhHHHHHHHHHHHHHhhcCCCCC
Confidence 788888899999999999999865
No 93
>KOG0026 consensus Anthranilate synthase, beta chain [Amino acid transport and metabolism]
Probab=33.09 E-value=12 Score=28.30 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=6.6
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+||||||-
T Consensus 191 VQfHPESI 198 (223)
T KOG0026|consen 191 VQFHPESI 198 (223)
T ss_pred eeecchhh
Confidence 68999983
No 94
>PF08469 NPHI_C: Nucleoside triphosphatase I C-terminal; InterPro: IPR013676 This viral domain is found to the C terminus of Poxvirus nucleoside triphosphatase phosphohydrolase I (NPH I) [] together with the helicase conserved C-terminal domain (IPR001650 from INTERPRO). ; GO: 0005524 ATP binding, 0017111 nucleoside-triphosphatase activity, 0006351 transcription, DNA-dependent
Probab=32.98 E-value=32 Score=24.65 Aligned_cols=32 Identities=19% Similarity=0.299 Sum_probs=25.7
Q ss_pred CceeecCCCCccCCHHHHHHHHH-----HHHHHHHhh
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRL-----IVINNLLQY 32 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRl-----TIiNNll~y 32 (67)
|.|-+..+|++-+|-++|+-||- +.|+++|+.
T Consensus 15 FIiAr~~ng~~sVDedlldiIk~Kskef~qLf~vlK~ 51 (148)
T PF08469_consen 15 FIIARLSNGRPSVDEDLLDIIKDKSKEFNQLFKVLKE 51 (148)
T ss_pred EEEEEcCCCCcchHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 45667899999999999999984 567777763
No 95
>cd06929 NR_LBD_F1 Ligand-binding domain of nuclear receptor family 1. Ligand-binding domain (LBD) of nuclear receptor (NR) family 1: This is one of the major subfamily of nuclear receptors, including thyroid receptor, retinoid acid receptor, ecdysone receptor, farnesoid X receptor, vitamin D receptor, and other related receptors. Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions, from development, reproduction, to homeostasis and metabolism in animals (metazoans). The family contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. NRs share a common structural organization with a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=32.81 E-value=93 Score=19.75 Aligned_cols=30 Identities=20% Similarity=0.525 Sum_probs=23.9
Q ss_pred ccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 11 KVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 11 KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
.+.+++.++++|..+++-|.+| ||+....+
T Consensus 120 ~l~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~Rf 153 (174)
T cd06929 120 GLQDVDTVEKLQERLLEALQRYLKVNHPDAPQMF 153 (174)
T ss_pred cCcCHHHHHHHHHHHHHHHHHHHHhcCCCChhHH
Confidence 5668999999999999999988 77544443
No 96
>PRK13525 glutamine amidotransferase subunit PdxT; Provisional
Probab=32.62 E-value=12 Score=25.32 Aligned_cols=9 Identities=33% Similarity=0.781 Sum_probs=7.1
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||.+.
T Consensus 167 ~QfHPE~~~ 175 (189)
T PRK13525 167 TSFHPELTD 175 (189)
T ss_pred EEeCCccCC
Confidence 689999754
No 97
>PLN00210 40S ribosomal protein S16; Provisional
Probab=32.56 E-value=59 Score=22.43 Aligned_cols=21 Identities=24% Similarity=0.332 Sum_probs=18.8
Q ss_pred CHHHHHHHHHHHHHHHHhhCc
Q 035343 14 DPEVLEAIRLIVINNLLQYHP 34 (67)
Q Consensus 14 ~~e~LE~IRlTIiNNll~yHP 34 (67)
-+.+-++||+.|-.-|+.|+|
T Consensus 72 ~sgQa~Air~aiaraL~~~~~ 92 (141)
T PLN00210 72 HTSQIYAIRQSIAKALVAYYQ 92 (141)
T ss_pred HhHHHHHHHHHHHHHHHHhcc
Confidence 467889999999999999977
No 98
>COG1701 Uncharacterized protein conserved in archaea [Function unknown]
Probab=32.55 E-value=47 Score=25.74 Aligned_cols=29 Identities=45% Similarity=0.497 Sum_probs=24.9
Q ss_pred CCCccCCHHHHHHHHHHHHHHHHhhCccch
Q 035343 8 TGRKVDDPEVLEAIRLIVINNLLQYHPESS 37 (67)
Q Consensus 8 Tg~KV~~~e~LE~IRlTIiNNll~yHPEss 37 (67)
-|||-.+|+ +|+||-..-.=||+.||-.|
T Consensus 47 iGEkT~~~A-~eA~raAaA~LlLAk~PVIS 75 (256)
T COG1701 47 IGEKTIPPA-LEAIRAAAAALLLAKHPVIS 75 (256)
T ss_pred cccccCchH-HHHHHHHHHHHHhccCCeEE
Confidence 478877765 79999999999999999776
No 99
>PRK07053 glutamine amidotransferase; Provisional
Probab=32.47 E-value=15 Score=26.06 Aligned_cols=11 Identities=45% Similarity=0.872 Sum_probs=8.8
Q ss_pred HhhCccchhhh
Q 035343 30 LQYHPESSSQL 40 (67)
Q Consensus 30 l~yHPEsse~l 40 (67)
+|+|||.+...
T Consensus 174 ~QfHpE~~~~~ 184 (234)
T PRK07053 174 LQFHPEAREDR 184 (234)
T ss_pred EeeCccCCHHH
Confidence 69999987653
No 100
>cd06932 NR_LBD_PPAR The ligand binding domain of peroxisome proliferator-activated receptors. The ligand binding domain (LBD) of peroxisome proliferator-activated receptors (PPAR): Peroxisome proliferator-activated receptors (PPARs) are members of the nuclear receptor superfamily of ligand-activated transcription factors. PPARs play important roles in regulating cellular differentiation, development and lipid metabolism. Activated PPAR forms a heterodimer with the retinoid X receptor (RXR) that binds to the hormone response element located upstream of the peroxisome proliferator responsive genes and interacts with co-activators. There are three subtypes of peroxisome proliferator activated receptors, alpha, beta (or delta), and gamma, each with a distinct tissue distribution. Several essential fatty acids, oxidized lipids and prostaglandin J derivatives can bind and activate PPAR. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, P
Probab=32.37 E-value=71 Score=23.01 Aligned_cols=30 Identities=23% Similarity=0.268 Sum_probs=24.6
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh----Cccchhh
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY----HPESSSQ 39 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y----HPEsse~ 39 (67)
.-+.+++.+|++|-.+++-|-.| ||+....
T Consensus 181 ~gL~~~~~Ve~lQe~~~~aL~~~i~~~~p~~~~r 214 (259)
T cd06932 181 PGLINRKPVERIQEHVLQALELQLKKNHPDSPQL 214 (259)
T ss_pred ccCcCHHHHHHHHHHHHHHHHHHHhhhCCCcccH
Confidence 34789999999999999998877 8876443
No 101
>cd07069 NR_LBD_Lrh-1 The ligand binding domain of the liver receptor homolog-1, a member of nuclear receptor superfamily,. The ligand binding domain (LBD) of the liver receptor homolog-1 (LRH-1): LRH-1 belongs to nuclear hormone receptor superfamily, and is expressed mainly in the liver, intestine, exocrine pancreas, and ovary. Most nuclear receptors function as homodimer or heterodimers. However, LRH-1 binds DNA as a monomer, and is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. Recently, phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, LRH-1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=32.32 E-value=80 Score=22.45 Aligned_cols=30 Identities=20% Similarity=0.470 Sum_probs=25.3
Q ss_pred ccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 11 KVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 11 KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
-+.+++.+|++|-++++-|-.| ||+....+
T Consensus 163 gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~Rf 196 (241)
T cd07069 163 NLENFQLVEGVQEQVNAALLDYTMCNYPQQTEKF 196 (241)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhcCCCchhHH
Confidence 4788999999999999999887 78876654
No 102
>PF03914 CBF: CBF/Mak21 family; InterPro: IPR005612 This domain is present in the CAATT-binding protein which is essential for growth and necessary for 60S ribosomal subunit biogenesis. Other proteins containing this domain stimulate transcription from the HSP70 promoter.
Probab=32.22 E-value=37 Score=22.31 Aligned_cols=24 Identities=33% Similarity=0.369 Sum_probs=19.7
Q ss_pred HHHHHHHHhhCccchhhhhccccc
Q 035343 23 LIVINNLLQYHPESSSQLAMGVTF 46 (67)
Q Consensus 23 lTIiNNll~yHPEsse~la~G~~f 46 (67)
+.+|.+||+.||+...-+...+..
T Consensus 87 L~~i~~ll~~~p~l~~ll~~~~~~ 110 (164)
T PF03914_consen 87 LALIRKLLKRHPNLKSLLDNEEKK 110 (164)
T ss_pred HHHHHHHHHHCHHHHHHhcCCccc
Confidence 678999999999888888766654
No 103
>PRK08250 glutamine amidotransferase; Provisional
Probab=32.22 E-value=15 Score=25.88 Aligned_cols=11 Identities=27% Similarity=0.292 Sum_probs=8.6
Q ss_pred HhhCccchhhh
Q 035343 30 LQYHPESSSQL 40 (67)
Q Consensus 30 l~yHPEsse~l 40 (67)
+|+|||.....
T Consensus 176 ~QfHPE~~~~~ 186 (235)
T PRK08250 176 FQCHMEFTVEA 186 (235)
T ss_pred EeecCcCCHHH
Confidence 69999987654
No 104
>cd01749 GATase1_PB Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis. Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis. Glutamine amidotransferase (GATase) activity involves the removal of the ammonia group from a glutamate molecule and its subsequent transfer to a specific substrate, thus creating a new carbon-nitrogen group on the substrate. This group contains proteins like Bacillus subtilus YaaE and Plasmodium falciparum Pdx2 which are members of the triad glutamine aminotransferase family and function in a pathway for the biosynthesis of vitamin B6.
Probab=32.04 E-value=13 Score=24.79 Aligned_cols=10 Identities=30% Similarity=0.733 Sum_probs=7.4
Q ss_pred HhhCccchhh
Q 035343 30 LQYHPESSSQ 39 (67)
Q Consensus 30 l~yHPEsse~ 39 (67)
+|+|||.+..
T Consensus 166 ~qfHPE~~~~ 175 (183)
T cd01749 166 TSFHPELTDD 175 (183)
T ss_pred EEcCCccCCC
Confidence 5899996643
No 105
>cd06951 NR_LBD_Dax1_like The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of DAX1-like proteins: This orphan nuclear receptor family includes DAX1 (dosage-sensitive sex reversal adrenal hypoplasia congenita critical region on chromosome X gene 1) and the Small Heterodimer Partner (SHP). Both receptors have a typical ligand binding domain, but lack the DNA binding domain, typical to almost all of the nuclear receptors. They function as a transcriptional coregulator by directly interacting with other nuclear receptors. DAX1 and SHP can form heterodimers with each other, as well as with many other nuclear receptors. In addition, DAX1 can also form homodimers. DAX1 plays an important role in the normal development of several hormone-producing tissues. SHP has shown to regulate a variety of target genes.
Probab=31.98 E-value=72 Score=22.33 Aligned_cols=29 Identities=17% Similarity=0.162 Sum_probs=23.8
Q ss_pred ccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 11 KVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 11 KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
-+ +++.+|++|-.+++-|-+| ||+....+
T Consensus 152 gl-~~~~Ve~lQe~~~~aL~~yi~~~~p~~~~Rf 184 (222)
T cd06951 152 LL-CPHYIEALQKEAQQALNEHTMMTRPLEQLRS 184 (222)
T ss_pred cc-CHHHHHHHHHHHHHHHHHHHHhhCCCcccHH
Confidence 35 8999999999999999877 78766553
No 106
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=31.61 E-value=53 Score=27.75 Aligned_cols=28 Identities=7% Similarity=0.138 Sum_probs=22.6
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNLL 30 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNll 30 (67)
|||++. .|.++. +++++.||.+|...|-
T Consensus 722 F~V~d~-~g~~~~-~~~~~~l~~~L~~aL~ 749 (854)
T PRK01759 722 FIVTEL-NGKLLE-FDRRRQLEQALTKALN 749 (854)
T ss_pred EEEeCC-CCCCCC-HHHHHHHHHHHHHHHc
Confidence 688886 677884 7899999999877774
No 107
>cd06934 NR_LBD_PXR_like The ligand binding domain of xenobiotic receptors:pregnane X receptor and constitutive androstane receptor. The ligand binding domain of xenobiotic receptors: This xenobiotic receptor family includes pregnane X receptor (PXR), constitutive androstane receptor (CAR) and other related nuclear receptors. They function as sensors of toxic byproducts of cell metabolism and of exogenous chemicals, to facilitate their elimination. The nuclear receptor pregnane X receptor (PXR) is a ligand-regulated transcription factor that responds to a diverse array of chemically distinct ligands, including many endogenous compounds and clinical drugs. The ligand binding domain of PXR shows remarkable flexibility to accommodate both large and small molecules. PXR functions as a heterodimer with retinoic X receptor-alpha (RXRa) and binds to a variety of response elements in the promoter regions of a diverse set of target genes involved in the metabolism, transport, and elimination of
Probab=31.42 E-value=69 Score=22.41 Aligned_cols=27 Identities=19% Similarity=0.347 Sum_probs=23.4
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh----Cccc
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY----HPES 36 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y----HPEs 36 (67)
.-+.+++.+|++|-.+++.|-.| ||..
T Consensus 152 ~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~ 182 (226)
T cd06934 152 PGVTQHDVIDQLQEKMALTLKSYIDSKRPGP 182 (226)
T ss_pred cCCcChHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 45789999999999999999988 8754
No 108
>cd06944 NR_LBD_Ftz-F1_like The ligand binding domain of FTZ-F1 like nuclear receptors. The ligand binding domain of FTZ-F1 like nuclear receptors: This nuclear receptor family includes at least three subgroups of receptors that function in embryo development and differentiation, and other processes. FTZ-F1 interacts with the cis-acting DNA motif of ftz gene, which required at several stages of development. Particularly, FTZ-F1 genes are strongly linked to steroid biosynthesis and sex-determination; LRH-1 is a regulator of bile-acid homeostasis, steroidogenesis, reverse cholesterol transport and the initial stages of embryonic development. SF-1 is an essential regulator of endocrine development and function and is considered a master regulator of reproduction; SF-1 functions cooperatively with other transcription factors to modulate gene expression. Phospholipids have been identified as potential ligand for LRH-1 and steroidogenic factor-1 (SF-1). However, the ligand for FTZ-F1 has not
Probab=31.26 E-value=79 Score=22.15 Aligned_cols=28 Identities=21% Similarity=0.515 Sum_probs=23.2
Q ss_pred cCCHHHHHHHHHHHHHHHHhh----Cccchhh
Q 035343 12 VDDPEVLEAIRLIVINNLLQY----HPESSSQ 39 (67)
Q Consensus 12 V~~~e~LE~IRlTIiNNll~y----HPEsse~ 39 (67)
+.+++.+|.+|-.+.+-|.+| ||+.+..
T Consensus 162 L~~~~~Ve~~q~~~~~aL~~y~~~~~~~~~~R 193 (237)
T cd06944 162 LENRQLVESVQEQVNAALLDYTLCNYPQQTDK 193 (237)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhCCCCccH
Confidence 567899999999999999988 7776543
No 109
>cd06953 NR_LBD_DHR4_like The ligand binding domain of orphan nuclear receptor Ecdysone-induced receptor DHR4. The ligand binding domain of Ecdysone-induced receptor DHR4: Ecdysone-induced orphan receptor DHR4 is a member of the nuclear receptor family. DHR4 is expressed during the early Drosophila larval development and is induced by ecdysone. DHR4 coordinates growth and maturation in Drosophila by mediating endocrine response to the attainment of proper body size during larval development. Mutations in DHR4 result in shorter larval development which translates into smaller and lighter flies. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=31.06 E-value=88 Score=21.57 Aligned_cols=29 Identities=14% Similarity=0.250 Sum_probs=23.2
Q ss_pred ccCCHHHHHHHHHHHHHHHHhh----Cccchhh
Q 035343 11 KVDDPEVLEAIRLIVINNLLQY----HPESSSQ 39 (67)
Q Consensus 11 KV~~~e~LE~IRlTIiNNll~y----HPEsse~ 39 (67)
-+.+++.+|.+|..+.+-|.+| ||.....
T Consensus 149 gLs~~~~Ve~lQ~~~~~aL~~y~~~~~~~~p~R 181 (213)
T cd06953 149 GLTNASQLESLQKRYWYVLQDFTELNYPNQPNR 181 (213)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHhCCCcchH
Confidence 5678889999999999998877 6665444
No 110
>cd06937 NR_LBD_RAR The ligand binding domain (LBD) of retinoic acid receptor (RAR), a members of the nuclear receptor superfamily. The ligand binding domain (LBD) of retinoic acid receptor (RAR): Retinoic acid receptors are members of the nuclear receptor (NR) superfamily of ligand-regulated transcription factors. RARs mediate the biological effect of retinoids, including both naturally dietary vitamin A (retinol) metabolites and active synthetic analogs. Retinoids play key roles in a wide variety of essential biological processes, such as vertebrate embryonic morphogenesis and organogenesis, differentiation and apoptosis, and homeostasis. RARs function as heterodimers with retinoic X receptors by binding to specific RAR response elements (RAREs) found in the promoter regions of retinoid target genes. In the absence of ligand, the RAR-RXR heterodimer recruits the corepressor proteins NCoR or AMRT, and associated factors such as histone deacetylases or DNA-methyltransferases, leading to
Probab=30.67 E-value=83 Score=22.10 Aligned_cols=30 Identities=17% Similarity=0.496 Sum_probs=24.5
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh----Cccchhh
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY----HPESSSQ 39 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y----HPEsse~ 39 (67)
..+.+++.+|++|-.+++-|-.| ||+....
T Consensus 155 ~gL~~~~~Ve~lQe~~~~aL~~yi~~~~p~~p~r 188 (231)
T cd06937 155 QDLEEPDRVEKLQEPLLEALKIYARKRRPDKPHM 188 (231)
T ss_pred ccCCCHHHHHHHHHHHHHHHHHHHHhhCCCcccH
Confidence 45789999999999999988876 7876444
No 111
>cd06941 NR_LBD_DmE78_like The ligand binding domain of Drosophila ecdysone-induced protein 78, a member of the nuclear receptor superfamily. The ligand binding domain (LBD) of Drosophila ecdysone-induced protein 78 (E78) like: Drosophila ecdysone-induced protein 78 (E78) is a transcription factor belonging to the nuclear receptor superfamily. E78 is a product of the ecdysone-inducible gene found in an early late puff locus at position 78C during the onset of Drosophila metamorphosis. Two isoforms of E78, E78A and E78B, are expressed from two nested transcription units. An E78 orthologue from the Platyhelminth Schistosoma mansoni (SmE78) has also been identified. It is the first E78 orthologue known outside of the molting animals--the Ecdysozoa. SmE78 may be involved in transduction of an ecdysone signal in S. mansoni, consistent with its function in Drosophila. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, E78-like receptors ha
Probab=30.65 E-value=88 Score=20.88 Aligned_cols=28 Identities=14% Similarity=0.300 Sum_probs=21.9
Q ss_pred ccCCHHHHHHHHHHHHHHHHhh----Cccchh
Q 035343 11 KVDDPEVLEAIRLIVINNLLQY----HPESSS 38 (67)
Q Consensus 11 KV~~~e~LE~IRlTIiNNll~y----HPEsse 38 (67)
-+.+++.+|++|..+++-|-.| ||+...
T Consensus 120 gl~~~~~Ve~lq~~~~~aL~~~i~~~~p~~~~ 151 (195)
T cd06941 120 GLSEPKKVAILQDRVLEALKVQVSRNRPAEAQ 151 (195)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhCCCccc
Confidence 4678999999999999888666 676533
No 112
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=30.63 E-value=51 Score=22.28 Aligned_cols=18 Identities=17% Similarity=0.239 Sum_probs=15.8
Q ss_pred cCCHHHHHHHHHHHHHHH
Q 035343 12 VDDPEVLEAIRLIVINNL 29 (67)
Q Consensus 12 V~~~e~LE~IRlTIiNNl 29 (67)
-..++.||++|.+|..+|
T Consensus 41 ~i~~~qlEaaR~~i~r~L 58 (138)
T PRK09203 41 WITARQIEAARIAMTRHI 58 (138)
T ss_pred eEcHHHHHHHHHHHHHHh
Confidence 457899999999998887
No 113
>PF06628 Catalase-rel: Catalase-related immune-responsive; InterPro: IPR010582 Catalases (1.11.1.6 from EC) are antioxidant enzymes that catalyse the conversion of hydrogen peroxide to water and molecular oxygen, serving to protect cells from its toxic effects []. Hydrogen peroxide is produced as a consequence of oxidative cellular metabolism and can be converted to the highly reactive hydroxyl radical via transition metals, this radical being able to damage a wide variety of molecules within a cell, leading to oxidative stress and cell death. Catalases act to neutralise hydrogen peroxide toxicity, and are produced by all aerobic organisms ranging from bacteria to man. Most catalases are mono-functional, haem-containing enzymes, although there are also bifunctional haem-containing peroxidase/catalases (IPR000763 from INTERPRO) that are closely related to plant peroxidases, and non-haem, manganese-containing catalases (IPR007760 from INTERPRO) that are found in bacteria []. This entry represents a small conserved region within catalase enzymes that carries the immune-responsive amphipathic octa-peptide that is recognised by T cells [].; PDB: 2CAH_A 1NM0_A 1H7K_A 1E93_A 1H6N_A 3HB6_A 2CAG_A 1M85_A 1MQF_A 1A4E_C ....
Probab=30.52 E-value=39 Score=19.87 Aligned_cols=24 Identities=17% Similarity=0.288 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHhhCccchhhhhcc
Q 035343 20 AIRLIVINNLLQYHPESSSQLAMG 43 (67)
Q Consensus 20 ~IRlTIiNNll~yHPEsse~la~G 43 (67)
+||-..|.++-+-+||-++.++.|
T Consensus 43 ~i~~r~l~~f~~vd~~lg~~v~~~ 66 (68)
T PF06628_consen 43 EIQERVLAYFYKVDPDLGQRVAEA 66 (68)
T ss_dssp HHHHHHHHHHHHH-HHHHHHHHHH
T ss_pred hHHHHHHHHHHHhCHHHHHHHHHH
Confidence 388889999999999999998865
No 114
>PF10523 BEN: BEN domain; InterPro: IPR018379 The BEN domain is found in diverse proteins including: SMAR1 (Scaffold/Matrix attachment region-binding protein 1; also known as BANP), a tumour-suppressor MAR-binding protein that down-regulates Cyclin D1 expression by recruiting HDAC1-mSin3A co-repressor complex at Cyclin D1 promoter locus; SMAR1 is the target of prostaglandin A2 (PGA2) induced growth arrest [, ]. NAC1, a novel member of the POZ/BTB (Pox virus and Zinc finger/Bric-a-bracTramtrack Broad complex), but which varies from other proteins of this class in that it lacks the characteristic DNA-binding motif []. Mod(mdg4) isoform C, the modifier of the mdg4 locus in Drosophila melanogaster (Fruit fly), where mdg4 encodes chromatin proteins which are involved in position effect variegation, establishment of chromatin boundaries, nerve path finding, meiotic chromosome pairing and apoptosis []. Trans-splicing of Mod(mdg4) produces at least 26 transcripts. E5R protein from Chordopoxvirus virosomes, which is found in cytoplasmic sites of viral DNA replication []. Several proteins of polydnaviruses. The BEN domain is predicted to function as an adaptor for the higher-order structuring of chromatin, and recruitment of chromatin modifying factors in transcriptional regulation. It has been suggested to mediate protein-DNA and protein-protein interactions during chromatin organisation and transcription. The presence of BEN domains in a poxviral early virosomal protein and in polydnaviral proteins also suggests a possible role in the organisation of viral DNA during replication or transcription. They are generally linked to other globular domains with functions related to transcriptional regulation and chromatin structure, such as BTB, C4DM, and C2H2 fingers []. This domain is predicted to form an all-alpha fold with four conserved helices. Its conservation pattern revealed several conserved residues, most of which have hydrophobic side-chains and are likely to stabilise the fold through helix-helix packing [].
Probab=29.40 E-value=98 Score=17.43 Aligned_cols=22 Identities=36% Similarity=0.437 Sum_probs=16.5
Q ss_pred CCCCccCCHHHHHHHHHHHHHH
Q 035343 7 DTGRKVDDPEVLEAIRLIVINN 28 (67)
Q Consensus 7 ~Tg~KV~~~e~LE~IRlTIiNN 28 (67)
..++..-||..|.+||-.|...
T Consensus 32 ~~~k~~Ld~~kl~~I~~~v~~~ 53 (79)
T PF10523_consen 32 SPGKPQLDPNKLSAIRNYVEER 53 (79)
T ss_pred CCCCCCCCHHHHHHHHHHHHHH
Confidence 3567778899998888877654
No 115
>PF06743 FAST_1: FAST kinase-like protein, subdomain 1; InterPro: IPR010622 This entry represents a conserved region of eukaryotic Fas-activated serine/threonine (FAST) kinases that contains several conserved leucine residues. FAST kinase is rapidly activated during Fas-mediated apoptosis, when it phosphorylates TIA-1, a nuclear RNA-binding protein that has been implicated as an effector of apoptosis []. Note that many family members are hypothetical proteins.; GO: 0004672 protein kinase activity
Probab=29.40 E-value=8.2 Score=22.87 Aligned_cols=32 Identities=19% Similarity=0.421 Sum_probs=22.0
Q ss_pred HhhCccchhhhh------cccccCCCCCccccceeeec
Q 035343 30 LQYHPESSSQLA------MGVTFGVDPPKQQVFAFWSY 61 (67)
Q Consensus 30 l~yHPEsse~la------~G~~fg~~pp~k~vd~~~~~ 61 (67)
|.|+|..++++- ....++.-+|...|+.-||.
T Consensus 11 LNy~P~~~~~f~~~~~~~L~~~l~~~~p~~ll~~v~Sl 48 (71)
T PF06743_consen 11 LNYQPPNAEEFFEKLIERLESYLDEFSPEDLLDLVWSL 48 (71)
T ss_pred cCCCCCCHHHHHHHHHHHHHHhcccCCHHHHHHHHHHH
Confidence 568888877652 23445566688888888874
No 116
>cd06948 NR_LBD_COUP-TF Ligand binding domain of chicken ovalbumin upstream promoter transcription factors, a member of the nuclear receptor family. The ligand binding domain of chicken ovalbumin upstream promoter transcription factors (COUP-TFs): COUP-TFs are orphan members of the steroid/thyroid hormone receptor superfamily. They are expressed in many tissues and are involved in the regulation of several important biological processes, such as neurogenesis, organogenesis, cell fate determination, and metabolic homeostasis. In mammals two isoforms named COUP-TFI and COUP-TFII have been identified. Both genes show an exceptional homology and overlapping expression patterns, suggesting that they may serve redundant functions. Although COUP-TF was originally characterized as a transcriptional activator of the chicken ovalbumin gene, COUP-TFs are generally considered to be repressors of transcription for other nuclear hormone receptors, such as retinoic acid receptor (RAR), thyroid hormone
Probab=29.18 E-value=91 Score=21.78 Aligned_cols=29 Identities=21% Similarity=0.392 Sum_probs=23.6
Q ss_pred ccCCHHHHHHHHHHHHHHHHhh----Cccchhh
Q 035343 11 KVDDPEVLEAIRLIVINNLLQY----HPESSSQ 39 (67)
Q Consensus 11 KV~~~e~LE~IRlTIiNNll~y----HPEsse~ 39 (67)
.+.+.+.+|.+|-.+++.|.+| ||.....
T Consensus 150 ~L~~~~~v~~~q~~~~~aL~~y~~~~~~~~~~R 182 (236)
T cd06948 150 GLSDPAHIESLQEKSQCALEEYVRTQYPNQPTR 182 (236)
T ss_pred cccCHHHHHHHHHHHHHHHHHHHHHhCCCcccH
Confidence 5678889999999999999987 7765443
No 117
>KOG1224 consensus Para-aminobenzoate (PABA) synthase ABZ1 [Translation, ribosomal structure and biogenesis]
Probab=29.18 E-value=15 Score=31.89 Aligned_cols=8 Identities=88% Similarity=1.335 Sum_probs=6.6
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+||||||-
T Consensus 194 ~qyHPES~ 201 (767)
T KOG1224|consen 194 LQYHPESI 201 (767)
T ss_pred eeeChHHh
Confidence 68999984
No 118
>PRK09129 NADH dehydrogenase subunit G; Validated
Probab=29.18 E-value=53 Score=26.73 Aligned_cols=23 Identities=26% Similarity=0.199 Sum_probs=21.4
Q ss_pred CCHHHHHHHHHHHHHHHHhhCcc
Q 035343 13 DDPEVLEAIRLIVINNLLQYHPE 35 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~yHPE 35 (67)
++++.+.+.|.+++.=||.-||.
T Consensus 74 t~~~~~~~~r~~~l~~ll~~h~~ 96 (776)
T PRK09129 74 TRSEKALKAQKSVMEFLLINHPL 96 (776)
T ss_pred cCCHHHHHHHHHHHHHHHhcCCC
Confidence 47899999999999999999995
No 119
>cd06931 NR_LBD_HNF4_like The ligand binding domain of heptocyte nuclear factor 4, which is explosively expanded in nematodes. The ligand binding domain of hepatocyte nuclear factor 4 (HNF4) like proteins: HNF4 is a member of the nuclear receptor superfamily. HNF4 plays a key role in establishing and maintenance of hepatocyte differentiation in the liver. It is also expressed in gut, kidney, and pancreatic beta cells. HNF4 was originally classified as an orphan receptor, but later it is found that HNF4 binds with very high affinity to a variety of fatty acids. However, unlike other nuclear receptors, the ligands do not act as a molecular switch for HNF4. They seem to constantly bind to the receptor, which is constitutively active as a transcription activator. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, HNF4 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal lig
Probab=29.17 E-value=1.2e+02 Score=20.54 Aligned_cols=31 Identities=23% Similarity=0.458 Sum_probs=23.9
Q ss_pred CCccCCHHHHHHHHHHHHHHHHhh----Cccchhh
Q 035343 9 GRKVDDPEVLEAIRLIVINNLLQY----HPESSSQ 39 (67)
Q Consensus 9 g~KV~~~e~LE~IRlTIiNNll~y----HPEsse~ 39 (67)
...+.+++..+.+|..+++-|.+| ||+.+..
T Consensus 148 ~~~ls~~~~i~~~r~~~~~aL~~y~~~~~~~~~~R 182 (222)
T cd06931 148 AKGLSDPQKIKRLRFQVQVSLEDYINDRQYDSRGR 182 (222)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHHHHHhcCCchhhH
Confidence 457888999999999999888875 5555443
No 120
>PLN02889 oxo-acid-lyase/anthranilate synthase
Probab=29.17 E-value=16 Score=31.94 Aligned_cols=7 Identities=86% Similarity=1.483 Sum_probs=6.4
Q ss_pred HhhCccc
Q 035343 30 LQYHPES 36 (67)
Q Consensus 30 l~yHPEs 36 (67)
+||||||
T Consensus 312 VQfHPES 318 (918)
T PLN02889 312 LQFHPES 318 (918)
T ss_pred EEeCCcc
Confidence 6999998
No 121
>KOG1474 consensus Transcription initiation factor TFIID, subunit BDF1 and related bromodomain proteins [Transcription]
Probab=28.82 E-value=46 Score=27.36 Aligned_cols=37 Identities=30% Similarity=0.487 Sum_probs=28.3
Q ss_pred CCccCCHHHHHHHHHHHHHHHHhhCccchhhhhccccc
Q 035343 9 GRKVDDPEVLEAIRLIVINNLLQYHPESSSQLAMGVTF 46 (67)
Q Consensus 9 g~KV~~~e~LE~IRlTIiNNll~yHPEsse~la~G~~f 46 (67)
|.=-.-.|-.+++||| ++|.+.|.|+...--+||..+
T Consensus 277 ~~Y~~~~eF~~DVRL~-F~Ncm~YNp~g~dV~~Ma~~L 313 (640)
T KOG1474|consen 277 GEYKSAEEFAADVRLT-FDNCMTYNPEGSDVYAMAKKL 313 (640)
T ss_pred cccCCHHHHHHHHHHH-HHHHHhcCCCCCHHHHHHHHH
Confidence 3333445678899975 689999999999988888643
No 122
>PF02852 Pyr_redox_dim: Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; InterPro: IPR004099 This entry represents a dimerisation domain that is usually found at the C-terminal of both class I and class II oxidoreductases, as well as in NADH oxidases and peroxidases [, , ].; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0045454 cell redox homeostasis, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 3II4_B 2A8X_A 2BC0_B 2BC1_B 2W0H_A 2X50_B 2JK6_A 2YAU_A 2EQ9_E 2EQ6_B ....
Probab=28.58 E-value=24 Score=21.35 Aligned_cols=16 Identities=25% Similarity=0.505 Sum_probs=13.1
Q ss_pred HHHHHhhCccchhhhh
Q 035343 26 INNLLQYHPESSSQLA 41 (67)
Q Consensus 26 iNNll~yHPEsse~la 41 (67)
+.+++.+||..+|.|.
T Consensus 92 l~~~~~~~Pt~se~~~ 107 (110)
T PF02852_consen 92 LADDIFYHPTFSEAIQ 107 (110)
T ss_dssp HHTSBSSSTSTGHHHH
T ss_pred HhCCeeeCCChhHHHH
Confidence 5567889999999875
No 123
>PLN02347 GMP synthetase
Probab=28.47 E-value=17 Score=29.38 Aligned_cols=9 Identities=67% Similarity=1.184 Sum_probs=7.4
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|||||++.
T Consensus 179 vQFHPE~~~ 187 (536)
T PLN02347 179 LQYHPEVTH 187 (536)
T ss_pred EEccCCCCc
Confidence 799999853
No 124
>TIGR01164 rplP_bact ribosomal protein L16, bacterial/organelle. This model describes bacterial and organellar ribosomal protein L16. The homologous protein of the eukaryotic cytosol is designated L10
Probab=28.35 E-value=62 Score=21.55 Aligned_cols=19 Identities=16% Similarity=0.109 Sum_probs=15.9
Q ss_pred cCCHHHHHHHHHHHHHHHH
Q 035343 12 VDDPEVLEAIRLIVINNLL 30 (67)
Q Consensus 12 V~~~e~LE~IRlTIiNNll 30 (67)
-..++.||+.|.+|..+|-
T Consensus 40 ~i~~~qlEaaR~~i~r~l~ 58 (126)
T TIGR01164 40 WITARQIEAARVAMTRYVK 58 (126)
T ss_pred eEcHHHHHHHHHHHHHHHh
Confidence 3468999999999988884
No 125
>TIGR03800 PLP_synth_Pdx2 pyridoxal 5'-phosphate synthase, glutaminase subunit Pdx2. Pyridoxal 5'-phosphate (PLP) is synthesized by the PdxA/PdxJ pathway in some species (mostly within the gamma subdivision of the proteobacteria) and by the Pdx1/Pdx2 pathway in most other organisms. This family describes Pdx2, the glutaminase subunit of the PLP synthase.
Probab=27.42 E-value=17 Score=24.72 Aligned_cols=9 Identities=33% Similarity=0.752 Sum_probs=7.0
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||.+.
T Consensus 166 vQfHPE~~~ 174 (184)
T TIGR03800 166 SSFHPELTD 174 (184)
T ss_pred EEeCCccCC
Confidence 589999764
No 126
>PF06348 DUF1059: Protein of unknown function (DUF1059); InterPro: IPR009409 This entry consists of short hypothetical archaeal and bacterial proteins of unknown function.
Probab=27.28 E-value=70 Score=18.57 Aligned_cols=17 Identities=29% Similarity=0.264 Sum_probs=13.7
Q ss_pred CCccCCHHHHHHHHHHH
Q 035343 9 GRKVDDPEVLEAIRLIV 25 (67)
Q Consensus 9 g~KV~~~e~LE~IRlTI 25 (67)
|..-..+|+++.||..|
T Consensus 38 g~~~~~~el~~~ir~~I 54 (57)
T PF06348_consen 38 GMTEIPEELREKIRSAI 54 (57)
T ss_pred CCccCCHHHHHHHHHHh
Confidence 55556789999999877
No 127
>PRK13527 glutamine amidotransferase subunit PdxT; Provisional
Probab=26.95 E-value=18 Score=24.32 Aligned_cols=9 Identities=33% Similarity=0.767 Sum_probs=6.5
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||...
T Consensus 177 ~QfHPE~~~ 185 (200)
T PRK13527 177 TAFHPELTD 185 (200)
T ss_pred EEeCCCCCC
Confidence 588999653
No 128
>PRK05007 PII uridylyl-transferase; Provisional
Probab=26.91 E-value=73 Score=27.07 Aligned_cols=31 Identities=16% Similarity=0.240 Sum_probs=24.1
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHHHHHHhhC
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVINNLLQYH 33 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIiNNll~yH 33 (67)
|+|++. .|.++ .+++++.||.+|.+.|-...
T Consensus 746 F~V~d~-~g~~~-~~~~~~~I~~~L~~aL~~~~ 776 (884)
T PRK05007 746 FIVLEP-DGSPL-SQDRHQVIRKALEQALTQSS 776 (884)
T ss_pred EEEECC-CCCCC-CHHHHHHHHHHHHHHHcCCC
Confidence 567775 56778 47899999999999886643
No 129
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=26.82 E-value=73 Score=27.17 Aligned_cols=41 Identities=17% Similarity=0.295 Sum_probs=27.0
Q ss_pred CceeecCCCCccC-CHHHHHHHHHHHHHHHHhhCccchhhhhcc
Q 035343 1 MMLVCSDTGRKVD-DPEVLEAIRLIVINNLLQYHPESSSQLAMG 43 (67)
Q Consensus 1 ~~It~a~Tg~KV~-~~e~LE~IRlTIiNNll~yHPEsse~la~G 43 (67)
|+|++.+ |.++. +++++|.||.+|.+.|-. ..++.+.++.-
T Consensus 749 F~V~d~~-g~~~~~~~~r~~~i~~~L~~~L~~-~~~~~~~~~~~ 790 (895)
T PRK00275 749 YIVLDDD-GEPIGDNPARIEQIREGLTEALRN-PDDYPTIIQRR 790 (895)
T ss_pred EEEeCCC-CCCccchHHHHHHHHHHHHHHHcC-CCccchhhhhh
Confidence 5677765 66754 579999999999776643 33334445443
No 130
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=26.55 E-value=46 Score=27.20 Aligned_cols=32 Identities=38% Similarity=0.603 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHhhCccchhhhhcccccCCCCCcccc
Q 035343 16 EVLEAIRLIVINNLLQYHPESSSQLAMGVTFGVDPPKQQV 55 (67)
Q Consensus 16 e~LE~IRlTIiNNll~yHPEsse~la~G~~fg~~pp~k~v 55 (67)
+++++||-+|=--| .|||-=+. .|++||++++
T Consensus 158 ~Qi~EirE~VELPL--~~PElF~~------~GI~PPKGVL 189 (406)
T COG1222 158 EQIQEIREVVELPL--KNPELFEE------LGIDPPKGVL 189 (406)
T ss_pred HHHHHHHHHhcccc--cCHHHHHH------cCCCCCCceE
Confidence 68899998885444 58987765 5899998765
No 131
>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=26.39 E-value=77 Score=20.06 Aligned_cols=26 Identities=27% Similarity=0.339 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHhhCccchhhh
Q 035343 15 PEVLEAIRLIVINNLLQYHPESSSQL 40 (67)
Q Consensus 15 ~e~LE~IRlTIiNNll~yHPEsse~l 40 (67)
||.|-+.=+.|+++|.+.||.|.-..
T Consensus 1 ~~~l~~~~~~il~~l~~~~~~s~~F~ 26 (108)
T cd05495 1 PEELRQALMPTLEKLYKQDPESLPFR 26 (108)
T ss_pred CHHHHHHHHHHHHHHHHcCcccchhc
Confidence 45566666789999999999886443
No 132
>PRK05665 amidotransferase; Provisional
Probab=26.22 E-value=23 Score=25.31 Aligned_cols=11 Identities=36% Similarity=0.449 Sum_probs=8.7
Q ss_pred HhhCccchhhh
Q 035343 30 LQYHPESSSQL 40 (67)
Q Consensus 30 l~yHPEsse~l 40 (67)
+|+|||.+...
T Consensus 182 ~QfHPE~~~~~ 192 (240)
T PRK05665 182 FQGHPEFVHDY 192 (240)
T ss_pred EecCCcCcHHH
Confidence 68999987654
No 133
>PF02075 RuvC: Crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination []. RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo []. RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices [].; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJR_A.
Probab=26.00 E-value=64 Score=21.43 Aligned_cols=29 Identities=28% Similarity=0.332 Sum_probs=19.4
Q ss_pred CCCccCCHHHHHHHHHHHHHHHHhhCccc
Q 035343 8 TGRKVDDPEVLEAIRLIVINNLLQYHPES 36 (67)
Q Consensus 8 Tg~KV~~~e~LE~IRlTIiNNll~yHPEs 36 (67)
|..|-..++||..|...+-.=+-+|+|+.
T Consensus 33 t~~~~~~~~Rl~~I~~~l~~li~~~~P~~ 61 (149)
T PF02075_consen 33 TSSKDSLPERLKEIYEELEELIEEYNPDE 61 (149)
T ss_dssp ---S--HHHHHHHHHHHHHHHHHHH--SE
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHhhCCCE
Confidence 44555678999999999988888999984
No 134
>PF11842 DUF3362: Domain of unknown function (DUF3362); InterPro: IPR024560 This domain tends to occur to the C terminus of a radical SAM domain (PF04055 from PFAM) in members of the uncharacterised protein family UPF0313. Radical SAM proteins catalyse diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].
Probab=25.99 E-value=40 Score=23.87 Aligned_cols=28 Identities=43% Similarity=0.482 Sum_probs=19.5
Q ss_pred CCCccCCHHHHHHHHHHHHHHHHhhC-ccch
Q 035343 8 TGRKVDDPEVLEAIRLIVINNLLQYH-PESS 37 (67)
Q Consensus 8 Tg~KV~~~e~LE~IRlTIiNNll~yH-PEss 37 (67)
++|+|.-|.-.++=||- .-||+|| ||--
T Consensus 31 ~~e~V~vpk~~~er~lq--kAll~Y~~PeN~ 59 (150)
T PF11842_consen 31 TMEKVYVPKGERERRLQ--KALLRYHDPENW 59 (150)
T ss_pred CCCeeeccCCHHHHHHH--HHHHhhcChhhH
Confidence 48888777666665554 5689998 6643
No 135
>PRK11366 puuD gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional
Probab=25.90 E-value=20 Score=25.61 Aligned_cols=8 Identities=50% Similarity=0.974 Sum_probs=6.7
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|+|||+.
T Consensus 219 VQwHPE~~ 226 (254)
T PRK11366 219 VQWHPEWN 226 (254)
T ss_pred EEeCCCcC
Confidence 79999965
No 136
>COG0118 HisH Glutamine amidotransferase [Amino acid transport and metabolism]
Probab=25.61 E-value=26 Score=25.93 Aligned_cols=11 Identities=45% Similarity=0.809 Sum_probs=8.6
Q ss_pred HhhCccchhhh
Q 035343 30 LQYHPESSSQL 40 (67)
Q Consensus 30 l~yHPEsse~l 40 (67)
.|+|||=|...
T Consensus 181 ~QFHPEKSg~~ 191 (204)
T COG0118 181 TQFHPEKSGKA 191 (204)
T ss_pred EecCcccchHH
Confidence 48999988764
No 137
>PF10588 NADH-G_4Fe-4S_3: NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; InterPro: IPR019574 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This entry describes the G subunit (one of 14 subunits, A to N) of the NADH-quinone oxidoreductase complex I which generally couples NADH and ubiquinone oxidation/reduction in bacteria and mammalian mitochondria while translocating protons, but may act on NADPH and/or plastoquinone in cyanobacteria and plant chloroplasts. This family does not contain related subunits from formate dehydrogenase complexes. This entry represents the iron-sulphur binding domain of the G subunit.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3M9S_C 2FUG_L 3IAS_L 2YBB_3 3IAM_3 3I9V_3.
Probab=25.52 E-value=49 Score=18.11 Aligned_cols=14 Identities=43% Similarity=0.553 Sum_probs=8.8
Q ss_pred HHHHHHHHHhhCcc
Q 035343 22 RLIVINNLLQYHPE 35 (67)
Q Consensus 22 RlTIiNNll~yHPE 35 (67)
|-+++.=||.-||.
T Consensus 1 Rr~~lelll~~H~~ 14 (41)
T PF10588_consen 1 RRTVLELLLANHPL 14 (41)
T ss_dssp -HHHHHHHHTT---
T ss_pred CHHHHHHHHhCCCC
Confidence 67888889999985
No 138
>cd06949 NR_LBD_ER Ligand binding domain of Estrogen receptor, which are activated by the hormone 17beta-estradiol (estrogen). The ligand binding domain (LBD) of Estrogen receptor (ER): Estrogen receptor, a member of nuclear receptor superfamily, is activated by the hormone estrogen. Estrogen regulates many physiological processes including reproduction, bone integrity, cardiovascular health, and behavior. The main mechanism of action of the estrogen receptor is as a transcription factor by binding to the estrogen response element of target genes upon activation by estrogen and then recruiting coactivator proteins which are responsible for the transcription of target genes. Additionally some ERs may associate with other membrane proteins and can be rapidly activated by exposure of cells to estrogen. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ER has a central well conserved DNA binding domain (DBD), a variable N-terminal doma
Probab=25.30 E-value=1.1e+02 Score=21.47 Aligned_cols=21 Identities=5% Similarity=0.154 Sum_probs=19.2
Q ss_pred cCCHHHHHHHHHHHHHHHHhh
Q 035343 12 VDDPEVLEAIRLIVINNLLQY 32 (67)
Q Consensus 12 V~~~e~LE~IRlTIiNNll~y 32 (67)
+.+++.+|++|..+++-|..|
T Consensus 157 l~~~~~Ve~lq~~~~~aL~~y 177 (235)
T cd06949 157 LESRRQVQRLLDKITDALVHA 177 (235)
T ss_pred ccCHHHHHHHHHHHHHHHHHH
Confidence 779999999999999999876
No 139
>PRK14607 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=25.19 E-value=21 Score=28.31 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=6.7
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|+|||+.
T Consensus 166 vQFHPE~~ 173 (534)
T PRK14607 166 VQFHPESI 173 (534)
T ss_pred EEeCCCCC
Confidence 69999974
No 140
>PRK00474 rps9p 30S ribosomal protein S9P; Reviewed
Probab=24.73 E-value=87 Score=21.39 Aligned_cols=29 Identities=14% Similarity=0.138 Sum_probs=24.1
Q ss_pred CHHHHHHHHHHHHHHHHhh--Cccchhhhhc
Q 035343 14 DPEVLEAIRLIVINNLLQY--HPESSSQLAM 42 (67)
Q Consensus 14 ~~e~LE~IRlTIiNNll~y--HPEsse~la~ 42 (67)
-+.+-++||+.|-.-|+.| .||....|-.
T Consensus 72 ~sgQa~Air~aIaraL~~~~~~~~~r~~lk~ 102 (134)
T PRK00474 72 IMGQADAARTAIARGLVEWTGDMELKDAFLA 102 (134)
T ss_pred hhHHHHHHHHHHHHHHHHhccCHHHHHHHHH
Confidence 4678899999999999999 7887776654
No 141
>TIGR03627 arch_S9P archaeal ribosomal protein S9P. This model describes exclusively the archaeal ribosomal protein S9P. Homologous eukaryotic and bacterial ribosomal proteins are excluded from this model.
Probab=24.71 E-value=88 Score=21.26 Aligned_cols=29 Identities=14% Similarity=0.173 Sum_probs=24.2
Q ss_pred CHHHHHHHHHHHHHHHHhh--Cccchhhhhc
Q 035343 14 DPEVLEAIRLIVINNLLQY--HPESSSQLAM 42 (67)
Q Consensus 14 ~~e~LE~IRlTIiNNll~y--HPEsse~la~ 42 (67)
-+.+-++||+.|-.-|+++ .||....|-.
T Consensus 68 ~sgQa~Air~aIaraL~~~~~~~~~r~~lk~ 98 (130)
T TIGR03627 68 IMGQADAARTAIARGLVEFTGDKELRDAFRA 98 (130)
T ss_pred hhHHHHHHHHHHHHHHHHhccCHHHHHHHHH
Confidence 4678899999999999999 7787777654
No 142
>PF08557 Lipid_DES: Sphingolipid Delta4-desaturase (DES); InterPro: IPR013866 Sphingolipids are important membrane signalling molecules involved in many different cellular functions in eukaryotes. Sphingolipid delta 4-desaturase catalyses the formation of (E)-sphing-4-enine []. Some proteins in this entry have bifunctional delta 4-desaturase/C-4-hydroxylase activity. Delta 4-desaturated sphingolipids may play a role in early signalling required for entry into meiotic and spermatid differentiation pathways during Drosophila spermatogenesis []. This small protein associates with FA_desaturase IPR005804 from INTERPRO and appears to be specific to sphingolipid delta 4-desaturase. ; GO: 0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 0006633 fatty acid biosynthetic process, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=24.63 E-value=31 Score=19.70 Aligned_cols=12 Identities=33% Similarity=0.587 Sum_probs=9.3
Q ss_pred HHHhhCccchhh
Q 035343 28 NLLQYHPESSSQ 39 (67)
Q Consensus 28 Nll~yHPEsse~ 39 (67)
-||+.|||..+-
T Consensus 21 ~IL~k~PeIk~L 32 (39)
T PF08557_consen 21 EILKKHPEIKKL 32 (39)
T ss_pred HHHHhChHHHHH
Confidence 368999998764
No 143
>PRK00074 guaA GMP synthase; Reviewed
Probab=24.63 E-value=22 Score=28.12 Aligned_cols=9 Identities=44% Similarity=1.003 Sum_probs=7.5
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||++.
T Consensus 166 vQFHPE~~~ 174 (511)
T PRK00074 166 VQFHPEVTH 174 (511)
T ss_pred EeCCCCcCC
Confidence 699999874
No 144
>PRK07860 NADH dehydrogenase subunit G; Validated
Probab=24.37 E-value=72 Score=26.53 Aligned_cols=32 Identities=25% Similarity=0.253 Sum_probs=25.4
Q ss_pred ecCCCCccCC---HHHHHHHHHHHHHHHHhhCccc
Q 035343 5 CSDTGRKVDD---PEVLEAIRLIVINNLLQYHPES 36 (67)
Q Consensus 5 ~a~Tg~KV~~---~e~LE~IRlTIiNNll~yHPEs 36 (67)
...-|=+|.. ++++++.|..++.=||.-||-.
T Consensus 68 ~v~~gm~V~t~~~s~~v~~~r~~~le~ll~~hp~d 102 (797)
T PRK07860 68 TVTDGMVVKTQLTSPVADKAQHGVMELLLINHPLD 102 (797)
T ss_pred CCCCCcEEEeCCCCHHHHHHHHHHHHHHHhcCCCC
Confidence 3344555553 8999999999999999999963
No 145
>PF15237 PTRF_SDPR: PTRF/SDPR family
Probab=24.14 E-value=50 Score=25.32 Aligned_cols=16 Identities=38% Similarity=0.528 Sum_probs=14.7
Q ss_pred CCCccCCHHHHHHHHH
Q 035343 8 TGRKVDDPEVLEAIRL 23 (67)
Q Consensus 8 Tg~KV~~~e~LE~IRl 23 (67)
.|.||+.||++|.||.
T Consensus 206 ~gTriV~pERREKir~ 221 (246)
T PF15237_consen 206 LGTRIVTPERREKIRQ 221 (246)
T ss_pred cCCCcCChHHhhhHhh
Confidence 5889999999999997
No 146
>cd06942 NR_LBD_Sex_1_like The ligand binding domain of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein. The ligand binding domain (LBD) of Caenorhabditis elegans nuclear hormone receptor Sex-1 protein like: Sex-1 protein of C. elegans is a transcription factor belonging to the nuclear receptor superfamily. Sex-1 plays pivotal role in sex fate of C. elegans by regulating the transcription of the sex-determination gene xol-1, which specifies male (XO) fate when active and hermaphrodite (XX) fate when inactive. The Sex-1 protein directly represses xol-1 transcription by binding to its promoter. However, the active ligand for Sex-1 protein has not yet been identified. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Sex-1 like receptors have a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserved hinge and a C-terminal ligand binding domain (LBD).
Probab=23.99 E-value=1.4e+02 Score=19.95 Aligned_cols=31 Identities=6% Similarity=0.097 Sum_probs=24.8
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
.-+.++...|++.-.+...|.+| ||.+...+
T Consensus 120 ~~l~~~~~v~~~q~~l~~~L~~~~~~~~~~~~~rf 154 (191)
T cd06942 120 IQLEETAKSNLQLSVLFQFLKSVLFKDGEDTEQRL 154 (191)
T ss_pred CCccchHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence 44678889999999999999888 88876544
No 147
>COG0518 GuaA GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]
Probab=23.97 E-value=19 Score=25.33 Aligned_cols=9 Identities=44% Similarity=1.003 Sum_probs=7.9
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||...
T Consensus 171 vQFHpEv~~ 179 (198)
T COG0518 171 VQFHPEVTH 179 (198)
T ss_pred EeeeeEEeH
Confidence 799999876
No 148
>PLN02617 imidazole glycerol phosphate synthase hisHF
Probab=23.83 E-value=23 Score=28.73 Aligned_cols=8 Identities=63% Similarity=1.211 Sum_probs=7.0
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|+|||.+
T Consensus 188 VQFHPE~s 195 (538)
T PLN02617 188 VQFHPEKS 195 (538)
T ss_pred EEcCCccC
Confidence 59999986
No 149
>PF09409 PUB: PUB domain; InterPro: IPR018997 The PUB (also known as PUG) domain is found in peptide N-glycanase where it functions as a AAA ATPase binding domain []. This domain is also found on other proteins linked to the ubiquitin-proteasome system. ; PDB: 2CM0_A 2CCQ_A 2D5U_A 2HPL_A 2HPJ_A.
Probab=23.77 E-value=1.1e+02 Score=18.26 Aligned_cols=19 Identities=26% Similarity=0.651 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHhhCccchh
Q 035343 18 LEAIRLIVINNLLQYHPESSS 38 (67)
Q Consensus 18 LE~IRlTIiNNll~yHPEsse 38 (67)
++.++ +|++|++. ||+-..
T Consensus 10 l~~L~-~il~NI~~-~P~~~k 28 (87)
T PF09409_consen 10 LETLE-KILSNILS-NPNEEK 28 (87)
T ss_dssp HHHHH-HHHHHHHH-STT-CG
T ss_pred HHHHH-HHHHHHcc-CCCccc
Confidence 44444 78899887 676543
No 150
>TIGR01737 FGAM_synth_I phosphoribosylformylglycinamidine synthase I. In some species, phosphoribosylformylglycinamidine synthase is composed of a single polypeptide chain. This model describes the PurQ protein of Bacillus subtilis (where PurL, PurQ, and PurS are required for phosphoribosylformylglycinamidine synthase activity) and functionally equivalent proteins from other bacteria and archaea.
Probab=23.64 E-value=23 Score=24.69 Aligned_cols=9 Identities=44% Similarity=0.704 Sum_probs=7.4
Q ss_pred HhhCccchh
Q 035343 30 LQYHPESSS 38 (67)
Q Consensus 30 l~yHPEsse 38 (67)
+|+|||+.-
T Consensus 199 ~~~HpE~~~ 207 (227)
T TIGR01737 199 MMPHPERAS 207 (227)
T ss_pred EecCchhhc
Confidence 689999974
No 151
>PTZ00100 DnaJ chaperone protein; Provisional
Probab=23.41 E-value=70 Score=21.54 Aligned_cols=22 Identities=27% Similarity=0.347 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHhhCccc
Q 035343 15 PEVLEAIRLIVINNLLQYHPES 36 (67)
Q Consensus 15 ~e~LE~IRlTIiNNll~yHPEs 36 (67)
....++||..-=.=++++||.-
T Consensus 76 ~As~~eIkkaYRrLa~~~HPDk 97 (116)
T PTZ00100 76 TASKERIREAHKQLMLRNHPDN 97 (116)
T ss_pred CCCHHHHHHHHHHHHHHhCCCC
Confidence 3456888888778889999985
No 152
>cd06946 NR_LBD_ERR The ligand binding domain of estrogen receptor-related nuclear receptors. The ligand binding domain of estrogen receptor-related receptors (ERRs): The family of estrogen receptor-related receptors (ERRs), a subfamily of nuclear receptors, is closely related to the estrogen receptor (ER) family, but it lacks the ability to bind estrogen. ERRs can interfere with the classic ER-mediated estrogen signaling pathway, positively or negatively. ERRs share target genes, co-regulators and promoters with the estrogen receptor (ER) family. There are three subtypes of ERRs: alpha, beta and gamma. ERRs bind at least two types of DNA sequence, the estrogen response element and another site, originally characterized as SF-1 (steroidogenic factor 1) response element. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ERR has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-
Probab=23.32 E-value=1.5e+02 Score=20.23 Aligned_cols=22 Identities=23% Similarity=0.508 Sum_probs=18.8
Q ss_pred ccCCHHHHHHHHHHHHHHHHhh
Q 035343 11 KVDDPEVLEAIRLIVINNLLQY 32 (67)
Q Consensus 11 KV~~~e~LE~IRlTIiNNll~y 32 (67)
-+.+.+.+|++|..+++-|.+|
T Consensus 145 ~l~~~~~v~~~q~~~~~aL~~y 166 (221)
T cd06946 145 HIEDVEAVRQLRDALLEALSDY 166 (221)
T ss_pred CCCCHHHHHHHHHHHHHHHHHH
Confidence 3467789999999999999886
No 153
>PF01011 PQQ: PQQ enzyme repeat family.; InterPro: IPR002372 Pyrrolo-quinoline quinone (PQQ) is a redox coenzyme, which serves as a cofactor for a number of enzymes (quinoproteins) and particularly for some bacterial dehydrogenases [, ]. A number of bacterial quinoproteins belong to this family. Enzymes in this group have repeats of a beta propeller.; PDB: 1H4I_C 1H4J_E 1W6S_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A 1G72_A ....
Probab=23.15 E-value=36 Score=17.49 Aligned_cols=11 Identities=18% Similarity=0.326 Sum_probs=7.8
Q ss_pred ceeecCCCCcc
Q 035343 2 MLVCSDTGRKV 12 (67)
Q Consensus 2 ~It~a~Tg~KV 12 (67)
|-.|++||+.+
T Consensus 13 ~AlD~~TG~~~ 23 (38)
T PF01011_consen 13 YALDAKTGKVL 23 (38)
T ss_dssp EEEETTTTSEE
T ss_pred EEEECCCCCEE
Confidence 45688888764
No 154
>PRK03381 PII uridylyl-transferase; Provisional
Probab=23.12 E-value=61 Score=27.08 Aligned_cols=23 Identities=17% Similarity=0.319 Sum_probs=17.6
Q ss_pred CceeecCCCCccCCHHHHHHHHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLEAIRLIVI 26 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE~IRlTIi 26 (67)
|||++. .|.+++++ +++||..++
T Consensus 751 F~V~d~-~g~~~~~~--~~~l~~~L~ 773 (774)
T PRK03381 751 FYVTGA-AGGPLADA--RAAVEQAVL 773 (774)
T ss_pred EEEECC-CCCcCchH--HHHHHHHhh
Confidence 678764 57799886 899988765
No 155
>PF09365 DUF2461: Conserved hypothetical protein (DUF2461); InterPro: IPR012808 Members of this family are widely (though sparsely) distributed bacterial proteins, about 230 residues in length and in fungal proteins, which are around 400 residues in length. All members have a motif RxxRDxRFxxx[DN]KxxY. The function of this protein family is unknown.
Probab=22.81 E-value=70 Score=22.68 Aligned_cols=17 Identities=29% Similarity=0.306 Sum_probs=14.4
Q ss_pred CCHHHHHHHHHHHHHHH
Q 035343 13 DDPEVLEAIRLIVINNL 29 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNl 29 (67)
-.++.|..||..|.+|-
T Consensus 116 p~~~~L~~iR~~I~~~~ 132 (212)
T PF09365_consen 116 PEKEQLKRIRQEIDDNP 132 (212)
T ss_pred CCHHHHHHHHHHHHhCh
Confidence 36899999999998874
No 156
>cd01917 ACS_2 Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH) consisting of two ACS and two CODH subunits. CODH reduces carbon dioxide to carbon monoxide and ACS then synthesizes acetyl-CoA from carbon monoxide, CoA, and a methyl group donated by another protein (CoFeSP). ACS has three structural domains, an N-terminal rossman fold domain with a helical region at its N-terminus which interacts with CODH, and two alpha + beta fold domains. A Ni-Fe-S center referred to as the A-cluster is located in the C-terminal domain. A large cavity exists between the three domains which may bind CoA.
Probab=22.57 E-value=77 Score=24.74 Aligned_cols=42 Identities=14% Similarity=0.121 Sum_probs=31.7
Q ss_pred eeecCCCCccCCHHHHHHHHHHHHHHHHhhCccchhhhhcccc
Q 035343 3 LVCSDTGRKVDDPEVLEAIRLIVINNLLQYHPESSSQLAMGVT 45 (67)
Q Consensus 3 It~a~Tg~KV~~~e~LE~IRlTIiNNll~yHPEsse~la~G~~ 45 (67)
|.-+-||.||++-..|+.+ +..+.+|+.-||.....|-.|.+
T Consensus 41 viy~~tG~kv~~l~dl~~~-l~~~r~~~~~~~~l~~al~aG~a 82 (287)
T cd01917 41 VIRCLSGEKVETLGDLKPL-LNRLRAQVEEVLTFENARLAGEA 82 (287)
T ss_pred eeeeecCceeeeHHHHHHH-HHHHHHhcCcccchhHHHHhhHH
Confidence 4567899999998888886 45567778888877777666654
No 157
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=22.52 E-value=1.1e+02 Score=19.21 Aligned_cols=21 Identities=33% Similarity=0.722 Sum_probs=19.3
Q ss_pred CHHHHHHHHHHHHHHHHhhCc
Q 035343 14 DPEVLEAIRLIVINNLLQYHP 34 (67)
Q Consensus 14 ~~e~LE~IRlTIiNNll~yHP 34 (67)
+++.|+.+=..+|.|-++|.|
T Consensus 225 ~~~~l~~vl~nLi~NAi~~~~ 245 (336)
T COG0642 225 DPERLRQVLVNLLSNAIKYTP 245 (336)
T ss_pred CHHHHHHHHHHHHHHHhccCC
Confidence 478999999999999999998
No 158
>cd07348 NR_LBD_NGFI-B The ligand binding domain of Nurr1, a member of conserved family of nuclear receptors. The ligand binding domain of Nerve growth factor-induced-B (NGFI-B): NGFI-B is a member of the nuclear#steroid receptor superfamily. NGFI-B is classified as an orphan receptor because no ligand has yet been identified. NGFI-B is an early immediate gene product of the embryo development that is rapidly produced in response to a variety of cellular signals including nerve growth factor. It is involved in T-cell-mediated apoptosis, as well as neuronal differentiation and function. NGFI-B regulates transcription by binding to a specific DNA target upstream of its target genes and regulating the rate of transcriptional initiation. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, NGFI-B has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LB
Probab=22.33 E-value=1.4e+02 Score=21.41 Aligned_cols=23 Identities=17% Similarity=0.319 Sum_probs=19.9
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY 32 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y 32 (67)
.-+.+++..|++|-.+++-|-.|
T Consensus 156 ~gL~~~~~Ve~lQe~~~~aL~~y 178 (238)
T cd07348 156 HGLKEPKRVEELQNRLISCLKEH 178 (238)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHH
Confidence 35789999999999999888766
No 159
>PF01415 IL7: Interleukin 7/9 family; InterPro: IPR000226 Interleukin-7 (IL-7) [] is a cytokine that serves as a growth factor for early lymphoid cells of both B- and T-cell lineages. Interleukin-9 (IL-9) [] is a cytokine that supports IL-2 independent and IL-4 independent growth of helper T-cells. Interleukin-7 and -9 seems to be evolutionary related [].; GO: 0005126 cytokine receptor binding, 0008083 growth factor activity, 0006955 immune response, 0005576 extracellular region; PDB: 3DI2_C 3DI3_A.
Probab=22.10 E-value=74 Score=22.39 Aligned_cols=23 Identities=30% Similarity=0.507 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHhhCccchhh
Q 035343 16 EVLEAIRLIVINNLLQYHPESSSQ 39 (67)
Q Consensus 16 e~LE~IRlTIiNNll~yHPEsse~ 39 (67)
...+.||+.-|+|| +.+|++...
T Consensus 8 ~ty~gIl~vsId~L-~~~~~~~~n 30 (129)
T PF01415_consen 8 STYQGILMVSIDNL-DKMPESKCN 30 (129)
T ss_dssp HHHHHTHHHHHHHH-HTTSSS-TT
T ss_pred ccccceeeeeHHHh-hcCcccCCc
Confidence 45788999999999 999998654
No 160
>PF14098 SSPI: Small, acid-soluble spore protein I
Probab=21.84 E-value=48 Score=20.75 Aligned_cols=16 Identities=25% Similarity=0.345 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHhhCcc
Q 035343 20 AIRLIVINNLLQYHPE 35 (67)
Q Consensus 20 ~IRlTIiNNll~yHPE 35 (67)
+||..||.|+=-..+|
T Consensus 2 dlR~AI~~nv~g~s~~ 17 (65)
T PF14098_consen 2 DLRQAIIHNVKGSSKE 17 (65)
T ss_pred CHHHHHHHHccCCCHH
Confidence 4899999998554443
No 161
>cd07349 NR_LBD_SHP The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of the Small Heterodimer Partner (SHP): SHP is a member of the nuclear receptor superfamily. SHP has a ligand binding domain, but lacks the DNA binding domain, typical to almost all of the nuclear receptors. It functions as a transcriptional coregulator by directly interacting with other nuclear receptors through its AF-2 motif. The closest relative of SHP is DAX1 and they can form heterodimer. SHP is an orphan receptor, lacking an identified ligand.
Probab=21.70 E-value=1.5e+02 Score=20.90 Aligned_cols=31 Identities=10% Similarity=0.170 Sum_probs=24.2
Q ss_pred CccCCHHHHHHHHHHHHHHHHhh----Cccchhhh
Q 035343 10 RKVDDPEVLEAIRLIVINNLLQY----HPESSSQL 40 (67)
Q Consensus 10 ~KV~~~e~LE~IRlTIiNNll~y----HPEsse~l 40 (67)
.-+.+++.+|.+|-.+++-|-.| ||.....+
T Consensus 148 ~gl~~~~~V~~lqe~~~~aL~~~~~~~~p~~~~r~ 182 (222)
T cd07349 148 PGLTASSHVGHLQQEAQWALCEVLEPLHPQDQGRF 182 (222)
T ss_pred ccCCCHHHHHHHHHHHHHHHHHHHHHHCCCcccHH
Confidence 34788999999999999888765 77765543
No 162
>KOG3009 consensus Predicted carbohydrate kinase, contains PfkB domain [General function prediction only]
Probab=21.64 E-value=28 Score=29.79 Aligned_cols=20 Identities=35% Similarity=0.476 Sum_probs=17.7
Q ss_pred HHHHhhCccchhhhhccccc
Q 035343 27 NNLLQYHPESSSQLAMGVTF 46 (67)
Q Consensus 27 NNll~yHPEsse~la~G~~f 46 (67)
..+|+.|||.+|+|+.|++-
T Consensus 23 rs~l~ispqv~eal~~~epV 42 (614)
T KOG3009|consen 23 RSLLQISPQVKEALANGEPV 42 (614)
T ss_pred ccceecCHHHHHHHhcCCCE
Confidence 38999999999999999863
No 163
>PF11943 DUF3460: Protein of unknown function (DUF3460); InterPro: IPR021853 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 70 amino acids in length. This protein has a conserved WDK sequence motif.
Probab=21.60 E-value=56 Score=20.16 Aligned_cols=21 Identities=29% Similarity=0.422 Sum_probs=16.3
Q ss_pred HHHHHHhhCccchhhhhcccc
Q 035343 25 VINNLLQYHPESSSQLAMGVT 45 (67)
Q Consensus 25 IiNNll~yHPEsse~la~G~~ 45 (67)
-||-|++.|||.-++=..|.+
T Consensus 10 Fl~~lk~~~Pele~~Q~~GRa 30 (60)
T PF11943_consen 10 FLNQLKAKHPELEEEQRAGRA 30 (60)
T ss_pred HHHHHHHhCCchHHHHHHhhH
Confidence 589999999998776555544
No 164
>PF07879 PHB_acc_N: PHB/PHA accumulation regulator DNA-binding domain; InterPro: IPR012909 This domain is found at the N terminus of the polyhydroxyalkanoate (PHA) synthesis regulators. These regulators have been shown to directly bind DNA and PHA []. The invariant nature of this domain compared to the C-terminal IPR007897 from INTERPRO domain(s) suggests that it contains the DNA-binding function.
Probab=21.48 E-value=58 Score=20.43 Aligned_cols=19 Identities=21% Similarity=0.384 Sum_probs=14.6
Q ss_pred CceeecCCCCccCCHHHHH
Q 035343 1 MMLVCSDTGRKVDDPEVLE 19 (67)
Q Consensus 1 ~~It~a~Tg~KV~~~e~LE 19 (67)
|-|.|+.||+-|+.+=++.
T Consensus 35 ~~V~D~ktgeDiT~~iL~Q 53 (64)
T PF07879_consen 35 FKVVDAKTGEDITRSILLQ 53 (64)
T ss_pred EEEEECCCCcccHHHHHHH
Confidence 4588999999998765543
No 165
>PRK13566 anthranilate synthase; Provisional
Probab=21.12 E-value=28 Score=29.20 Aligned_cols=8 Identities=63% Similarity=1.132 Sum_probs=6.6
Q ss_pred HhhCccch
Q 035343 30 LQYHPESS 37 (67)
Q Consensus 30 l~yHPEss 37 (67)
+|||||+-
T Consensus 692 VQFHPE~i 699 (720)
T PRK13566 692 VQFHPESI 699 (720)
T ss_pred EeccCeeC
Confidence 68999983
No 166
>PRK12814 putative NADPH-dependent glutamate synthase small subunit; Provisional
Probab=21.04 E-value=96 Score=24.98 Aligned_cols=24 Identities=21% Similarity=0.310 Sum_probs=21.2
Q ss_pred CCHHHHHHHHHHHHHHHHhhCccc
Q 035343 13 DDPEVLEAIRLIVINNLLQYHPES 36 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~yHPEs 36 (67)
++++.|+++|.+++.-||..|+-.
T Consensus 76 t~~~~~~~~r~~~le~l~~~~c~~ 99 (652)
T PRK12814 76 TENAELHAMRRQSLERLIEQHCGD 99 (652)
T ss_pred eCcHHHHHHHHHHHHHHHhhcccc
Confidence 478899999999999999999754
No 167
>TIGR01815 TrpE-clade3 anthranilate synthase, alpha proteobacterial clade. This model represents a small clade of anthranilate synthases from alpha proteobacteria and Nostoc (a cyanobacterium). This enzyme is the first step in the pathway for the biosynthesis of tryprophan from chorismate.
Probab=21.02 E-value=28 Score=29.30 Aligned_cols=8 Identities=63% Similarity=1.157 Sum_probs=6.8
Q ss_pred HHhhCccc
Q 035343 29 LLQYHPES 36 (67)
Q Consensus 29 ll~yHPEs 36 (67)
=+|+|||+
T Consensus 681 GVQFHPEs 688 (717)
T TIGR01815 681 AVQFHPES 688 (717)
T ss_pred EEEeCCee
Confidence 37999998
No 168
>PRK07567 glutamine amidotransferase; Provisional
Probab=20.85 E-value=31 Score=24.45 Aligned_cols=11 Identities=36% Similarity=0.597 Sum_probs=8.9
Q ss_pred HhhCccchhhh
Q 035343 30 LQYHPESSSQL 40 (67)
Q Consensus 30 l~yHPEsse~l 40 (67)
+|+|||.....
T Consensus 186 vQfHPE~~~~~ 196 (242)
T PRK07567 186 TQFHPELDADG 196 (242)
T ss_pred EEeCCcCCHHH
Confidence 79999987654
No 169
>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=20.83 E-value=1.5e+02 Score=15.54 Aligned_cols=19 Identities=26% Similarity=0.387 Sum_probs=12.9
Q ss_pred CCCCccCCHHHHHHHHHHHH
Q 035343 7 DTGRKVDDPEVLEAIRLIVI 26 (67)
Q Consensus 7 ~Tg~KV~~~e~LE~IRlTIi 26 (67)
.+|.. .++++.+.||..+-
T Consensus 49 ~~~~~-~~~~~~~~l~~~l~ 67 (70)
T cd04873 49 SDGRP-LDPERIARLEEALE 67 (70)
T ss_pred CCCCc-CCHHHHHHHHHHHH
Confidence 34444 56689999888773
No 170
>PRK09130 NADH dehydrogenase subunit G; Validated
Probab=20.71 E-value=94 Score=25.63 Aligned_cols=23 Identities=26% Similarity=0.317 Sum_probs=21.8
Q ss_pred CCHHHHHHHHHHHHHHHHhhCcc
Q 035343 13 DDPEVLEAIRLIVINNLLQYHPE 35 (67)
Q Consensus 13 ~~~e~LE~IRlTIiNNll~yHPE 35 (67)
++++++.+.|..++.=||.-||.
T Consensus 75 T~s~~v~~~r~~~le~ll~~Hp~ 97 (687)
T PRK09130 75 TNTPMVKKAREGVMEFLLINHPL 97 (687)
T ss_pred eCCHHHHHHHHHHHHHHHhcCCC
Confidence 58999999999999999999997
No 171
>smart00830 CM_2 Chorismate mutase type II. Chorismate mutase, catalyses the conversion of chorismate to prephenate in the pathway of tyrosine and phenylalanine biosynthesis. This enzyme is negatively regulated by tyrosine, tryptophan and phenylalanine PUBMED:9642265, PUBMED:9497350.
Probab=20.67 E-value=1e+02 Score=17.45 Aligned_cols=28 Identities=14% Similarity=-0.002 Sum_probs=20.4
Q ss_pred cCCCCccCCHHHHHHHHHHHHHHHHhhC
Q 035343 6 SDTGRKVDDPEVLEAIRLIVINNLLQYH 33 (67)
Q Consensus 6 a~Tg~KV~~~e~LE~IRlTIiNNll~yH 33 (67)
..+|..|.||++-++|.-.+.+..-+++
T Consensus 30 ~~~~~~i~d~~Re~~vl~~~~~~a~~~~ 57 (79)
T smart00830 30 AKNGLPIYDPEREAEVLERLRALAEGPG 57 (79)
T ss_pred HHCCCCCCChHHHHHHHHHHHHHcccCC
Confidence 3568889999998888777766555443
No 172
>PHA02749 hypothetical protein; Provisional
Probab=20.12 E-value=43 Score=26.53 Aligned_cols=15 Identities=40% Similarity=0.589 Sum_probs=11.6
Q ss_pred HHHHHHhhCccchhh
Q 035343 25 VINNLLQYHPESSSQ 39 (67)
Q Consensus 25 IiNNll~yHPEsse~ 39 (67)
+=-|++.||||.+.-
T Consensus 132 l~lnila~~pei~a~ 146 (322)
T PHA02749 132 LGLNILAWHPEISAG 146 (322)
T ss_pred hhhHHHHhchhhhcc
Confidence 335999999998753
No 173
>cd07071 NR_LBD_Nurr1 The ligand binding domain of Nurr1, a member of conserved family of nuclear receptors. The ligand binding domain of nuclear receptor Nurr1: Nurr1 belongs to the conserved family of nuclear receptors. It is a transcription factor that is expressed in the embryonic ventral midbrain and is critical for the development of dopamine (DA) neurons. Structural studies have shown that the ligand binding pocket of Nurr1 is filled by bulky hydrophobic residues, making it unable to bind to ligands. Therefore, it belongs to the class of orphan receptors. However, Nurr1 forms heterodimers with RXR and can promote signaling via its partner, RXR. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, Nurr1 has a central well conserved DNA binding domain (DBD), a variable N-terminal domain, a flexible hinge and a C-terminal ligand binding domain (LBD).
Probab=20.09 E-value=1.7e+02 Score=20.92 Aligned_cols=24 Identities=17% Similarity=0.331 Sum_probs=21.2
Q ss_pred CCccCCHHHHHHHHHHHHHHHHhh
Q 035343 9 GRKVDDPEVLEAIRLIVINNLLQY 32 (67)
Q Consensus 9 g~KV~~~e~LE~IRlTIiNNll~y 32 (67)
...+.+++..|++|-.|.+-|-.|
T Consensus 155 ~~gL~~~~~Ve~lQe~~~~aL~~y 178 (238)
T cd07071 155 RHGLKEPKRVEELQNKIVNCLKDH 178 (238)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHH
Confidence 356899999999999999998877
No 174
>CHL00044 rpl16 ribosomal protein L16
Probab=20.09 E-value=1.1e+02 Score=20.79 Aligned_cols=20 Identities=15% Similarity=-0.024 Sum_probs=16.7
Q ss_pred cCCHHHHHHHHHHHHHHHHh
Q 035343 12 VDDPEVLEAIRLIVINNLLQ 31 (67)
Q Consensus 12 V~~~e~LE~IRlTIiNNll~ 31 (67)
-.....||++|.+|..+|-.
T Consensus 41 ~i~~~qiEaaR~~i~r~lkk 60 (135)
T CHL00044 41 WITSRQIEAGRRAITRYARR 60 (135)
T ss_pred EECHHHHHHHHHHHHHhhhc
Confidence 45688999999999998853
Done!