Query psy7149
Match_columns 167
No_of_seqs 240 out of 1577
Neff 8.5
Searched_HMMs 46136
Date Fri Aug 16 19:26:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7149.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7149hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1113|consensus 99.8 7E-20 1.5E-24 145.7 8.6 118 47-166 111-228 (368)
2 PRK09392 ftrB transcriptional 99.8 1.9E-18 4.2E-23 133.6 11.9 109 56-166 5-117 (236)
3 KOG0614|consensus 99.8 3E-19 6.6E-24 148.5 5.2 130 31-166 249-385 (732)
4 KOG0614|consensus 99.7 2.7E-18 6E-23 142.9 5.3 122 43-166 139-260 (732)
5 PLN03192 Voltage-dependent pot 99.7 8.2E-17 1.8E-21 144.3 11.7 108 57-166 373-484 (823)
6 cd00038 CAP_ED effector domain 99.7 2.1E-16 4.5E-21 107.1 10.9 101 65-167 1-106 (115)
7 PLN02868 acyl-CoA thioesterase 99.7 5.2E-16 1.1E-20 129.5 14.1 108 54-165 4-115 (413)
8 KOG3542|consensus 99.7 1.7E-16 3.7E-21 135.2 9.4 139 28-166 251-389 (1283)
9 KOG0498|consensus 99.7 6.8E-17 1.5E-21 140.7 7.2 109 57-167 418-532 (727)
10 PRK11753 DNA-binding transcrip 99.7 1.3E-15 2.9E-20 115.5 12.9 98 67-166 6-109 (211)
11 COG0664 Crp cAMP-binding prote 99.7 1E-15 2.3E-20 115.0 11.0 105 61-167 3-112 (214)
12 smart00100 cNMP Cyclic nucleot 99.6 4.2E-15 9.1E-20 101.0 11.4 100 65-166 1-107 (120)
13 PF00027 cNMP_binding: Cyclic 99.6 1.2E-15 2.6E-20 100.2 8.2 82 84-167 2-88 (91)
14 COG2905 Predicted signal-trans 99.6 1.8E-15 3.9E-20 127.0 9.2 111 55-167 4-115 (610)
15 KOG1113|consensus 99.6 2.8E-16 6E-21 125.3 3.9 127 34-166 220-347 (368)
16 PRK10402 DNA-binding transcrip 99.6 2.3E-14 5E-19 110.4 12.0 106 55-166 9-119 (226)
17 PRK11161 fumarate/nitrate redu 99.6 1.9E-14 4E-19 111.1 11.4 104 60-166 15-124 (235)
18 KOG0500|consensus 99.5 1.3E-13 2.7E-18 114.2 11.8 112 53-166 302-421 (536)
19 TIGR03697 NtcA_cyano global ni 99.4 1.3E-12 2.8E-17 97.7 9.3 76 90-166 1-83 (193)
20 PRK13918 CRP/FNR family transc 99.4 1.7E-12 3.7E-17 97.8 9.5 78 81-161 6-90 (202)
21 PRK09391 fixK transcriptional 99.4 3.5E-12 7.6E-17 98.6 10.7 86 76-166 33-123 (230)
22 KOG0499|consensus 99.4 1.5E-12 3.2E-17 110.0 8.8 109 56-166 525-639 (815)
23 KOG0501|consensus 99.0 3.1E-10 6.6E-15 96.3 4.0 108 57-166 547-656 (971)
24 KOG2968|consensus 98.7 1.9E-08 4.1E-13 88.9 4.7 96 67-165 495-595 (1158)
25 KOG3542|consensus 98.5 2.8E-07 6.1E-12 79.7 7.2 109 39-157 18-126 (1283)
26 PF04831 Popeye: Popeye protei 98.2 5.1E-05 1.1E-09 54.7 11.3 97 68-166 14-117 (153)
27 PRK11832 putative DNA-binding 98.1 5.8E-05 1.3E-09 57.4 11.0 91 75-167 16-108 (207)
28 KOG2968|consensus 98.1 2.2E-05 4.7E-10 70.1 8.6 97 64-167 374-481 (1158)
29 PF07883 Cupin_2: Cupin domain 96.3 0.05 1.1E-06 33.4 8.0 67 84-156 3-70 (71)
30 PRK13290 ectC L-ectoine syntha 94.1 0.51 1.1E-05 33.1 8.0 66 84-156 40-106 (125)
31 PF05899 Cupin_3: Protein of u 93.8 0.18 3.8E-06 32.0 4.7 40 88-129 15-54 (74)
32 COG1917 Uncharacterized conser 90.8 0.82 1.8E-05 31.8 5.5 49 83-133 47-96 (131)
33 smart00835 Cupin_1 Cupin. This 88.7 3.3 7.1E-05 29.4 7.4 66 88-157 38-109 (146)
34 PRK09943 DNA-binding transcrip 87.0 4.3 9.4E-05 30.0 7.4 53 99-156 127-179 (185)
35 TIGR03037 anthran_nbaC 3-hydro 86.9 2.7 5.9E-05 30.8 6.0 58 94-159 43-104 (159)
36 PRK11171 hypothetical protein; 86.4 7.2 0.00016 30.8 8.7 68 84-157 66-135 (266)
37 COG0745 OmpR Response regulato 86.4 0.16 3.4E-06 39.4 -0.8 20 3-22 89-108 (229)
38 TIGR03214 ura-cupin putative a 85.2 5.3 0.00012 31.5 7.4 53 101-158 81-133 (260)
39 PRK13264 3-hydroxyanthranilate 83.9 4.1 9E-05 30.4 5.8 55 98-159 52-110 (177)
40 COG0662 {ManC} Mannose-6-phosp 82.7 6.5 0.00014 27.3 6.3 44 84-129 41-85 (127)
41 COG3450 Predicted enzyme of th 77.8 5.5 0.00012 27.6 4.4 30 101-130 64-93 (116)
42 TIGR02451 anti_sig_ChrR anti-s 76.5 9.3 0.0002 29.3 5.8 68 81-158 129-196 (215)
43 COG3718 IolB Uncharacterized e 76.1 14 0.00029 29.0 6.5 65 84-155 34-107 (270)
44 PF02084 Bindin: Bindin; Inte 75.2 2 4.4E-05 33.1 1.8 78 8-86 85-165 (238)
45 PF12973 Cupin_7: ChrR Cupin-l 74.4 16 0.00035 23.6 5.9 64 80-155 25-88 (91)
46 TIGR03404 bicupin_oxalic bicup 74.4 34 0.00074 28.5 9.0 67 84-156 250-322 (367)
47 TIGR01479 GMP_PMI mannose-1-ph 74.1 26 0.00055 30.1 8.5 65 88-157 384-449 (468)
48 COG3837 Uncharacterized conser 72.4 14 0.00031 27.0 5.5 50 83-134 46-97 (161)
49 PF10330 Stb3: Putative Sin3 b 72.0 6.3 0.00014 26.0 3.3 42 53-95 23-65 (92)
50 PRK11171 hypothetical protein; 71.1 47 0.001 26.2 8.8 71 80-156 185-256 (266)
51 PF11699 CENP-C_C: Mif2/CENP-C 70.0 12 0.00026 24.4 4.4 29 100-129 33-61 (85)
52 PRK15460 cpsB mannose-1-phosph 67.8 43 0.00093 29.0 8.4 65 88-157 393-458 (478)
53 COG4566 TtrR Response regulato 67.2 1.4 3E-05 33.4 -0.6 23 3-25 93-115 (202)
54 COG4753 Response regulator con 66.7 0.56 1.2E-05 40.2 -3.1 24 2-25 92-115 (475)
55 PF04962 KduI: KduI/IolB famil 63.9 23 0.00049 28.1 5.6 72 84-157 32-106 (261)
56 COG4101 Predicted mannose-6-ph 59.5 29 0.00063 24.3 4.8 78 62-140 29-109 (142)
57 cd06929 NR_LBD_F1 Ligand-bindi 57.1 14 0.0003 26.7 3.2 32 51-82 13-44 (174)
58 TIGR03404 bicupin_oxalic bicup 56.9 40 0.00086 28.1 6.2 45 84-129 72-120 (367)
59 PF00190 Cupin_1: Cupin; Inte 56.2 40 0.00086 23.7 5.4 43 88-130 42-95 (144)
60 PF12852 Cupin_6: Cupin 54.0 35 0.00076 25.0 5.0 35 95-129 30-65 (186)
61 TIGR03214 ura-cupin putative a 53.5 41 0.00088 26.5 5.5 50 78-129 178-228 (260)
62 TIGR02272 gentisate_1_2 gentis 53.2 1.1E+02 0.0023 25.3 8.0 70 88-164 258-327 (335)
63 PF06249 EutQ: Ethanolamine ut 53.0 32 0.0007 25.0 4.4 29 100-129 95-123 (152)
64 PF01050 MannoseP_isomer: Mann 52.5 66 0.0014 23.2 6.0 41 88-129 71-112 (151)
65 TIGR02272 gentisate_1_2 gentis 52.4 29 0.00064 28.6 4.6 47 84-131 86-132 (335)
66 PRK15457 ethanolamine utilizat 51.5 37 0.00081 26.5 4.8 29 100-129 175-203 (233)
67 cd06942 NR_LBD_Sex_1_like The 49.7 23 0.00049 26.3 3.4 33 51-83 13-45 (191)
68 cd06940 NR_LBD_REV_ERB The lig 47.9 22 0.00048 26.4 3.1 33 51-83 23-55 (189)
69 PF02311 AraC_binding: AraC-li 47.7 79 0.0017 20.8 6.9 33 96-129 19-51 (136)
70 smart00430 HOLI Ligand binding 46.9 29 0.00062 24.1 3.4 30 52-81 4-33 (163)
71 PRK04190 glucose-6-phosphate i 46.8 1.2E+02 0.0027 22.8 9.5 30 100-129 97-130 (191)
72 cd06930 NR_LBD_F2 Ligand-bindi 45.6 33 0.00071 24.3 3.6 31 51-81 10-40 (165)
73 cd06941 NR_LBD_DmE78_like The 44.9 30 0.00065 25.7 3.4 32 51-82 13-44 (195)
74 PHA00672 hypothetical protein 44.6 1.1E+02 0.0024 21.6 8.4 37 88-125 55-91 (152)
75 cd06157 NR_LBD The ligand bind 44.4 34 0.00073 23.8 3.5 32 52-83 10-41 (168)
76 cd06954 NR_LBD_LXR The ligand 43.3 31 0.00067 26.5 3.3 32 52-83 55-86 (236)
77 cd06953 NR_LBD_DHR4_like The l 42.7 36 0.00077 25.8 3.5 33 51-83 38-70 (213)
78 cd06938 NR_LBD_EcR The ligand 42.0 29 0.00064 26.6 3.0 32 52-83 51-82 (231)
79 cd06935 NR_LBD_TR The ligand b 40.9 37 0.0008 26.4 3.4 34 51-84 63-96 (243)
80 cd07070 NR_LBD_SF-1 The ligand 39.7 40 0.00088 26.1 3.5 32 52-83 50-81 (237)
81 COG4565 CitB Response regulato 39.5 13 0.00028 28.7 0.6 75 2-82 90-168 (224)
82 cd06936 NR_LBD_Fxr The ligand 39.2 39 0.00085 25.8 3.3 33 51-83 47-79 (221)
83 cd06943 NR_LBD_RXR_like The li 39.1 39 0.00085 25.2 3.3 32 51-82 41-72 (207)
84 cd06952 NR_LBD_TR2_like The li 39.1 42 0.00091 25.5 3.5 34 51-84 32-65 (222)
85 cd06949 NR_LBD_ER Ligand bindi 37.3 47 0.001 25.6 3.5 33 51-83 43-75 (235)
86 cd06946 NR_LBD_ERR The ligand 37.2 47 0.001 25.2 3.5 33 51-83 38-70 (221)
87 cd07068 NR_LBD_ER_like The lig 36.9 51 0.0011 25.1 3.6 32 51-82 38-69 (221)
88 cd07072 NR_LBD_DHR38_like Liga 36.9 44 0.00094 26.0 3.3 34 51-84 53-86 (239)
89 KOG2757|consensus 36.8 1.1E+02 0.0025 25.6 5.7 42 88-129 341-382 (411)
90 PF00104 Hormone_recep: Ligand 36.3 66 0.0014 23.2 4.1 30 52-81 29-58 (203)
91 cd06931 NR_LBD_HNF4_like The l 34.1 54 0.0012 24.8 3.3 31 52-82 44-74 (222)
92 cd06944 NR_LBD_Ftz-F1_like The 33.3 61 0.0013 25.0 3.5 31 52-82 50-80 (237)
93 cd06939 NR_LBD_ROR_like The li 33.3 57 0.0012 25.3 3.4 34 51-84 59-92 (241)
94 cd06932 NR_LBD_PPAR The ligand 33.2 54 0.0012 25.8 3.3 34 51-84 74-107 (259)
95 cd06945 NR_LBD_Nurr1_like The 33.1 53 0.0011 25.5 3.2 33 51-83 52-84 (239)
96 cd07073 NR_LBD_AR Ligand bindi 33.1 59 0.0013 25.4 3.4 32 51-82 39-70 (246)
97 COG4567 Response regulator con 32.9 6 0.00013 29.0 -2.0 22 4-25 99-120 (182)
98 cd06948 NR_LBD_COUP-TF Ligand 32.8 60 0.0013 25.0 3.5 30 52-81 42-71 (236)
99 cd07350 NR_LBD_Dax1 The ligand 32.5 62 0.0013 25.0 3.5 32 52-83 31-62 (232)
100 cd06937 NR_LBD_RAR The ligand 32.3 62 0.0014 24.9 3.5 33 51-83 49-81 (231)
101 cd06951 NR_LBD_Dax1_like The l 32.1 62 0.0014 24.7 3.4 33 51-83 30-62 (222)
102 COG3706 PleD Response regulato 31.0 22 0.00048 30.4 0.8 17 2-18 222-238 (435)
103 cd06933 NR_LBD_VDR The ligand 30.8 67 0.0015 24.8 3.4 33 51-83 48-80 (238)
104 PF14633 SH2_2: SH2 domain; PD 30.3 68 0.0015 24.8 3.3 44 56-105 31-75 (220)
105 cd07348 NR_LBD_NGFI-B The liga 30.2 64 0.0014 25.1 3.2 34 51-84 52-85 (238)
106 COG3257 GlxB Uncharacterized p 30.2 2.7E+02 0.0058 21.8 7.3 57 97-158 80-136 (264)
107 cd07069 NR_LBD_Lrh-1 The ligan 29.8 68 0.0015 24.9 3.3 33 51-83 51-83 (241)
108 cd07349 NR_LBD_SHP The ligand 29.6 78 0.0017 24.3 3.6 32 52-83 31-62 (222)
109 cd06934 NR_LBD_PXR_like The li 29.6 60 0.0013 24.9 3.0 33 51-83 46-78 (226)
110 PF05726 Pirin_C: Pirin C-term 28.9 1.7E+02 0.0038 19.2 5.7 66 88-162 7-74 (104)
111 cd07071 NR_LBD_Nurr1 The ligan 27.3 78 0.0017 24.6 3.2 34 51-84 52-85 (238)
112 PF06052 3-HAO: 3-hydroxyanthr 26.6 2.6E+02 0.0055 20.4 6.5 55 99-159 52-109 (151)
113 cd06947 NR_LBD_GR_Like Ligand 26.5 97 0.0021 24.2 3.7 33 51-83 39-71 (246)
114 PRK09685 DNA-binding transcrip 26.1 2.7E+02 0.0058 21.8 6.2 55 104-164 75-130 (302)
115 PF05523 FdtA: WxcM-like, C-te 26.0 2.3E+02 0.005 19.7 5.7 59 98-161 52-114 (131)
116 COG1201 Lhr Lhr-like helicases 26.0 1.1E+02 0.0024 28.5 4.3 33 51-83 406-438 (814)
117 COG5458 Uncharacterized conser 26.0 81 0.0017 22.1 2.7 32 100-131 55-86 (144)
118 PF13128 DUF3954: Protein of u 25.7 1.5E+02 0.0032 17.3 3.7 28 100-135 9-36 (50)
119 cd06950 NR_LBD_Tlx_PNR_like Th 25.3 1.1E+02 0.0023 23.1 3.6 30 52-81 38-67 (206)
120 PF14525 AraC_binding_2: AraC- 25.2 2.4E+02 0.0051 19.5 7.8 67 91-163 44-113 (172)
121 PF02938 GAD: GAD domain; Int 25.0 63 0.0014 21.1 2.1 28 63-94 55-82 (95)
122 CHL00133 psbV photosystem II c 25.0 1.2E+02 0.0026 22.3 3.6 21 63-83 127-147 (163)
123 TIGR02297 HpaA 4-hydroxyphenyl 24.0 3.4E+02 0.0074 20.9 6.4 28 101-129 45-72 (287)
124 COG4766 EutQ Ethanolamine util 23.9 1.7E+02 0.0038 21.4 4.2 27 102-129 120-146 (176)
125 COG1039 RnhC Ribonuclease HIII 22.5 1.8E+02 0.0039 23.5 4.5 48 68-115 7-55 (297)
126 COG0380 OtsA Trehalose-6-phosp 22.4 32 0.00069 29.8 0.3 28 1-28 387-415 (486)
127 cd07075 NR_LBD_MR Ligand bindi 22.4 1.2E+02 0.0026 23.8 3.5 31 51-81 39-69 (248)
128 PRK10296 DNA-binding transcrip 21.7 1.8E+02 0.0038 22.6 4.3 29 100-129 43-71 (278)
129 PRK10117 trehalose-6-phosphate 21.4 61 0.0013 28.1 1.7 28 1-28 360-389 (474)
130 PLN02288 mannose-6-phosphate i 21.4 3.2E+02 0.007 23.1 6.0 31 99-129 353-384 (394)
131 TIGR02929 anfG_nitrog Fe-only 21.3 2.8E+02 0.0061 19.0 4.9 46 38-83 36-89 (109)
132 cd07074 NR_LBD_PR Ligand bindi 21.3 1.3E+02 0.0028 23.7 3.4 31 51-81 39-69 (248)
133 PRK10766 DNA-binding transcrip 21.3 14 0.0003 27.2 -2.0 18 3-20 90-107 (221)
134 cd07076 NR_LBD_GR Ligand bindi 21.1 1.4E+02 0.003 23.4 3.6 31 51-81 39-69 (247)
135 KOG1448|consensus 20.1 1.2E+02 0.0026 24.7 3.0 52 61-113 2-63 (316)
No 1
>KOG1113|consensus
Probab=99.81 E-value=7e-20 Score=145.73 Aligned_cols=118 Identities=21% Similarity=0.242 Sum_probs=112.2
Q ss_pred CCCHHHHHHHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCC
Q psy7149 47 ERTDDDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVG 126 (167)
Q Consensus 47 ~R~~~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~G 126 (167)
..++++++.+.+.+++.-+|++|+++++..+..++..+.+ ++|+.|+.||+.++.||+|-+|++.|++++..+..++||
T Consensus 111 pKd~e~~~~L~~a~r~~~LF~~Ld~eq~~~v~dam~~~~v-~~G~~Vi~qGdeGd~fYvI~kGt~dVyv~~~~v~~~~~g 189 (368)
T KOG1113|consen 111 PKDDETRRRLEEAFRKNLLFANLDDEQLSQVLDAMFEKRV-KAGETVIKQGDEGDNFYVIDKGTFDVYVNGTYVTTYSPG 189 (368)
T ss_pred CCCHHHHHHHHHHHHhccccccCCHHHHHHHHHhhceeee-cCCcEEEecCCcCCcEEEEecceEEEEECCeEEeeeCCC
Confidence 4667888899999999999999999999999999999999 999999999999999999999999999999999999999
Q ss_pred CeeeecccccCCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 127 DSFGILPTMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 127 d~FGe~all~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
..|||+||+.+.||.+|+ .|.+++.+|.+++..|.+++.
T Consensus 190 ~sFGElALmyn~PRaATv-~a~t~~klWgldr~SFrrIi~ 228 (368)
T KOG1113|consen 190 GSFGELALMYNPPRAATV-VAKSLKKLWGLDRTSFRRIIM 228 (368)
T ss_pred CchhhhHhhhCCCcccce-eeccccceEEEeeceeEEEee
Confidence 999999999999999999 688999999999999987653
No 2
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=99.78 E-value=1.9e-18 Score=133.55 Aligned_cols=109 Identities=17% Similarity=0.137 Sum_probs=100.1
Q ss_pred HHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEE----cCceeEEecCCCeeee
Q psy7149 56 LLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVEL----SDGRSQMLQVGDSFGI 131 (167)
Q Consensus 56 i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~----~~~~~~~l~~Gd~FGe 131 (167)
-.++|+.+|+|+.|+++++..++..+..+.| ++|++|+++|++++++|+|++|.|+++. +...+..+.+|++||+
T Consensus 5 ~~~~l~~~~~f~~L~~~~~~~l~~~~~~~~~-~~ge~l~~~g~~~~~~~~v~~G~v~~~~~~~~~~~~i~~~~~g~~~g~ 83 (236)
T PRK09392 5 DLIRLRNLPLFADMADATFERLMRGAFLQRF-PPGTMLITEGEPADFLFVVLDGLVELSASSQDRETTLAILRPVSTFIL 83 (236)
T ss_pred HHHHHhcCccccCCCHHHHHHHHhhcceeec-CCCCEEEeCCCccceEEEEEeCEEEEEEcCCCceEEEEEeCCCchhhh
Confidence 3468999999999999999999999999999 9999999999999999999999999975 2246778899999999
Q ss_pred cccccCCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 132 LPTMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 132 ~all~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
.+++.+.++.+++ .|.++|.++.||+++|.+++.
T Consensus 84 ~~~~~~~~~~~~~-~A~~~~~~~~i~~~~~~~l~~ 117 (236)
T PRK09392 84 AAVVLDAPYLMSA-RTLTRSRVLMIPAELVREAMS 117 (236)
T ss_pred HHHhCCCCCceEE-EEcCceEEEEEeHHHHHHHHH
Confidence 9999999999998 789999999999999999875
No 3
>KOG0614|consensus
Probab=99.77 E-value=3e-19 Score=148.50 Aligned_cols=130 Identities=18% Similarity=0.298 Sum_probs=115.0
Q ss_pred ccHHHHHHHHhcCCCCCCCHHHHHHHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeE
Q psy7149 31 LIVKDRVRECLEKDPSERTDDDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGC 110 (167)
Q Consensus 31 l~~~~~~r~~l~k~p~~R~~~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~ 110 (167)
-..|.+|+.|++....+|+ +...++|+.+|+|.+||++.+.+++..+....| .+|++|++||+.++.||+|.+|.
T Consensus 249 aidR~vFq~IM~~tg~~r~----~~~~~fLrsv~~~q~l~Ee~L~KiaD~le~~~Y-d~g~yIirqge~G~~ffii~~G~ 323 (732)
T KOG0614|consen 249 AIDREVFQAIMMRTGLERH----EQYMNFLRSVPLFQNLPEELLLKIADVLEEEYY-DAGEYIIRQGEKGDTFFIISKGT 323 (732)
T ss_pred HHHHHHHHHHHHHHHHHHH----HHHHHHHHhhhhhccCCHHHHHHHHHHHHHHhh-cCCceEEeecCCCCeEEEEecce
Confidence 3456888999887766655 678899999999999999999999999999999 99999999999999999999999
Q ss_pred EEEEEcC------ceeEEecCCCeeeecccccCCceeeEEEEecC-ceEEEEEeHHHHHHHhc
Q psy7149 111 VEVELSD------GRSQMLQVGDSFGILPTMEKLYHEGVMRTRCD-DCQFVCITQTDYYRIQH 166 (167)
Q Consensus 111 v~v~~~~------~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~-~~~ll~i~~~~f~~ll~ 166 (167)
|.|.+.+ ..+..+++||+|||-+++....|+|++. |.. .++++.|+++.|.+++.
T Consensus 324 V~vtq~~e~~~q~~~lr~l~kGd~FGE~al~~edvRtAnii-a~~~gv~cl~lDresF~~liG 385 (732)
T KOG0614|consen 324 VKVTQQDEGSTQPQELRTLNKGDYFGERALLGEDVRTANII-AQAPGVECLTLDRESFKKLIG 385 (732)
T ss_pred EEEeecCCCCCchhHHhhccccchhhHHHhhccCccchhhh-ccCCCceEEEecHHHHHHhcc
Confidence 9998732 4578899999999999999999999994 555 49999999999998863
No 4
>KOG0614|consensus
Probab=99.73 E-value=2.7e-18 Score=142.86 Aligned_cols=122 Identities=16% Similarity=0.168 Sum_probs=114.3
Q ss_pred CCCCCCCHHHHHHHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEE
Q psy7149 43 KDPSERTDDDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQM 122 (167)
Q Consensus 43 k~p~~R~~~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~ 122 (167)
.+...++....+.|.+.+....++++|.+.+++++..+|....| .+|+.|++||++++.+|++.+|++.|.+++..++.
T Consensus 139 l~~~~Kd~~~k~lI~dAi~~NdFLknLd~~Qi~e~v~~Myp~~~-~~gs~IIrege~Gs~~yV~aeG~~~V~~~g~ll~~ 217 (732)
T KOG0614|consen 139 LPRYNKDVGAKQLIRDAIQKNDFLKNLDASQIKELVDCMYPVEY-RAGSWIIREGEPGSHLYVSAEGELQVSREGKLLGK 217 (732)
T ss_pred cccccCCccHHHHHHHHHHhhHHHHhhhHHHHHHHHHhhCcccc-cCCcEEEecCCCCceEEEeecceEEEeeCCeeeec
Confidence 34455666677789999999999999999999999999999999 99999999999999999999999999999999999
Q ss_pred ecCCCeeeecccccCCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 123 LQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 123 l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
+++|..|||+|++.+.+|+|+| .|.++|.+|.|+++.|+.||.
T Consensus 218 m~~gtvFGELAILynctRtAsV-~alt~~~lWaidR~vFq~IM~ 260 (732)
T KOG0614|consen 218 MGAGTVFGELAILYNCTRTASV-RALTDVRLWAIDREVFQAIMM 260 (732)
T ss_pred cCCchhhhHHHHHhCCcchhhh-hhhhhhhHHHHHHHHHHHHHH
Confidence 9999999999999999999999 788999999999999999875
No 5
>PLN03192 Voltage-dependent potassium channel; Provisional
Probab=99.71 E-value=8.2e-17 Score=144.27 Aligned_cols=108 Identities=17% Similarity=0.146 Sum_probs=99.6
Q ss_pred HHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc----CceeEEecCCCeeeec
Q psy7149 57 LDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELS----DGRSQMLQVGDSFGIL 132 (167)
Q Consensus 57 ~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~----~~~~~~l~~Gd~FGe~ 132 (167)
...++++++|++++++.+.+|+..++.+.| ++|+.|+.||+.++.+|||.+|+|++... +.++..+++|++|||.
T Consensus 373 ~~~l~~~~lF~~~s~~~l~~L~~~~~~~~~-~pge~I~~qge~~~~lY~I~~G~V~i~~~~~~~e~~l~~l~~Gd~FGE~ 451 (823)
T PLN03192 373 LPVVEKVYLFKGVSREILLLLVTKMKAEYI-PPREDVIMQNEAPDDVYIVVSGEVEIIDSEGEKERVVGTLGCGDIFGEV 451 (823)
T ss_pred HHHHhhCcchhcCCHHHHHHHHHhhheeee-CCCCEEEECCCCCceEEEEEecEEEEEEecCCcceeeEEccCCCEecch
Confidence 346789999999999999999999999999 99999999999999999999999999652 2457889999999999
Q ss_pred ccccCCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 133 PTMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 133 all~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
+++.+.|+++++ .|.+.|+++.|++++|.++++
T Consensus 452 ~~l~~~p~~~t~-ra~~~s~ll~l~~~~f~~ll~ 484 (823)
T PLN03192 452 GALCCRPQSFTF-RTKTLSQLLRLKTSTLIEAMQ 484 (823)
T ss_pred HHhcCCCCCCeE-EEcccEEEEEEEHHHHHHHHH
Confidence 999999999999 689999999999999999876
No 6
>cd00038 CAP_ED effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO sensor. In all cases binding of the effector leads to conformational changes and the ability to activate transcription. Cyclic nucleotide-binding domain similar to CAP are also present in cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) and vertebrate cyclic nucleotide-gated ion-channels. Cyclic nucleotide-monophosphate binding domain; proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues; the best studied is the prokaryotic catabolite gene activator, CAP, where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure; three conserved glycine residues are thought to be essential for maintenance of
Probab=99.70 E-value=2.1e-16 Score=107.10 Aligned_cols=101 Identities=22% Similarity=0.356 Sum_probs=91.4
Q ss_pred hhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcC-----ceeEEecCCCeeeecccccCCc
Q psy7149 65 AFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSD-----GRSQMLQVGDSFGILPTMEKLY 139 (167)
Q Consensus 65 ~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~-----~~~~~l~~Gd~FGe~all~~~~ 139 (167)
+|+.++++.+..++..+....+ ++|++|+.+|++.+.+|+|.+|.+++.... ..+..+.+|++||+..++.+.+
T Consensus 1 ~f~~l~~~~~~~l~~~~~~~~~-~~g~~l~~~~~~~~~~~~i~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~~~~~~~~ 79 (115)
T cd00038 1 LFSGLDDEELEELADALEERRF-PAGEVIIRQGDPADSLYIVLSGSVEVYKLDEDGREQIVGFLGPGDLFGELALLGNGP 79 (115)
T ss_pred CcccCCHHHHHHHHhhceeeee-CCCCEEEcCCCCCCeEEEEEeCEEEEEEECCCCcEEEEEecCCccCcChHHHhcCCC
Confidence 5789999999999999999999 999999999999999999999999997632 4577889999999999888888
Q ss_pred eeeEEEEecCceEEEEEeHHHHHHHhcC
Q psy7149 140 HEGVMRTRCDDCQFVCITQTDYYRIQHQ 167 (167)
Q Consensus 140 r~~tv~~a~~~~~ll~i~~~~f~~ll~~ 167 (167)
+..++ .|.++|.++.|+.++|.+++.+
T Consensus 80 ~~~~~-~a~~~~~~~~i~~~~~~~~~~~ 106 (115)
T cd00038 80 RSATV-RALTDSELLVLPRSDFRRLLQE 106 (115)
T ss_pred CCceE-EEcCceEEEEEeHHHHHHHHHH
Confidence 88888 7889999999999999998753
No 7
>PLN02868 acyl-CoA thioesterase family protein
Probab=99.69 E-value=5.2e-16 Score=129.50 Aligned_cols=108 Identities=17% Similarity=0.217 Sum_probs=96.8
Q ss_pred HHHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc----CceeEEecCCCee
Q psy7149 54 EQLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELS----DGRSQMLQVGDSF 129 (167)
Q Consensus 54 ~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~----~~~~~~l~~Gd~F 129 (167)
+.+...|+++++|++|+++++..|+..++.+.| ++|++||++|++.+.+|+|++|+|+++.. +..+..+++|++|
T Consensus 4 ~~~~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~-~~Ge~I~~~Gd~~~~lyiI~~G~V~v~~~~~~ge~~l~~l~~Gd~f 82 (413)
T PLN02868 4 ESVVEFLGSVPLLQRLPSSSLKKIAEVVVPKRY-GKGEYVVREGEPGDGLYFIWKGEAEVSGPAEEESRPEFLLKRYDYF 82 (413)
T ss_pred HHHHHHHhcCcccccCCHHHHHHHHHhceEEEE-CCCCEEEeCCCcCceEEEEEeCEEEEEEECCCCcEEEEEeCCCCEe
Confidence 456678999999999999999999999999999 99999999999999999999999999762 2457788999999
Q ss_pred eecccccCCceeeEEEEecCceEEEEEeHHHHHHHh
Q psy7149 130 GILPTMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQ 165 (167)
Q Consensus 130 Ge~all~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll 165 (167)
|+. +.+.++.+++ .|.++|+++.|+++.|..+.
T Consensus 83 G~~--l~~~~~~~~~-~A~~d~~v~~ip~~~~~~~~ 115 (413)
T PLN02868 83 GYG--LSGSVHSADV-VAVSELTCLVLPHEHCHLLS 115 (413)
T ss_pred ehh--hCCCCcccEE-EECCCEEEEEEcHHHHhhhc
Confidence 985 6788888999 68999999999999998653
No 8
>KOG3542|consensus
Probab=99.68 E-value=1.7e-16 Score=135.18 Aligned_cols=139 Identities=64% Similarity=1.067 Sum_probs=125.3
Q ss_pred cccccHHHHHHHHhcCCCCCCCHHHHHHHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEE
Q psy7149 28 FQSLIVKDRVRECLEKDPSERTDDDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVI 107 (167)
Q Consensus 28 ~~~l~~~~~~r~~l~k~p~~R~~~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~ 107 (167)
.+.+..|+.+|.+|.|.|..|+.++++.+++|+.++|.|++++-...++||..|.+.....+|.+|+..|+..++||+|+
T Consensus 251 sdplm~RD~VReCLEKeP~drtddDieqLLeFMhqlpAFAnmtMSvrReLC~vMvFaVVe~AGtivL~dgeeLDSWsVIl 330 (1283)
T KOG3542|consen 251 SDPLMDRDSVRECLEKEPSDRTDDDIEQLLEFMHQLPAFANMTMSVRRELCLVMVFAVVEDAGTIVLADGEELDSWSVIL 330 (1283)
T ss_pred CCCccchHHHHHHHhcCCcccchHHHHHHHHHHHhchHhhcccHHHHHHHHHHHHHHHHhhcCeEEecCCcccceeEEEe
Confidence 46777799999999999999999999999999999999999999999999999988776689999999999999999999
Q ss_pred EeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 108 NGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 108 ~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
.|.|+|.+.++....+.-|+.||-..-.........+++..++|++++|...+|.++|.
T Consensus 331 NG~VEv~~PdGk~e~l~mGnSFG~~PT~dkqym~G~mRTkVDDCqFVciaqqDycrIln 389 (1283)
T KOG3542|consen 331 NGCVEVVKPDGKREELKMGNSFGAEPTPDKQYMIGEMRTKVDDCQFVCIAQQDYCRILN 389 (1283)
T ss_pred cceEEEecCCCceEEeecccccCCCCCcchhhhhhhhheecccceEEEeehhhHHHHHH
Confidence 99999999999999999999999876665444444454667999999999999999985
No 9
>KOG0498|consensus
Probab=99.68 E-value=6.8e-17 Score=140.74 Aligned_cols=109 Identities=21% Similarity=0.347 Sum_probs=99.6
Q ss_pred HHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcC----ceeEEecCCCeee-e
Q psy7149 57 LDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSD----GRSQMLQVGDSFG-I 131 (167)
Q Consensus 57 ~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~----~~~~~l~~Gd~FG-e 131 (167)
.+.++++|+|+++++.-+.+|+..++...+ .+|++|++|||+.+.+|||.+|++++...+ ..+..|+|||+|| |
T Consensus 418 ~~lv~~vpLF~~md~~~L~al~~rlk~~~f-~pge~iireGd~v~~myFI~rG~le~~~~~~g~~~~~~~L~~Gd~~GeE 496 (727)
T KOG0498|consen 418 LDLVRKVPLFAGMDDGLLDALCSRLKPEYF-TPGEYIIREGDPVTDMYFIVRGSLESITTDGGGFFVVAILGPGDFFGEE 496 (727)
T ss_pred HHHHhhCchhhcCCHHHHHHHHHHhhhhcc-CCCCeEEecCCccceeEEEEeeeEEEEEccCCceEEEEEecCCCccchH
Confidence 567889999999999999999999999999 999999999999999999999999998755 5788999999999 7
Q ss_pred cccccC-CceeeEEEEecCceEEEEEeHHHHHHHhcC
Q psy7149 132 LPTMEK-LYHEGVMRTRCDDCQFVCITQTDYYRIQHQ 167 (167)
Q Consensus 132 ~all~~-~~r~~tv~~a~~~~~ll~i~~~~f~~ll~~ 167 (167)
+..... .|.++|| .|.+.|+++.|.+++|..++++
T Consensus 497 l~~~~~~~p~t~TV-ralt~~el~~L~~~dL~~V~~~ 532 (727)
T KOG0498|consen 497 LLTWCLDLPQTRTV-RALTYCELFRLSADDLKEVLQQ 532 (727)
T ss_pred HHHHHhcCCCCcee-ehhhhhhHHhccHHHHHHHHHH
Confidence 777766 7889999 7899999999999999998763
No 10
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=99.67 E-value=1.3e-15 Score=115.46 Aligned_cols=98 Identities=15% Similarity=0.185 Sum_probs=87.0
Q ss_pred hcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc--C---ceeEEecCCCeeeecccccCC-ce
Q psy7149 67 TNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELS--D---GRSQMLQVGDSFGILPTMEKL-YH 140 (167)
Q Consensus 67 ~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~--~---~~~~~l~~Gd~FGe~all~~~-~r 140 (167)
+.+|++++..++..+....| ++|++|+.+|++.+.+|+|++|.++++.. + ..+..+++|++||+.+++.+. ++
T Consensus 6 ~~~~~~~~~~l~~~~~~~~~-~kg~~l~~~g~~~~~~y~V~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~~~~~~~~~~ 84 (211)
T PRK11753 6 KPQTDPTLEWFLSHCHIHKY-PAKSTLIHAGEKAETLYYIVKGSVAVLIKDEEGKEMILSYLNQGDFIGELGLFEEGQER 84 (211)
T ss_pred CCCCHHHHHHHHhhCeEEEe-CCCCEEEeCCCCCCeEEEEEeCEEEEEEECCCCCEEEEEEcCCCCEEeehhhccCCCCc
Confidence 45799999999999999999 99999999999999999999999999752 2 356788999999999988764 56
Q ss_pred eeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 141 EGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 141 ~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
++++ .|.++|.++.|++++|.+++.
T Consensus 85 ~~~~-~a~~~~~v~~i~~~~~~~l~~ 109 (211)
T PRK11753 85 SAWV-RAKTACEVAEISYKKFRQLIQ 109 (211)
T ss_pred eEEE-EEcCcEEEEEEcHHHHHHHHH
Confidence 7788 789999999999999999875
No 11
>COG0664 Crp cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
Probab=99.66 E-value=1e-15 Score=115.03 Aligned_cols=105 Identities=18% Similarity=0.260 Sum_probs=92.6
Q ss_pred hcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc--C---ceeEEecCCCeeeecccc
Q psy7149 61 QHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELS--D---GRSQMLQVGDSFGILPTM 135 (167)
Q Consensus 61 ~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~--~---~~~~~l~~Gd~FGe~all 135 (167)
...+.|..++.+.+..+......+.+ ++|++||++|++++++|+|.+|.++++.. + ..+..++||++||+.+++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~~l~~~g~~~~~~y~v~~G~v~~~~~~~~G~~~~~~~~~~g~~fg~~~l~ 81 (214)
T COG0664 3 KENPLLNLLPSELLELLALKLEVRKL-PKGEVLFTEGEEADSLYIILSGIVKLYANTEDGREIILGFLGPGDFFGELALL 81 (214)
T ss_pred ccccccccCCHHHHHHHhhhceeEee-CCCCEEEcCCCcCceEEEEEEeEEEEEEECCCCcEEEEEEecCCchhhhHHHh
Confidence 45667777888888888888888999 99999999999999999999999999763 2 367789999999999999
Q ss_pred cCCceeeEEEEecCceEEEEEeHHHHHHHhcC
Q psy7149 136 EKLYHEGVMRTRCDDCQFVCITQTDYYRIQHQ 167 (167)
Q Consensus 136 ~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~~ 167 (167)
.+.++++++ .|.++|+++.++++.|..++.+
T Consensus 82 ~~~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~ 112 (214)
T COG0664 82 GGDPRSASA-VALTDVEVLEIPRKDFLELLAE 112 (214)
T ss_pred cCCCccceE-EEcceEEEEEecHHHHHHHHhh
Confidence 888999999 6889999999999999998753
No 12
>smart00100 cNMP Cyclic nucleotide-monophosphate binding domain. Catabolite gene activator protein (CAP) is a prokaryotic homologue of eukaryotic cNMP-binding domains, present in ion channels, and cNMP-dependent kinases.
Probab=99.64 E-value=4.2e-15 Score=101.02 Aligned_cols=100 Identities=19% Similarity=0.301 Sum_probs=87.4
Q ss_pred hhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc-----CceeEEecCCCeeeecccc--cC
Q psy7149 65 AFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELS-----DGRSQMLQVGDSFGILPTM--EK 137 (167)
Q Consensus 65 ~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~-----~~~~~~l~~Gd~FGe~all--~~ 137 (167)
+|.++++..+..++..+....+ ++|++|+++|++.+.+|+|.+|.+++... ...+..+.+|++||+..++ ..
T Consensus 1 ~f~~l~~~~~~~l~~~~~~~~~-~~g~~l~~~g~~~~~~y~v~~G~v~~~~~~~~g~~~~~~~~~~g~~~g~~~~~~~~~ 79 (120)
T smart00100 1 LFKNLDAEELRELADALEPVRY-PAGEVIIRQGDVGDSFYIILSGEVRVYKVLEDGREQILGILGPGDFFGELALLTNSR 79 (120)
T ss_pred CcCCCCHHHHHHHHHhceEEEe-CCCCEEEeCCCcCCcEEEEEeeEEEEEEECCCCceEEEEeecCCceechhhhccCCC
Confidence 4789999999999999999999 99999999999999999999999999763 2467788999999999988 34
Q ss_pred CceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 138 LYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 138 ~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
.+.+.++ .+.++|.++.++.+.|...+.
T Consensus 80 ~~~~~~~-~~~~~~~v~~~~~~~~~~~~~ 107 (120)
T smart00100 80 RAASATA-VALELATLLRIDFRDFLQLLQ 107 (120)
T ss_pred cccceEE-EEEeeEEEEccCHHHHHHHHH
Confidence 5566777 677899999999999988764
No 13
>PF00027 cNMP_binding: Cyclic nucleotide-binding domain; InterPro: IPR000595 Proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues [, , ]. The best studied of these proteins is the prokaryotic catabolite gene activator (also known as the cAMP receptor protein) (gene crp) where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure. There are six invariant amino acids in this domain, three of which are glycine residues that are thought to be essential for maintenance of the structural integrity of the beta-barrel. cAMP- and cGMP-dependent protein kinases (cAPK and cGPK) contain two tandem copies of the cyclic nucleotide-binding domain. The cAPK's are composed of two different subunits, a catalytic chain and a regulatory chain, which contains both copies of the domain. The cGPK's are single chain enzymes that include the two copies of the domain in their N-terminal section. Vertebrate cyclic nucleotide-gated ion-channels also contain this domain. Two such cations channels have been fully characterised, one is found in rod cells where it plays a role in visual signal transduction.; PDB: 1O7F_A 2BYV_E 3E97_A 3U10_A 2H6B_A 3SHR_A 2OZ6_A 1WGP_A 3LA2_A 3LA3_B ....
Probab=99.64 E-value=1.2e-15 Score=100.17 Aligned_cols=82 Identities=21% Similarity=0.325 Sum_probs=73.7
Q ss_pred eEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc--C---ceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEeH
Q psy7149 84 AVVEKAGTIVMNDGEELDSWSVVINGCVEVELS--D---GRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCITQ 158 (167)
Q Consensus 84 ~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~--~---~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~~ 158 (167)
+.| ++|++|+++|++.+++|+|++|.+++... + ..+..+++|++||+.+++.+.++..++ .|.++|.++.||+
T Consensus 2 ~~~-~~g~~i~~~g~~~~~~~~i~~G~v~~~~~~~~~~~~~~~~~~~g~~~g~~~~~~~~~~~~~~-~a~~~~~~~~i~~ 79 (91)
T PF00027_consen 2 KTY-KKGEVIYRQGDPCDHIYIILSGEVKVSSINEDGKEQIIFFLGPGDIFGEIELLTGKPSPFTV-IALTDSEVLRIPR 79 (91)
T ss_dssp EEE-STTEEEEETTSBESEEEEEEESEEEEEEETTTSEEEEEEEEETTEEESGHHHHHTSBBSSEE-EESSSEEEEEEEH
T ss_pred eEE-CCCCEEEeCCCcCCEEEEEEECceEEEeceecceeeeecceeeeccccceeecCCCccEEEE-EEccCEEEEEEeH
Confidence 467 99999999999999999999999999762 2 247789999999999999999999999 6899999999999
Q ss_pred HHHHHHhcC
Q psy7149 159 TDYYRIQHQ 167 (167)
Q Consensus 159 ~~f~~ll~~ 167 (167)
++|.+++++
T Consensus 80 ~~~~~~~~~ 88 (91)
T PF00027_consen 80 EDFLQLLQQ 88 (91)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 999999863
No 14
>COG2905 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]
Probab=99.62 E-value=1.8e-15 Score=126.98 Aligned_cols=111 Identities=19% Similarity=0.310 Sum_probs=100.6
Q ss_pred HHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcC-ceeEEecCCCeeeecc
Q psy7149 55 QLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSD-GRSQMLQVGDSFGILP 133 (167)
Q Consensus 55 ~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~-~~~~~l~~Gd~FGe~a 133 (167)
.+.+++.++|+|+.|+++++.+|...+....| ++|++|...|.+.+++|+|.+|.|++...+ .++..+..||.||-.+
T Consensus 4 ~~~~Fl~~~pPF~~L~~eel~~L~~~l~v~yy-~kge~ii~~~~p~~~l~vi~kG~vev~~~~g~v~~~~~~gdlFg~~~ 82 (610)
T COG2905 4 EPDQFLQQHPPFSQLPAEELEQLMGALEVKYY-RKGEIIIYAGSPVHYLYVIRKGVVEVRSDGGEVLDRLAAGDLFGFSS 82 (610)
T ss_pred CHHHHHhcCCCcccCCHHHHHHHHhhhccccc-cCCCeeecCCCCcceeEEEEeceeeEEcCCCeeeeeeccCccccchh
Confidence 45689999999999999999999999999999 999999999999999999999999997755 4588999999999999
Q ss_pred cccCCceeeEEEEecCceEEEEEeHHHHHHHhcC
Q psy7149 134 TMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQHQ 167 (167)
Q Consensus 134 ll~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~~ 167 (167)
++++.+....+ +|.+++.++.||++.|.+++.+
T Consensus 83 l~~~~~~~~~~-~aeedsl~y~lp~s~F~ql~~~ 115 (610)
T COG2905 83 LFTELNKQRYM-AAEEDSLCYLLPKSVFMQLMEE 115 (610)
T ss_pred hcccCCCccee-EeeccceEEecCHHHHHHHHHh
Confidence 99887766666 5788999999999999998753
No 15
>KOG1113|consensus
Probab=99.62 E-value=2.8e-16 Score=125.31 Aligned_cols=127 Identities=17% Similarity=0.249 Sum_probs=109.7
Q ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEE
Q psy7149 34 KDRVRECLEKDPSERTDDDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEV 113 (167)
Q Consensus 34 ~~~~r~~l~k~p~~R~~~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v 113 (167)
+..||.|+.+..... ......+|+++|+++.|...+...++..+..+.| ++|+.|..||++++.||+|.+|+|.+
T Consensus 220 r~SFrrIi~~s~~kk----rkMy~~~l~s~pil~~l~k~er~kv~dal~~k~y-~~G~~Vi~qg~~ge~f~~i~eGEvdv 294 (368)
T KOG1113|consen 220 RTSFRRIIMKSCIKK----RKMYEPFLESVPILESLEKLERAKVADALGTKSY-KDGERVIVQGDQGEHFYIIEEGEVDV 294 (368)
T ss_pred eceeEEEeeccchhh----hhhhhhhhhcchhhHHHHHHHHHhhhcccceeec-cCCceEEeccCCcceEEEecccccch
Confidence 355667676665322 1346678999999999999999999999999999 99999999999999999999999999
Q ss_pred EE-cCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 114 EL-SDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 114 ~~-~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
.. .+++...+++||+|||.+++.+.||.++| .|.+...|+.+++..|+++|.
T Consensus 295 ~~~~~~v~vkl~~~dyfge~al~~~~pr~Atv-~a~~~~kc~~~dk~~ferllg 347 (368)
T KOG1113|consen 295 LKKRDGVEVKLKKGDYFGELALLKNLPRAATV-VAKGRLKCAKLDKPRFERLLG 347 (368)
T ss_pred hhccCCeEEEechhhhcchHHHHhhchhhcee-eccCCceeeeeChHHHHHHhh
Confidence 64 23344499999999999999999999999 688999999999999999874
No 16
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=99.59 E-value=2.3e-14 Score=110.37 Aligned_cols=106 Identities=7% Similarity=0.108 Sum_probs=86.7
Q ss_pred HHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc--C---ceeEEecCCCee
Q psy7149 55 QLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELS--D---GRSQMLQVGDSF 129 (167)
Q Consensus 55 ~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~--~---~~~~~l~~Gd~F 129 (167)
.+...+.+..+=+-+++ .+++.+..+.| ++|++|+.+|++.+.+|+|++|.|+++.. + ..+..+.||++|
T Consensus 9 ~~~~~~~~~~~~~~~~~----~i~~~~~~~~~-~kge~l~~~G~~~~~~y~V~~G~v~v~~~~~~G~e~~~~~~~~g~~~ 83 (226)
T PRK10402 9 EISHYMSESAFKDCFSF----DVSADTELFHF-LAREYIVQEGQQPSYLFYLTRGRAKLYATLANGKVSLIDFFAAPCFI 83 (226)
T ss_pred HHHHHHHHcChhhcCCH----HHHhhhhheee-CCCCEEEcCCCCCceEEEEEeCEEEEEEECCCCCEeeeeecCCCCeE
Confidence 34455555544444444 36666778889 99999999999999999999999999762 2 357788999999
Q ss_pred eecccccCCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 130 GILPTMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 130 Ge~all~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
|+.+++.+.++++++ .|.++|.++.+++++|.+++.
T Consensus 84 G~~~~~~~~~~~~~~-~A~~~~~i~~i~~~~~~~ll~ 119 (226)
T PRK10402 84 GEIELIDKDHETKAV-QAIEECWCLALPMKDCRPLLL 119 (226)
T ss_pred EeehhhcCCCCCccE-EEeccEEEEEEEHHHHHHHHh
Confidence 999999999999999 789999999999999999874
No 17
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=99.59 E-value=1.9e-14 Score=111.13 Aligned_cols=104 Identities=13% Similarity=0.105 Sum_probs=86.5
Q ss_pred hhcChhhhcCCHHHHHHHhhhcc-eeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc--C---ceeEEecCCCeeeecc
Q psy7149 60 TQHLKAFTNMTLAVRKALCGVMV-FAVVEKAGTIVMNDGEELDSWSVVINGCVEVELS--D---GRSQMLQVGDSFGILP 133 (167)
Q Consensus 60 L~~~~~F~~L~~~~l~~l~~~~~-~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~--~---~~~~~l~~Gd~FGe~a 133 (167)
+++.+.|..|+++++..|..... ...| ++|++|+++||+++++|+|.+|.|+++.. + .++..+.||++||+.+
T Consensus 15 ~~~~~~~~~l~~~~l~~L~~~~~~~~~~-~kge~l~~~Gd~~~~ly~v~~G~v~~~~~~~~G~e~i~~~~~~gd~~g~~~ 93 (235)
T PRK11161 15 ISQLCIPFTLNEHELDQLDNIIERKKPI-QKGQTLFKAGDELKSLYAIRSGTIKSYTITEQGDEQITGFHLAGDLVGFDA 93 (235)
T ss_pred ccccccccCCCHHHHHHHHHhhhhceee-cCCCEeECCCCCcceEEEEeeceEEEEEECCCCCEEEEEeccCCceecccc
Confidence 55666666799999999999885 4678 99999999999999999999999999762 1 3566779999999977
Q ss_pred cccCCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 134 TMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 134 ll~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
++.+ +++.++ .|.++|+++.||++.|.+++.
T Consensus 94 ~~~~-~~~~~~-~a~~~~~i~~ip~~~f~~l~~ 124 (235)
T PRK11161 94 IGSG-QHPSFA-QALETSMVCEIPFETLDDLSG 124 (235)
T ss_pred ccCC-CCcceE-EEeccEEEEEEEHHHHHHHHH
Confidence 6544 445566 688999999999999999875
No 18
>KOG0500|consensus
Probab=99.52 E-value=1.3e-13 Score=114.20 Aligned_cols=112 Identities=16% Similarity=0.235 Sum_probs=101.0
Q ss_pred HHHHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcCc--eeEEecCCCeee
Q psy7149 53 IEQLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSDG--RSQMLQVGDSFG 130 (167)
Q Consensus 53 ~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~--~~~~l~~Gd~FG 130 (167)
+....+.|+++++|+.-.+.-+.+|.-.++...| .||++|++.||.+..+|||.+|.+.|..+++ +...+++|++||
T Consensus 302 ~nvh~dTLkkV~iF~~ce~~lL~elVLklk~qvf-SPgDyICrKGdvgkEMyIVk~G~L~Vv~dDg~t~~~~L~~G~~FG 380 (536)
T KOG0500|consen 302 INVHLDTLKKVRIFQDCEAGLLVELVLKLKPQVF-SPGDYICRKGDVGKEMYIVKEGKLAVVADDGVTVFVTLKAGSVFG 380 (536)
T ss_pred HHHHHHHHHhhhHHHhcchhHHHHHHHHhcceee-CCCCeEEecCcccceEEEEEccEEEEEecCCcEEEEEecCCceee
Confidence 4456788999999999999999999999999999 9999999999999999999999999987654 567899999999
Q ss_pred eccccc------CCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 131 ILPTME------KLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 131 e~all~------~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
|+++++ |..|++++ +...-+.+++++++|+.+.|.
T Consensus 381 EisIlni~g~~~gNRRtanv-rSvGYSDlfvLskdDl~~aL~ 421 (536)
T KOG0500|consen 381 EISILNIKGNKNGNRRTANV-RSVGYSDLFVLSKDDLWEALS 421 (536)
T ss_pred eeEEEEEcCcccCCcceeee-eeeccceeeEeeHHHHHHHHH
Confidence 999872 45788999 688999999999999999875
No 19
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=99.41 E-value=1.3e-12 Score=97.68 Aligned_cols=76 Identities=11% Similarity=0.159 Sum_probs=65.6
Q ss_pred CcEEEecCCCCCeEEEEEEeEEEEEE--cC---ceeEEecCCCeeeecccccCCc--eeeEEEEecCceEEEEEeHHHHH
Q psy7149 90 GTIVMNDGEELDSWSVVINGCVEVEL--SD---GRSQMLQVGDSFGILPTMEKLY--HEGVMRTRCDDCQFVCITQTDYY 162 (167)
Q Consensus 90 ge~I~~~Gd~~~~lyiI~~G~v~v~~--~~---~~~~~l~~Gd~FGe~all~~~~--r~~tv~~a~~~~~ll~i~~~~f~ 162 (167)
|++||++|++.+++|+|++|.|+++. .+ ..+..++||++||+.+++.+.+ +..++ .|.++|.++.+|+++|.
T Consensus 1 g~~l~~~g~~~~~~~~i~~G~v~~~~~~~~G~e~~l~~~~~g~~~G~~~~~~~~~~~~~~~~-~A~~~~~v~~i~~~~~~ 79 (193)
T TIGR03697 1 GKTIFFPGDPAEKVYFLRRGAVKLSRVYESGEEITVALLRENSVFGVLSLITGHRSDRFYHA-VAFTRVELLAVPIEQVE 79 (193)
T ss_pred CCceecCCCCCCcEEEEEecEEEEEEeCCCCcEeeeEEccCCCEeeeeeeccCCCCccceEE-EEecceEEEEeeHHHHH
Confidence 78999999999999999999999976 22 2477889999999999998765 34667 68899999999999999
Q ss_pred HHhc
Q psy7149 163 RIQH 166 (167)
Q Consensus 163 ~ll~ 166 (167)
+++.
T Consensus 80 ~l~~ 83 (193)
T TIGR03697 80 KAIE 83 (193)
T ss_pred HHHH
Confidence 9875
No 20
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=99.40 E-value=1.7e-12 Score=97.83 Aligned_cols=78 Identities=13% Similarity=0.134 Sum_probs=65.8
Q ss_pred cceeEEccCCcEEEecCC--CCCeEEEEEEeEEEEEEc--C---ceeEEecCCCeeeecccccCCceeeEEEEecCceEE
Q psy7149 81 MVFAVVEKAGTIVMNDGE--ELDSWSVVINGCVEVELS--D---GRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQF 153 (167)
Q Consensus 81 ~~~~~~~~~ge~I~~~Gd--~~~~lyiI~~G~v~v~~~--~---~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~l 153 (167)
.....| ++|++||.+|| +++.+|+|++|.|+++.. + ..+..++|||+||+.+++ +.++++++ .|.++|.+
T Consensus 6 ~~~~~~-~kg~~l~~~Gd~~~~~~~y~I~~G~vr~~~~~~~G~e~~l~~~~~Gd~~G~~~~~-~~~~~~~~-~A~~~~~v 82 (202)
T PRK13918 6 VDTVTY-RPGAVILYPGVPGPSDMLYRVRSGLVRLHTVDDEGNALTLRYVRPGEYFGEEALA-GAERAYFA-EAVTDSRI 82 (202)
T ss_pred cceeEe-cCCCEEEcCCCCCCCCeEEEEEeeEEEEEEECCCCCEEEEEEecCCCeechHHhc-CCCCCceE-EEcCceEE
Confidence 456778 99999999999 779999999999999762 2 357788999999997665 56778888 78999999
Q ss_pred EEEeHHHH
Q psy7149 154 VCITQTDY 161 (167)
Q Consensus 154 l~i~~~~f 161 (167)
+.|+++.|
T Consensus 83 ~~i~~~~~ 90 (202)
T PRK13918 83 DVLNPALM 90 (202)
T ss_pred EEEEHHHc
Confidence 99998765
No 21
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=99.39 E-value=3.5e-12 Score=98.58 Aligned_cols=86 Identities=19% Similarity=0.080 Sum_probs=72.9
Q ss_pred HHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc---C--ceeEEecCCCeeeecccccCCceeeEEEEecCc
Q psy7149 76 ALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELS---D--GRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDD 150 (167)
Q Consensus 76 ~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~---~--~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~ 150 (167)
.++..+....| ++|++||.+|++++++|+|++|.|+++.. + .++..+.+|++||+. .+.++..++ .|.++
T Consensus 33 ~~~~~~~~~~~-~kge~l~~~Gd~~~~ly~I~~G~vkl~~~~~~G~e~i~~~~~~Gd~fG~~---~~~~~~~~~-~A~~d 107 (230)
T PRK09391 33 HAGLVASEFSY-KKGEEIYGEGEPADYVYQVESGAVRTYRLLSDGRRQIGAFHLPGDVFGLE---SGSTHRFTA-EAIVD 107 (230)
T ss_pred cccceeeeEEE-CCCCEEECCCCCCCeEEEEEeCEEEEEEECCCCcEEEEEEecCCceeccc---CCCcCCeEE-EEcCc
Confidence 45666778888 99999999999999999999999999762 2 356678999999974 455677788 78999
Q ss_pred eEEEEEeHHHHHHHhc
Q psy7149 151 CQFVCITQTDYYRIQH 166 (167)
Q Consensus 151 ~~ll~i~~~~f~~ll~ 166 (167)
|.++.|++++|.+++.
T Consensus 108 s~v~~i~~~~f~~l~~ 123 (230)
T PRK09391 108 TTVRLIKRRSLEQAAA 123 (230)
T ss_pred eEEEEEEHHHHHHHHh
Confidence 9999999999999875
No 22
>KOG0499|consensus
Probab=99.39 E-value=1.5e-12 Score=110.02 Aligned_cols=109 Identities=13% Similarity=0.126 Sum_probs=98.7
Q ss_pred HHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEE---cCceeEEecCCCeeeec
Q psy7149 56 LLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVEL---SDGRSQMLQVGDSFGIL 132 (167)
Q Consensus 56 i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~---~~~~~~~l~~Gd~FGe~ 132 (167)
-+..|+++.+|++-+...+..+.-.++...| -+|+.|++.|+.+.-+|||..|.|.|.- ++.++..|..|.+|||+
T Consensus 525 ~y~~lSKVqLFq~Cdr~mirDmllrLRsV~y-LPgDfVCkKGeiGkEMYIIk~GqvQVlGGp~~~~Vl~tL~~GsVFGEI 603 (815)
T KOG0499|consen 525 NYSILSKVQLFQGCDRQMIRDMLLRLRSVLY-LPGDFVCKKGEIGKEMYIIKHGQVQVLGGPDGTKVLVTLKAGSVFGEI 603 (815)
T ss_pred ehhhhhHHHHhhhhHHHHHHHHHHHhhceee-cCCceeeecccccceeEEeecceEEEecCCCCCEEEEEecccceeeee
Confidence 4678899999999999999999999999999 9999999999999999999999999976 34678899999999999
Q ss_pred ccc---cCCceeeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 133 PTM---EKLYHEGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 133 all---~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
+|+ .+..|+|+| +|..-|.+++++++++..++.
T Consensus 604 SLLaigG~nRRTAnV-~a~Gf~nLfvL~KkdLneil~ 639 (815)
T KOG0499|consen 604 SLLAIGGGNRRTANV-VAHGFANLFVLDKKDLNEILV 639 (815)
T ss_pred eeeeecCCCccchhh-hhcccceeeEecHhHHHHHHH
Confidence 988 345678888 688999999999999999875
No 23
>KOG0501|consensus
Probab=98.99 E-value=3.1e-10 Score=96.29 Aligned_cols=108 Identities=19% Similarity=0.233 Sum_probs=93.7
Q ss_pred HHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeeccccc
Q psy7149 57 LDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTME 136 (167)
Q Consensus 57 ~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~ 136 (167)
.+.+..+|.|+--++..++.|+......+- .||+.|++.|+..+++.||++|+++|...+.++.+|++||+||..-.-.
T Consensus 547 RKVFnEHpaFRLASDGCLRaLAm~f~~~H~-APGDLlYHtGESvDaLcFvVsGSLEVIQDDEVVAILGKGDVFGD~FWK~ 625 (971)
T KOG0501|consen 547 RKVFNEHPAFRLASDGCLRALAMEFQTNHC-APGDLLYHTGESVDALCFVVSGSLEVIQDDEVVAILGKGDVFGDEFWKE 625 (971)
T ss_pred hhhhccCcceeeccchhHHHHHHHHHhccC-CCcceeeecCCccceEEEEEecceEEeecCcEEEEeecCccchhHHhhh
Confidence 346778999999999999999999998887 9999999999999999999999999999999999999999999864433
Q ss_pred CC-ce-eeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 137 KL-YH-EGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 137 ~~-~r-~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
.. .. .+.| .|.+-|.+..|.++.+.++|.
T Consensus 626 ~t~~qs~ANV-RALTYcDLH~IKrd~Ll~VLd 656 (971)
T KOG0501|consen 626 NTLGQSAANV-RALTYCDLHMIKRDKLLKVLD 656 (971)
T ss_pred hhhhhhhhhh-hhhhhhhhhHHhHHHHHHHHH
Confidence 22 12 3456 799999999999999888763
No 24
>KOG2968|consensus
Probab=98.68 E-value=1.9e-08 Score=88.88 Aligned_cols=96 Identities=17% Similarity=0.188 Sum_probs=80.0
Q ss_pred hcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEE-----cCceeEEecCCCeeeecccccCCcee
Q psy7149 67 TNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVEL-----SDGRSQMLQVGDSFGILPTMEKLYHE 141 (167)
Q Consensus 67 ~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~-----~~~~~~~l~~Gd~FGe~all~~~~r~ 141 (167)
+.+|+- ++.+-..+.+... .+|+.+++|||.++.+|+|++|+++-.. .+.++..++.||.+|+...+.+.+|.
T Consensus 495 ~~lsp~-lr~~D~AldWv~l-~~g~alyrqgD~Sd~iyvVl~GRlRsv~~~~~~k~~i~~EygrGd~iG~~E~lt~~~R~ 572 (1158)
T KOG2968|consen 495 RRLSPF-LRKLDFALDWVRL-EPGQALYRQGDSSDSIYVVLNGRLRSVIRQSGGKKEIVGEYGRGDLIGEVEMLTKQPRA 572 (1158)
T ss_pred HhcCHH-HhhhhhhcceEEe-ccccHHHhcCCccCcEEEEecCeehhhhhccCccchhhhhccCcceeehhHHhhcCCcc
Confidence 344443 3556667778888 9999999999999999999999997643 23468889999999999999999999
Q ss_pred eEEEEecCceEEEEEeHHHHHHHh
Q psy7149 142 GVMRTRCDDCQFVCITQTDYYRIQ 165 (167)
Q Consensus 142 ~tv~~a~~~~~ll~i~~~~f~~ll 165 (167)
.|+ .|..++++.+||..-|.-+.
T Consensus 573 tTv-~AvRdSelariPe~l~~~ik 595 (1158)
T KOG2968|consen 573 TTV-MAVRDSELARIPEGLLNFIK 595 (1158)
T ss_pred ceE-EEEeehhhhhccHHHHHHHH
Confidence 999 78999999999998877553
No 25
>KOG3542|consensus
Probab=98.52 E-value=2.8e-07 Score=79.75 Aligned_cols=109 Identities=26% Similarity=0.381 Sum_probs=89.8
Q ss_pred HHhcCCCCCCCHHHHHHHHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcCc
Q psy7149 39 ECLEKDPSERTDDDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSDG 118 (167)
Q Consensus 39 ~~l~k~p~~R~~~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~ 118 (167)
..+.++|.-|+..++...+..|.++..|++|-...++.+|+.+++++| +...++|+.|+.+.+|||+++|+|-|.. .
T Consensus 18 e~~~k~~~~~t~~~~rN~~~~lh~ld~~snl~~~~lk~l~~~aryer~-~g~~ilf~~~~var~wyillsgsv~v~g--q 94 (1283)
T KOG3542|consen 18 ESLIKPPHLRTPDDIRNVYEQLHQLDTFSNLFIGPLKALCKTARYERH-PGQYILFRDGDVARSWYILLSGSVFVEG--Q 94 (1283)
T ss_pred hhccCCcccCChhhhhhHHHHHhhhhhhhhhhhhhHHHhhhhhhhhcC-CCceEEecccchhhheeeeeccceEeec--c
Confidence 456699999999999999999999999999999999999999999999 8888889999999999999999998743 1
Q ss_pred eeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEe
Q psy7149 119 RSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCIT 157 (167)
Q Consensus 119 ~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~ 157 (167)
++-|-.+||.. .|..|.+.+ ....+++.++++
T Consensus 95 ---i~mp~~~fgkr---~g~~r~~nc-lllq~semivid 126 (1283)
T KOG3542|consen 95 ---IYMPYGCFGKR---TGQNRTHNC-LLLQESEMIVID 126 (1283)
T ss_pred ---eecCccccccc---cccccccce-eeecccceeeee
Confidence 23355677765 355566666 345667777774
No 26
>PF04831 Popeye: Popeye protein conserved region; InterPro: IPR006916 The Popeye (POP) family of proteins, is restricted to vertebrates and is preferentially expressed in developing and adult striated muscle. It is represented by a conserved region which includes three potential transmembrane domains []. The strong conservation of POP genes during evolution and their preferential expression in heart and skeletal muscle suggest that these novel proteins may have an important function in these tissues in vertebrates.; GO: 0016020 membrane
Probab=98.19 E-value=5.1e-05 Score=54.68 Aligned_cols=97 Identities=15% Similarity=0.244 Sum_probs=78.3
Q ss_pred cCCHHHHHHHhhh-cceeEEccCCcEEEecC-CCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeeccc-----ccCCce
Q psy7149 68 NMTLAVRKALCGV-MVFAVVEKAGTIVMNDG-EELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPT-----MEKLYH 140 (167)
Q Consensus 68 ~L~~~~l~~l~~~-~~~~~~~~~ge~I~~~G-d~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~al-----l~~~~r 140 (167)
++|..+.++++.+ ..+... ++|+.-.-|| .+.+.+-++++|++.|+.++..+..+.|-++..-... -.+...
T Consensus 14 ~Vs~~~Fk~iv~~~~~i~~L-~~~~~YAvE~~T~~drLSlLLsGr~~Vs~~g~fLH~I~p~qFlDSPEW~s~~~s~~~~F 92 (153)
T PF04831_consen 14 KVSRQQFKKIVGCCCEIRTL-KKGETYAVEGKTPIDRLSLLLSGRMRVSCDGRFLHYIYPYQFLDSPEWESLRPSEDDKF 92 (153)
T ss_pred CCCHHHHHHHHhhhceEEEe-cCCceeeecCCcccceEeEEEcCcEEEEECCEeeEeecccccccChhhhccccCCCCeE
Confidence 4688899999888 666777 9999998888 5678999999999999999888888877666653222 234455
Q ss_pred eeEEEEecCceEEEEEeHHHHHHHhc
Q psy7149 141 EGVMRTRCDDCQFVCITQTDYYRIQH 166 (167)
Q Consensus 141 ~~tv~~a~~~~~ll~i~~~~f~~ll~ 166 (167)
..|+ +|.++|..+.++++.+..++.
T Consensus 93 QVTi-tA~~~Cryl~W~R~kL~~~l~ 117 (153)
T PF04831_consen 93 QVTI-TAEEDCRYLCWPREKLYLLLA 117 (153)
T ss_pred EEEE-EEcCCcEEEEEEHHHHHHHHh
Confidence 7788 899999999999999988775
No 27
>PRK11832 putative DNA-binding transcriptional regulator; Provisional
Probab=98.12 E-value=5.8e-05 Score=57.41 Aligned_cols=91 Identities=11% Similarity=0.062 Sum_probs=70.9
Q ss_pred HHHhhhcceeEEccCCcEE-EecCCCCCeEEEEEEeEEEEEEcCc-eeEEecCCCeeeecccccCCceeeEEEEecCceE
Q psy7149 75 KALCGVMVFAVVEKAGTIV-MNDGEELDSWSVVINGCVEVELSDG-RSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQ 152 (167)
Q Consensus 75 ~~l~~~~~~~~~~~~ge~I-~~~Gd~~~~lyiI~~G~v~v~~~~~-~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ 152 (167)
..|....+...+ ++|..+ +........+|++++|.|.+.+.++ .+.....--+||-...+.+....... .|.++|+
T Consensus 16 ~~L~~~g~~~~~-~~~~~~i~~~~~~~~~~~ll~~G~vsirr~d~ll~~t~~aP~IlGl~~~~~~~~~~~~l-~ae~~c~ 93 (207)
T PRK11832 16 KCLSRYGTRFEF-NNEKQVIFSSDVNNEDTFVILEGVISLRREENVLIGITQAPYIMGLADGLMKNDIPYKL-ISEGNCT 93 (207)
T ss_pred HHhhccCCeEec-CCCcEEeccccCCCceEEEEEeceEEEEecCCeEEEeccCCeEeecccccCCCCceEEE-EEcCccE
Confidence 456667778888 888886 6555555789999999999966554 45666778899987777666555667 6889999
Q ss_pred EEEEeHHHHHHHhcC
Q psy7149 153 FVCITQTDYYRIQHQ 167 (167)
Q Consensus 153 ll~i~~~~f~~ll~~ 167 (167)
...+|.++|.+++++
T Consensus 94 ~~~i~~~~~~~iie~ 108 (207)
T PRK11832 94 GYHLPAKQTITLIEQ 108 (207)
T ss_pred EEEeeHHHHHHHHHH
Confidence 999999999998764
No 28
>KOG2968|consensus
Probab=98.05 E-value=2.2e-05 Score=70.08 Aligned_cols=97 Identities=16% Similarity=0.171 Sum_probs=77.2
Q ss_pred hhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEE-----------cCceeEEecCCCeeeec
Q psy7149 64 KAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVEL-----------SDGRSQMLQVGDSFGIL 132 (167)
Q Consensus 64 ~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~-----------~~~~~~~l~~Gd~FGe~ 132 (167)
..|.+|+.++... ...+.+...+|..+|+....+|+++.|.+.++. .+..+..++||+++|-+
T Consensus 374 ~~~l~~~~~~si~------ll~~~keitiiv~q~a~~~gl~~ii~g~l~v~~sm~~~s~~~~~~~~~~f~v~pG~ivgyl 447 (1158)
T KOG2968|consen 374 DLFLGLSNEDSIV------LLELEKEITIIVEQGARDVGLYYIIKGSLSVYQSMYDVSGNLVLAGMLLFVVGPGEIVGYL 447 (1158)
T ss_pred HHHhhhcccchhh------hhccccceEEEEecccccceeeEEeecceeeeehhcccccccccccceEEEecCCceechh
Confidence 3455555555222 223326677789999999999999999998864 12356778999999999
Q ss_pred ccccCCceeeEEEEecCceEEEEEeHHHHHHHhcC
Q psy7149 133 PTMEKLYHEGVMRTRCDDCQFVCITQTDYYRIQHQ 167 (167)
Q Consensus 133 all~~~~r~~tv~~a~~~~~ll~i~~~~f~~ll~~ 167 (167)
+++.|.+...++ +|..+|.++.+++.+|.+++.+
T Consensus 448 a~lt~e~S~~ti-rArsdt~v~~isrs~l~~~~~~ 481 (1158)
T KOG2968|consen 448 AILTNEPSFITI-RARSDTRVLFISRSDLERFLDA 481 (1158)
T ss_pred hhhcCCcceEEE-EEecceEEEEeeHHHHHHHHHh
Confidence 999999999999 7899999999999999999864
No 29
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=96.33 E-value=0.05 Score=33.44 Aligned_cols=67 Identities=13% Similarity=0.183 Sum_probs=44.1
Q ss_pred eEEccCCcEEEecCCCCC-eEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEE
Q psy7149 84 AVVEKAGTIVMNDGEELD-SWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCI 156 (167)
Q Consensus 84 ~~~~~~ge~I~~~Gd~~~-~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i 156 (167)
..+ ++|+..-..-.+.. .+++|++|++.+..+ +....+++||.+= +=.+.++.... ...++|.++.|
T Consensus 3 ~~~-~pG~~~~~h~H~~~~e~~~vl~G~~~~~~~-~~~~~l~~Gd~~~---i~~~~~H~~~n-~~~~~~~~l~V 70 (71)
T PF07883_consen 3 VTL-PPGGSIPPHRHPGEDEFFYVLSGEGTLTVD-GERVELKPGDAIY---IPPGVPHQVRN-PGDEPARFLVV 70 (71)
T ss_dssp EEE-ETTEEEEEEEESSEEEEEEEEESEEEEEET-TEEEEEETTEEEE---EETTSEEEEEE-ESSSEEEEEEE
T ss_pred EEE-CCCCCCCCEECCCCCEEEEEEECCEEEEEc-cEEeEccCCEEEE---ECCCCeEEEEE-CCCCCEEEEEE
Confidence 345 78886654445555 899999999999854 4477899998762 12345555444 44456766654
No 30
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=94.12 E-value=0.51 Score=33.12 Aligned_cols=66 Identities=23% Similarity=0.250 Sum_probs=42.1
Q ss_pred eEEccCCcEEEecCCCCCeEEEEEEeEEEEE-EcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEE
Q psy7149 84 AVVEKAGTIVMNDGEELDSWSVVINGCVEVE-LSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCI 156 (167)
Q Consensus 84 ~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~-~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i 156 (167)
..+ ++|+.+-..-.....+++|++|++.+. ..++....+++||+|--. .+.++.... .+++.++.+
T Consensus 40 ~~l-~pG~~~~~h~h~~~E~~yVL~G~~~~~~i~~g~~~~L~aGD~i~~~---~~~~H~~~N---~e~~~~l~v 106 (125)
T PRK13290 40 TTI-YAGTETHLHYKNHLEAVYCIEGEGEVEDLATGEVHPIRPGTMYALD---KHDRHYLRA---GEDMRLVCV 106 (125)
T ss_pred EEE-CCCCcccceeCCCEEEEEEEeCEEEEEEcCCCEEEEeCCCeEEEEC---CCCcEEEEc---CCCEEEEEE
Confidence 345 777655322111236899999999998 555667899999998432 344444333 367777665
No 31
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=93.78 E-value=0.18 Score=31.96 Aligned_cols=40 Identities=25% Similarity=0.410 Sum_probs=30.7
Q ss_pred cCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 88 KAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 88 ~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
.+|..-.... .+-+.+|++|+|.+...++....+++||.|
T Consensus 15 ~pg~~~~~~~--~~E~~~vleG~v~it~~~G~~~~~~aGD~~ 54 (74)
T PF05899_consen 15 TPGKFPWPYP--EDEFFYVLEGEVTITDEDGETVTFKAGDAF 54 (74)
T ss_dssp ECEEEEEEES--SEEEEEEEEEEEEEEETTTEEEEEETTEEE
T ss_pred CCceeEeeCC--CCEEEEEEEeEEEEEECCCCEEEEcCCcEE
Confidence 4555333332 277788999999999988888999999988
No 32
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=90.83 E-value=0.82 Score=31.84 Aligned_cols=49 Identities=22% Similarity=0.323 Sum_probs=39.4
Q ss_pred eeEEccCCcEEEecCCC-CCeEEEEEEeEEEEEEcCceeEEecCCCeeeecc
Q psy7149 83 FAVVEKAGTIVMNDGEE-LDSWSVVINGCVEVELSDGRSQMLQVGDSFGILP 133 (167)
Q Consensus 83 ~~~~~~~ge~I~~~Gd~-~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~a 133 (167)
...+ ++|..+-.--.+ .....++++|++.+..+ +....+.+||++-.-+
T Consensus 47 ~v~~-~~G~~~~~H~hp~~~~~~~Vl~G~~~~~~~-g~~~~l~~Gd~i~ip~ 96 (131)
T COG1917 47 LVTF-EPGAVIPWHTHPLGEQTIYVLEGEGTVQLE-GEKKELKAGDVIIIPP 96 (131)
T ss_pred EEEE-CCCcccccccCCCcceEEEEEecEEEEEec-CCceEecCCCEEEECC
Confidence 3455 888888776666 77899999999999888 7788899999996543
No 33
>smart00835 Cupin_1 Cupin. This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.
Probab=88.70 E-value=3.3 Score=29.42 Aligned_cols=66 Identities=20% Similarity=0.210 Sum_probs=40.2
Q ss_pred cCCcEEEecCCC-CCeEEEEEEeEEEEEEcCc-----eeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEe
Q psy7149 88 KAGTIVMNDGEE-LDSWSVVINGCVEVELSDG-----RSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCIT 157 (167)
Q Consensus 88 ~~ge~I~~~Gd~-~~~lyiI~~G~v~v~~~~~-----~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~ 157 (167)
.+|...-..-.+ ...+++|++|+..+...+. ....+.+||.|=-- .+.++.... ...+++.++.++
T Consensus 38 ~pg~~~~~h~H~~~~e~~~Vl~G~~~~~~~~~~~~~~~~~~l~~GD~~~ip---~g~~H~~~n-~~~~~~~~l~~~ 109 (146)
T smart00835 38 EPGGMLPPHYHPRATELLYVVRGEGRVGVVDPNGNKVYDARLREGDVFVVP---QGHPHFQVN-SGDENLEFVAFN 109 (146)
T ss_pred cCCcCcCCeeCCCCCEEEEEEeCeEEEEEEeCCCCeEEEEEecCCCEEEEC---CCCEEEEEc-CCCCCEEEEEEe
Confidence 777765444333 5689999999999965332 36778999987332 233333222 233456666553
No 34
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=86.97 E-value=4.3 Score=30.02 Aligned_cols=53 Identities=17% Similarity=0.295 Sum_probs=36.5
Q ss_pred CCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEE
Q psy7149 99 ELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCI 156 (167)
Q Consensus 99 ~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i 156 (167)
++.-+++|++|++.+..++ ....+++||.+=- =.+.++.... ...++|.++.+
T Consensus 127 ~~~E~~~Vl~G~~~~~~~~-~~~~l~~Gd~~~~---~~~~~H~~~n-~~~~~~~~l~~ 179 (185)
T PRK09943 127 QGEEIGTVLEGEIVLTING-QDYHLVAGQSYAI---NTGIPHSFSN-TSAGICRIISA 179 (185)
T ss_pred CCcEEEEEEEeEEEEEECC-EEEEecCCCEEEE---cCCCCeeeeC-CCCCCeEEEEE
Confidence 4568899999999998765 4578999998722 2345665444 34456766665
No 35
>TIGR03037 anthran_nbaC 3-hydroxyanthranilate 3,4-dioxygenase. Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase. This enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.
Probab=86.89 E-value=2.7 Score=30.78 Aligned_cols=58 Identities=16% Similarity=0.269 Sum_probs=37.9
Q ss_pred EecCCCCCeEEEEEEeEEEEEE-cCc--eeEEecCCCeeeeccccc-CCceeeEEEEecCceEEEEEeHH
Q psy7149 94 MNDGEELDSWSVVINGCVEVEL-SDG--RSQMLQVGDSFGILPTME-KLYHEGVMRTRCDDCQFVCITQT 159 (167)
Q Consensus 94 ~~~Gd~~~~lyiI~~G~v~v~~-~~~--~~~~l~~Gd~FGe~all~-~~~r~~tv~~a~~~~~ll~i~~~ 159 (167)
++.. +.+-+|++++|.+.+.. .++ ....+++||+| ++. +.+++ - .+..+|..+.|.+.
T Consensus 43 ~H~~-~tdE~FyqleG~~~l~v~d~g~~~~v~L~eGd~f----lvP~gvpHs-P--~r~~~t~~LvIE~~ 104 (159)
T TIGR03037 43 FHDD-PGEEFFYQLKGEMYLKVTEEGKREDVPIREGDIF----LLPPHVPHS-P--QRPAGSIGLVIERK 104 (159)
T ss_pred cccC-CCceEEEEEcceEEEEEEcCCcEEEEEECCCCEE----EeCCCCCcc-c--ccCCCcEEEEEEeC
Confidence 4443 37899999999999954 222 36778999988 443 33332 2 23567888887654
No 36
>PRK11171 hypothetical protein; Provisional
Probab=86.41 E-value=7.2 Score=30.84 Aligned_cols=68 Identities=15% Similarity=0.128 Sum_probs=43.1
Q ss_pred eEEccCCcEEEecCC--CCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEe
Q psy7149 84 AVVEKAGTIVMNDGE--ELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCIT 157 (167)
Q Consensus 84 ~~~~~~ge~I~~~Gd--~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~ 157 (167)
..+ ++|...-.... ..+.+++|++|++.+..++ ....|.+||++= +-.+.++.... ...++|.++.+.
T Consensus 66 ~~l-~PG~~~~~~~h~~~~eE~~~VlsG~l~v~~~g-~~~~L~~GDsi~---~p~~~~H~~~N-~g~~~a~~l~v~ 135 (266)
T PRK11171 66 VEV-EPGGGSDQPEPDEGAETFLFVVEGEITLTLEG-KTHALSEGGYAY---LPPGSDWTLRN-AGAEDARFHWIR 135 (266)
T ss_pred EEE-CCCCcCCCCCCCCCceEEEEEEeCEEEEEECC-EEEEECCCCEEE---ECCCCCEEEEE-CCCCCEEEEEEE
Confidence 344 67664432222 2468899999999998754 467899999872 22455555444 345667777664
No 37
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=86.36 E-value=0.16 Score=39.40 Aligned_cols=20 Identities=15% Similarity=0.135 Sum_probs=16.5
Q ss_pred CceeeeeCCCcccccccCCc
Q psy7149 3 RGVNIVFDDASSNLVQSNGF 22 (167)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~ 22 (167)
.|.++|||||++|||.-..+
T Consensus 89 ~gl~~GADDYl~KPf~~~EL 108 (229)
T COG0745 89 LGLEAGADDYLTKPFSPREL 108 (229)
T ss_pred HHHhCcCCeeeeCCCCHHHH
Confidence 47899999999999985443
No 38
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=85.16 E-value=5.3 Score=31.50 Aligned_cols=53 Identities=17% Similarity=0.204 Sum_probs=35.6
Q ss_pred CeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEeH
Q psy7149 101 DSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCITQ 158 (167)
Q Consensus 101 ~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~~ 158 (167)
+.+.+|++|++.+..++. ...|++||++=-- .+.++.... ...++|.++.+.+
T Consensus 81 ee~iyVl~G~l~v~~~g~-~~~L~~Gd~~y~p---a~~~H~~~N-~~~~~a~~l~v~k 133 (260)
T TIGR03214 81 ETFLFVISGEVNVTAEGE-THELREGGYAYLP---PGSKWTLAN-AQAEDARFFLYKK 133 (260)
T ss_pred EEEEEEEeCEEEEEECCE-EEEECCCCEEEEC---CCCCEEEEE-CCCCCEEEEEEEe
Confidence 689999999999986554 4689999987322 344554433 2345677766543
No 39
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=83.88 E-value=4.1 Score=30.35 Aligned_cols=55 Identities=16% Similarity=0.276 Sum_probs=37.0
Q ss_pred CCCCeEEEEEEeEEEEEE-cCc--eeEEecCCCeeeeccccc-CCceeeEEEEecCceEEEEEeHH
Q psy7149 98 EELDSWSVVINGCVEVEL-SDG--RSQMLQVGDSFGILPTME-KLYHEGVMRTRCDDCQFVCITQT 159 (167)
Q Consensus 98 d~~~~lyiI~~G~v~v~~-~~~--~~~~l~~Gd~FGe~all~-~~~r~~tv~~a~~~~~ll~i~~~ 159 (167)
++.+-+|++++|.+.+.. .++ ....+++||+| ++. +.+++ -. +..+|..+.|.+.
T Consensus 52 ~~tdE~FyqleG~~~l~v~d~g~~~~v~L~eGd~f----llP~gvpHs-P~--r~~~tv~LviE~~ 110 (177)
T PRK13264 52 DPGEEFFYQLEGDMYLKVQEDGKRRDVPIREGEMF----LLPPHVPHS-PQ--REAGSIGLVIERK 110 (177)
T ss_pred CCCceEEEEECCeEEEEEEcCCceeeEEECCCCEE----EeCCCCCcC-Cc--cCCCeEEEEEEeC
Confidence 467889999999999865 232 46678999988 443 33332 22 3567888887543
No 40
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=82.70 E-value=6.5 Score=27.32 Aligned_cols=44 Identities=23% Similarity=0.355 Sum_probs=30.9
Q ss_pred eEEccCCcEE-EecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 84 AVVEKAGTIV-MNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 84 ~~~~~~ge~I-~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
..+ ++|+-+ .+-....+-+|+|++|...+..++. ...+++||++
T Consensus 41 ~~v-~pg~~~~~~~H~~~dE~~~Vl~G~g~v~~~~~-~~~v~~gd~~ 85 (127)
T COG0662 41 ILV-KPGEEISLHHHHHRDEHWYVLEGTGKVTIGGE-EVEVKAGDSV 85 (127)
T ss_pred EEE-CCCcccCcccccCcceEEEEEeeEEEEEECCE-EEEecCCCEE
Confidence 344 666654 4444447899999999999988743 4567787766
No 41
>COG3450 Predicted enzyme of the cupin superfamily [General function prediction only]
Probab=77.77 E-value=5.5 Score=27.62 Aligned_cols=30 Identities=33% Similarity=0.566 Sum_probs=25.5
Q ss_pred CeEEEEEEeEEEEEEcCceeEEecCCCeee
Q psy7149 101 DSWSVVINGCVEVELSDGRSQMLQVGDSFG 130 (167)
Q Consensus 101 ~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FG 130 (167)
+-+.-|++|.+.++..++....+++||.|=
T Consensus 64 ~E~chil~G~v~~T~d~Ge~v~~~aGD~~~ 93 (116)
T COG3450 64 DEFCHILEGRVEVTPDGGEPVEVRAGDSFV 93 (116)
T ss_pred ceEEEEEeeEEEEECCCCeEEEEcCCCEEE
Confidence 445567899999999999999999999883
No 42
>TIGR02451 anti_sig_ChrR anti-sigma factor, putative, ChrR family. The member of this family from Rhodobacter sphaeroides has been shown both to form a complex with sigma(E) and to negatively regulate tetrapyrrole biosynthesis. This protein likely contains (at least) two distinct functional domains; several smaller homologs (excluded by the model) show homology only to the C-terminal, including a motif PxHxHxGxE.
Probab=76.45 E-value=9.3 Score=29.26 Aligned_cols=68 Identities=15% Similarity=0.196 Sum_probs=41.9
Q ss_pred cceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEeH
Q psy7149 81 MVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCITQ 158 (167)
Q Consensus 81 ~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~~ 158 (167)
..+.++ ++|..+-.....+.-+.+|++|+.. .+. ..+.+||+.=.- .+..+...+ ...++|.++.+.-
T Consensus 129 v~Ll~i-~pG~~~p~H~H~G~E~tlVLeG~f~--de~---g~y~~Gd~i~~p---~~~~H~p~a-~~~~~Cicl~v~d 196 (215)
T TIGR02451 129 VRLLYI-EAGQSIPQHTHKGFELTLVLHGAFS--DET---GVYGVGDFEEAD---GSVQHQPRT-VSGGDCLCLAVLD 196 (215)
T ss_pred EEEEEE-CCCCccCCCcCCCcEEEEEEEEEEE--cCC---CccCCCeEEECC---CCCCcCccc-CCCCCeEEEEEec
Confidence 445566 8888888887788888899999963 222 246778776221 222333333 2234588887643
No 43
>COG3718 IolB Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]
Probab=76.11 E-value=14 Score=29.01 Aligned_cols=65 Identities=12% Similarity=0.119 Sum_probs=41.6
Q ss_pred eEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCc---------eeeEEEEecCceEEE
Q psy7149 84 AVVEKAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLY---------HEGVMRTRCDDCQFV 154 (167)
Q Consensus 84 ~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~---------r~~tv~~a~~~~~ll 154 (167)
.+. ++|+..-..-..-..+.++++|++.|...+.....++. .++.|.+.| +.+++ +|.+++++.
T Consensus 34 ~~L-~~Ges~~~~~~~~E~clV~v~Gk~~vs~~g~~f~~iG~-----R~SvFe~~p~~~vYvp~g~~~~v-tA~t~~~vA 106 (270)
T COG3718 34 LRL-AAGESATEETGDRERCLVLVTGKATVSAHGSTFGEIGT-----RMSVFERKPPDSVYVPAGSAFSV-TATTDLEVA 106 (270)
T ss_pred EEc-cCCCcccccCCCceEEEEEEeeeEEEeeccchHhhccc-----ccccccCCCCCeEEecCCceEEE-EeecceEEE
Confidence 344 78888766666677899999999999875543333331 123444433 34566 778887665
Q ss_pred E
Q psy7149 155 C 155 (167)
Q Consensus 155 ~ 155 (167)
.
T Consensus 107 v 107 (270)
T COG3718 107 V 107 (270)
T ss_pred E
Confidence 4
No 44
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=75.15 E-value=2 Score=33.07 Aligned_cols=78 Identities=17% Similarity=0.148 Sum_probs=49.3
Q ss_pred eeCCCccccc-ccCCcccccccccccHHHHHHHHhcCCCCCCCHHHHHHHHHHhhcCh-hhhcCC-HHHHHHHhhhccee
Q psy7149 8 VFDDASSNLV-QSNGFVSSSLFQSLIVKDRVRECLEKDPSERTDDDIEQLLDFTQHLK-AFTNMT-LAVRKALCGVMVFA 84 (167)
Q Consensus 8 ~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~r~~l~k~p~~R~~~~~~~i~~~L~~~~-~F~~L~-~~~l~~l~~~~~~~ 84 (167)
..|||||..+ ++++-||+++.+.+..---..+ ++-|...-+.-|+-.++..|+++. ++.++- +++++++++.|..+
T Consensus 85 e~eDYSSss~~EEetTISAKvm~~ikavLgaTK-iDLPVDINDPYDlGLLLRhLRHHSNLLAnIgdP~VreqVLsAMqEe 163 (238)
T PF02084_consen 85 EDEDYSSSSVDEEETTISAKVMEDIKAVLGATK-IDLPVDINDPYDLGLLLRHLRHHSNLLANIGDPEVREQVLSAMQEE 163 (238)
T ss_pred CccccccccccCCCccccHHHHHHHHHHhcccc-cccccccCChhhHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHhhh
Confidence 5789999885 5788888877655421100001 233444445566777888888654 777774 56777888888765
Q ss_pred EE
Q psy7149 85 VV 86 (167)
Q Consensus 85 ~~ 86 (167)
+.
T Consensus 164 ee 165 (238)
T PF02084_consen 164 EE 165 (238)
T ss_pred HH
Confidence 44
No 45
>PF12973 Cupin_7: ChrR Cupin-like domain; PDB: 3O14_B 2Z2S_F 2Q1Z_B 3EBR_A.
Probab=74.41 E-value=16 Score=23.60 Aligned_cols=64 Identities=13% Similarity=0.142 Sum_probs=39.6
Q ss_pred hcceeEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEE
Q psy7149 80 VMVFAVVEKAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVC 155 (167)
Q Consensus 80 ~~~~~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~ 155 (167)
.+.+.++ ++|..+-.....+....+|++|+..- +++ .+.+|+++=.- .....+. .+.+.|.++.
T Consensus 25 ~~~L~r~-~pG~~~p~H~H~g~ee~~VLeG~~~d--~~~---~~~~G~~~~~p-----~g~~h~~-~s~~gc~~~v 88 (91)
T PF12973_consen 25 RVSLLRL-EPGASLPRHRHPGGEEILVLEGELSD--GDG---RYGAGDWLRLP-----PGSSHTP-RSDEGCLILV 88 (91)
T ss_dssp EEEEEEE--TTEEEEEEEESS-EEEEEEECEEEE--TTC---EEETTEEEEE------TTEEEEE-EESSCEEEEE
T ss_pred EEEEEEE-CCCCCcCccCCCCcEEEEEEEEEEEE--CCc---cCCCCeEEEeC-----CCCcccc-CcCCCEEEEE
Confidence 3456677 89988877667778888999999874 222 34777765222 1223344 3567887764
No 46
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=74.36 E-value=34 Score=28.45 Aligned_cols=67 Identities=19% Similarity=0.233 Sum_probs=41.5
Q ss_pred eEEccCCcEEE-ecCCCCCeEEEEEEeEEEEEEc----CceeEEecCCCeeeecccc-cCCceeeEEEEecCceEEEEE
Q psy7149 84 AVVEKAGTIVM-NDGEELDSWSVVINGCVEVELS----DGRSQMLQVGDSFGILPTM-EKLYHEGVMRTRCDDCQFVCI 156 (167)
Q Consensus 84 ~~~~~~ge~I~-~~Gd~~~~lyiI~~G~v~v~~~----~~~~~~l~~Gd~FGe~all-~~~~r~~tv~~a~~~~~ll~i 156 (167)
... ++|...- +-....+.+|+|++|++++... +.....+++||++ ++ .+..+.... .-.++++++.+
T Consensus 250 ~~l-~PG~~~~~H~H~~~~E~~yvl~G~~~~~v~d~~g~~~~~~l~~GD~~----~iP~g~~H~i~N-~G~e~l~fL~i 322 (367)
T TIGR03404 250 VTV-EPGAMRELHWHPNADEWQYFIQGQARMTVFAAGGNARTFDYQAGDVG----YVPRNMGHYVEN-TGDETLVFLEV 322 (367)
T ss_pred EEE-CCCCccCCeeCcCCCeEEEEEEEEEEEEEEecCCcEEEEEECCCCEE----EECCCCeEEEEE-CCCCCEEEEEE
Confidence 344 6776553 3334477899999999999652 3456779999976 23 233333333 23456777766
No 47
>TIGR01479 GMP_PMI mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase. This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase (EC 5.3.1.8) (PMI) and mannose-1-phosphate guanylyltransferase (EC 2.7.7.22) in Pseudomonas aeruginosa, Xanthomonas campestris, and Gluconacetobacter xylinus. The literature on the enzyme from E. coli attributes mannose-6-phosphate isomerase activity to an adjacent gene, but the present sequence has not been shown to lack the activity. The PMI domain is C-terminal.
Probab=74.10 E-value=26 Score=30.10 Aligned_cols=65 Identities=15% Similarity=0.127 Sum_probs=38.6
Q ss_pred cCCcEEE-ecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEe
Q psy7149 88 KAGTIVM-NDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCIT 157 (167)
Q Consensus 88 ~~ge~I~-~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~ 157 (167)
++|.-+- +.....+-.++|++|++.+..++. ...+++||.+--- .+.++.... ...++++++.+-
T Consensus 384 ~PG~~~~~h~H~~~~E~~~Vl~G~~~v~~dg~-~~~l~~GDsi~ip---~~~~H~~~N-~g~~~~~~i~v~ 449 (468)
T TIGR01479 384 KPGEKLSLQMHHHRAEHWIVVSGTARVTIGDE-TLLLTENESTYIP---LGVIHRLEN-PGKIPLELIEVQ 449 (468)
T ss_pred CCCCccCccccCCCceEEEEEeeEEEEEECCE-EEEecCCCEEEEC---CCCcEEEEc-CCCCCEEEEEEE
Confidence 6665431 122223345689999999987654 4689999987322 344554433 344566666553
No 48
>COG3837 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=72.41 E-value=14 Score=26.96 Aligned_cols=50 Identities=20% Similarity=0.293 Sum_probs=35.9
Q ss_pred eeEEccCCc--EEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeeccc
Q psy7149 83 FAVVEKAGT--IVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPT 134 (167)
Q Consensus 83 ~~~~~~~ge--~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~al 134 (167)
+... ++|. ..++-....+-|++|++|+..+..+++ ...+.|||+.|--|=
T Consensus 46 ~~~v-~PG~~Ss~~H~Hs~edEfv~ILeGE~~l~~d~~-e~~lrpGD~~gFpAG 97 (161)
T COG3837 46 LEIV-EPGGESSLRHWHSAEDEFVYILEGEGTLREDGG-ETRLRPGDSAGFPAG 97 (161)
T ss_pred eEEe-CCCCccccccccccCceEEEEEcCceEEEECCe-eEEecCCceeeccCC
Confidence 3444 5553 345566677889999999998876554 567899999987653
No 49
>PF10330 Stb3: Putative Sin3 binding protein; InterPro: IPR018818 This entry represents Sin3 binding proteins conserved in fungi. Sin3p does not bind DNA directly even though the yeast SIN3 gene functions as a transcriptional repressor. Sin3p is part of a large multiprotein complex []. Stb3 appears to bind directly to ribosomal RNA Processing Elements (RRPE) although there are no obvious domains which would accord with this, implying that Stb3 may be a novel RNA-binding protein [].
Probab=71.99 E-value=6.3 Score=26.03 Aligned_cols=42 Identities=14% Similarity=0.301 Sum_probs=27.7
Q ss_pred HHHHHHHh-hcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEe
Q psy7149 53 IEQLLDFT-QHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMN 95 (167)
Q Consensus 53 ~~~i~~~L-~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~ 95 (167)
+..+...| ..+|-|+.||+...+.|.-.+-..-= ..|+++|.
T Consensus 23 IRhI~~~Lt~~vPgF~~ls~sKqRRLi~~ALE~gd-~~~~VvFE 65 (92)
T PF10330_consen 23 IRHITGYLTTSVPGFSDLSPSKQRRLIMAALEGGD-KDGDVVFE 65 (92)
T ss_pred HHHHHHHHhccCCCcccCCHHHHHHHHHHHHhcCC-CCCCEEEE
Confidence 44566666 48999999999988877654433222 45556654
No 50
>PRK11171 hypothetical protein; Provisional
Probab=71.11 E-value=47 Score=26.22 Aligned_cols=71 Identities=8% Similarity=0.022 Sum_probs=45.5
Q ss_pred hcceeEEccCCcEEEe-cCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEE
Q psy7149 80 VMVFAVVEKAGTIVMN-DGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCI 156 (167)
Q Consensus 80 ~~~~~~~~~~ge~I~~-~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i 156 (167)
.+....+ ++|..+-. ........++|++|+..+..+ +....+.+||++=-- .+.++.... ...++|..+..
T Consensus 185 ~~~~~~l-~PG~~~~~~~~~~~ee~i~Vl~G~~~~~~~-~~~~~l~~GD~i~~~---~~~~h~~~N-~g~~~~~yl~~ 256 (266)
T PRK11171 185 HVNIVTF-EPGASIPFVETHVMEHGLYVLEGKGVYRLN-NDWVEVEAGDFIWMR---AYCPQACYA-GGPGPFRYLLY 256 (266)
T ss_pred EEEEEEE-CCCCEEccCcCCCceEEEEEEeCEEEEEEC-CEEEEeCCCCEEEEC---CCCCEEEEC-CCCCcEEEEEE
Confidence 3444556 89988754 466777999999999999764 456778999987332 233443333 23345544443
No 51
>PF11699 CENP-C_C: Mif2/CENP-C like; PDB: 2VPV_B.
Probab=69.95 E-value=12 Score=24.37 Aligned_cols=29 Identities=34% Similarity=0.378 Sum_probs=21.0
Q ss_pred CCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 100 LDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 100 ~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
..-.++|++|.|+|..++. ...+++|++|
T Consensus 33 ~~~vF~V~~G~v~Vti~~~-~f~v~~G~~F 61 (85)
T PF11699_consen 33 NTMVFYVIKGKVEVTIHET-SFVVTKGGSF 61 (85)
T ss_dssp EEEEEEEEESEEEEEETTE-EEEEETT-EE
T ss_pred cEEEEEEEeCEEEEEEcCc-EEEEeCCCEE
Confidence 4467889999999987654 3447788777
No 52
>PRK15460 cpsB mannose-1-phosphate guanyltransferase; Provisional
Probab=67.76 E-value=43 Score=28.97 Aligned_cols=65 Identities=14% Similarity=0.054 Sum_probs=40.3
Q ss_pred cCCcEE-EecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEe
Q psy7149 88 KAGTIV-MNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCIT 157 (167)
Q Consensus 88 ~~ge~I-~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~ 157 (167)
++|... ........-+++|++|++.+..++. ...+++||.+= +=.+.++.... ...++++++.+-
T Consensus 393 ~PG~~~~~~~H~~~~E~~~VlsG~~~v~idg~-~~~L~~GDSi~---ip~g~~H~~~N-~g~~~l~iI~V~ 458 (478)
T PRK15460 393 KPGEGLSVQMHHHRAEHWVVVAGTAKVTIDGD-IKLLGENESIY---IPLGATHCLEN-PGKIPLDLIEVR 458 (478)
T ss_pred CCCCcCCcCCCCCCceEEEEEeeEEEEEECCE-EEEecCCCEEE---ECCCCcEEEEc-CCCCCEEEEEEE
Confidence 666543 1222234467779999999987654 57789999872 22455655444 345667776654
No 53
>COG4566 TtrR Response regulator [Signal transduction mechanisms]
Probab=67.15 E-value=1.4 Score=33.36 Aligned_cols=23 Identities=4% Similarity=0.014 Sum_probs=19.6
Q ss_pred CceeeeeCCCcccccccCCcccc
Q psy7149 3 RGVNIVFDDASSNLVQSNGFVSS 25 (167)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~ 25 (167)
++|.-||=||+.|||++..+++.
T Consensus 93 ~AmK~GAvDFLeKP~~~q~Llda 115 (202)
T COG4566 93 QAMKAGAVDFLEKPFSEQDLLDA 115 (202)
T ss_pred HHHHcchhhHHhCCCchHHHHHH
Confidence 46778999999999998887766
No 54
>COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]
Probab=66.68 E-value=0.56 Score=40.19 Aligned_cols=24 Identities=8% Similarity=0.109 Sum_probs=21.6
Q ss_pred CCceeeeeCCCcccccccCCcccc
Q psy7149 2 DRGVNIVFDDASSNLVQSNGFVSS 25 (167)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~ 25 (167)
++||..|++||++||++...+++.
T Consensus 92 k~Am~lGV~dYLLKP~~k~eL~~~ 115 (475)
T COG4753 92 KKAMKLGVKDYLLKPVDKAELEEA 115 (475)
T ss_pred HHHHhcCchhheeCcCCHHHHHHH
Confidence 689999999999999998888765
No 55
>PF04962 KduI: KduI/IolB family; InterPro: IPR021120 The KduI/IolB family of enzymes includes 5-keto 4-deoxyuronate isomerase (KduI) and 5-deoxy-glucuronate isomerase (IolB). KduI is involved in pectin degradation by free-living soil bacteria that use pectin as a carbon source, breaking it down to 2-keto-3-deoxygluconate, which can ultimately be converted to pyruvate. KduI catalyses the fourth step in pectin degradation, namely the interconversion of 5-keto-4-deoxyuronate and 2,5-diketo-3-dexoygluconate []. KduI has a TIM-barrel fold []. IolB is one of several bacterial proteins encoded by the inositol operon (iolABCDEFGHIJ) in Bacillus subtilis that are involved in myo-inositol catabolism. The enzyme is responsible for isomerization of 5-deoxy-D-glucuronic acid by IolB to produce 2-deoxy-5-keto-D-gluconic acid []. IolBs possess a cupin-like structure.; GO: 0016861 intramolecular oxidoreductase activity, interconverting aldoses and ketoses, 0008152 metabolic process; PDB: 1YWK_B 2QJV_B 1X8M_A 1XRU_A.
Probab=63.93 E-value=23 Score=28.10 Aligned_cols=72 Identities=15% Similarity=0.076 Sum_probs=43.7
Q ss_pred eEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcC-ceeEEecCCCeeeecc--cccCCceeeEEEEecCceEEEEEe
Q psy7149 84 AVVEKAGTIVMNDGEELDSWSVVINGCVEVELSD-GRSQMLQVGDSFGILP--TMEKLYHEGVMRTRCDDCQFVCIT 157 (167)
Q Consensus 84 ~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~-~~~~~l~~Gd~FGe~a--ll~~~~r~~tv~~a~~~~~ll~i~ 157 (167)
... ++|+.+-..-+.-+...++++|.+.|..++ .....-+.-++|...+ +.-.......+ .|.++|+++...
T Consensus 32 l~L-~~g~~~~~~~~~~E~~vv~l~G~~~v~~~g~~~~~l~~R~~vF~~~~d~lYvp~g~~~~i-~a~~~ae~~~~s 106 (261)
T PF04962_consen 32 LRL-EAGESLEFELERRELGVVNLGGKATVTVDGEEFYELGGRESVFDGPPDALYVPRGTKVVI-FASTDAEFAVCS 106 (261)
T ss_dssp EEE-ECCHCCCCCCCSEEEEEEEESSSEEEEETTEEEEEE-TTSSGGGS--EEEEE-TT--EEE-EESSTEEEEEEE
T ss_pred EEe-cCCCEEeccCCCcEEEEEEeCCEEEEEeCCceEEEecccccccCCCCcEEEeCCCCeEEE-EEcCCCEEEEEc
Confidence 444 777777555555667888899999998876 3333445567775432 22233334555 677888888654
No 56
>COG4101 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=59.54 E-value=29 Score=24.31 Aligned_cols=78 Identities=17% Similarity=0.103 Sum_probs=45.2
Q ss_pred cChhhhcCCHHHHHHHhhhcceeEEccCCcEE-EecCCCCCeEEEEEEeEEEEEEcCc--eeEEecCCCeeeecccccCC
Q psy7149 62 HLKAFTNMTLAVRKALCGVMVFAVVEKAGTIV-MNDGEELDSWSVVINGCVEVELSDG--RSQMLQVGDSFGILPTMEKL 138 (167)
Q Consensus 62 ~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I-~~~Gd~~~~lyiI~~G~v~v~~~~~--~~~~l~~Gd~FGe~all~~~ 138 (167)
.+..|.+++.+....---++..... .+|..- .+-.+..+....+++|++.+..++. .-...+|||+|=--+.+...
T Consensus 29 GltyaagIa~etvGas~i~~~~vTi-~pgAkakaH~H~~hEtaIYvlsG~ah~w~G~rLE~ha~~~pGDf~YiPpgVPHq 107 (142)
T COG4101 29 GLTYAAGIATETVGASGICMHLVTI-PPGAKAKAHLHEEHETAIYVLSGEAHTWYGNRLEEHAEVGPGDFFYIPPGVPHQ 107 (142)
T ss_pred chhhhhhhhhhhcccceeeEEEEee-CCCccccccccccccEEEEEEeceeeeeeccceeeeEEecCCCeEEcCCCCCCc
Confidence 4555666666544433334444444 555432 1222334556678999999987663 34567999999665555444
Q ss_pred ce
Q psy7149 139 YH 140 (167)
Q Consensus 139 ~r 140 (167)
+.
T Consensus 108 p~ 109 (142)
T COG4101 108 PA 109 (142)
T ss_pred cc
Confidence 33
No 57
>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=57.14 E-value=14 Score=26.65 Aligned_cols=32 Identities=16% Similarity=0.265 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcc
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMV 82 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~ 82 (167)
.++..+.++.+++|.|..|+.+++..|.+...
T Consensus 13 ~~l~~~v~~ak~ip~F~~L~~~Dq~~Llk~~~ 44 (174)
T cd06929 13 VAIRRVVEFAKRIPGFRELSQEDQIALLKGGC 44 (174)
T ss_pred HHHHHHHhhccCCcCcccCChhHHHHHHHhcH
Confidence 45667889999999999999999988876653
No 58
>TIGR03404 bicupin_oxalic bicupin, oxalate decarboxylase family. Members of this protein family are defined as bicupins as they have two copies of the cupin domain (pfam00190). Two different known activities for members of this family are oxalate decarboxylase (EC 4.1.1.2) and oxalate oxidase (EC 1.2.3.4), although the latter activity has more often been found in distantly related monocupin (germin) proteins.
Probab=56.95 E-value=40 Score=28.09 Aligned_cols=45 Identities=20% Similarity=0.372 Sum_probs=29.6
Q ss_pred eEEccCCcEEEecCCCCCeEEEEEEeEEEEEEc--Cce--eEEecCCCee
Q psy7149 84 AVVEKAGTIVMNDGEELDSWSVVINGCVEVELS--DGR--SQMLQVGDSF 129 (167)
Q Consensus 84 ~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~--~~~--~~~l~~Gd~F 129 (167)
..+ .+|.+.-.--.....+.++++|++.+... ++. ...+++||+|
T Consensus 72 ~~l-~pG~~~~~HwH~~~E~~yVl~G~~~v~~~d~~g~~~~~~L~~GD~~ 120 (367)
T TIGR03404 72 MRL-EPGAIRELHWHKEAEWAYVLYGSCRITAVDENGRNYIDDVGAGDLW 120 (367)
T ss_pred EEE-cCCCCCCcccCCCceEEEEEeeEEEEEEEcCCCcEEEeEECCCCEE
Confidence 345 67665532222456799999999999662 222 3469999988
No 59
>PF00190 Cupin_1: Cupin; InterPro: IPR006045 This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant. ; GO: 0045735 nutrient reservoir activity; PDB: 2E9Q_A 2EVX_A 1OD5_A 1UCX_A 1UD1_C 1FXZ_C 3KGL_C 3KSC_D 1UIJ_F 1IPK_B ....
Probab=56.18 E-value=40 Score=23.69 Aligned_cols=43 Identities=30% Similarity=0.349 Sum_probs=29.5
Q ss_pred cCCcEEEecCCCCCeEEEEEEeEEEEEE--cCc-------eeEE--ecCCCeee
Q psy7149 88 KAGTIVMNDGEELDSWSVVINGCVEVEL--SDG-------RSQM--LQVGDSFG 130 (167)
Q Consensus 88 ~~ge~I~~~Gd~~~~lyiI~~G~v~v~~--~~~-------~~~~--l~~Gd~FG 130 (167)
++|......-..+..+++|++|+..+.. .+. .... +++||+|=
T Consensus 42 ~pg~~~~Ph~h~a~~i~~V~~G~~~~~~v~~~~~~~~~~~~~~~v~l~~Gdv~~ 95 (144)
T PF00190_consen 42 EPGGLRAPHYHNADEIVYVIEGRGRVGVVGPGGPQEEFRDFSQKVRLKAGDVFV 95 (144)
T ss_dssp ETTEEEEEEEESSEEEEEEEESEEEEEEEETTCSSSEEEEEEEEEEEETTEEEE
T ss_pred hcCCccceeEeeeeEEeeeeccceEEEEEecCCccccceeeeceeeeeccccee
Confidence 6777664333388999999999998732 221 2333 99999984
No 60
>PF12852 Cupin_6: Cupin
Probab=53.97 E-value=35 Score=24.96 Aligned_cols=35 Identities=26% Similarity=0.377 Sum_probs=25.5
Q ss_pred ecCCCCCeEEEEEEeEEEEEEcC-ceeEEecCCCee
Q psy7149 95 NDGEELDSWSVVINGCVEVELSD-GRSQMLQVGDSF 129 (167)
Q Consensus 95 ~~Gd~~~~lyiI~~G~v~v~~~~-~~~~~l~~Gd~F 129 (167)
.++.+.-.||+|.+|+..+...+ +....+.+||++
T Consensus 30 ~~~~~~~~fh~V~~G~~~l~~~~~~~~~~L~~GDiv 65 (186)
T PF12852_consen 30 FPGSPGASFHVVLRGSCWLRVPGGGEPIRLEAGDIV 65 (186)
T ss_pred ccCCCceEEEEEECCeEEEEEcCCCCeEEecCCCEE
Confidence 34444689999999999998644 455667777766
No 61
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=53.54 E-value=41 Score=26.50 Aligned_cols=50 Identities=14% Similarity=0.064 Sum_probs=37.3
Q ss_pred hhhcceeEEccCCcEEE-ecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 78 CGVMVFAVVEKAGTIVM-NDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 78 ~~~~~~~~~~~~ge~I~-~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
...+....+ ++|..+- .+-..-.+.++|++|+-.+.. ++....+++||++
T Consensus 178 ~~~~~~~~~-~PG~~~~~~~~H~~eh~~yiL~G~G~~~~-~g~~~~V~~GD~i 228 (260)
T TIGR03214 178 DMNVHILSF-EPGASHPYIETHVMEHGLYVLEGKGVYNL-DNNWVPVEAGDYI 228 (260)
T ss_pred CcEEEEEEE-CCCcccCCcccccceeEEEEEeceEEEEE-CCEEEEecCCCEE
Confidence 345555666 8999884 566667788999999988755 4556778999986
No 62
>TIGR02272 gentisate_1_2 gentisate 1,2-dioxygenase. This family consists of gentisate 1,2-dioxygenases. This ring-opening enzyme acts in salicylate degradation that goes via gentisate rather than via catechol. It converts gentisate to maleylpyruvate. Some putative gentisate 1,2-dioxygenases are excluded by a relatively high trusted cutoff score because they are too closely related to known examples of 1-hydroxy-2-naphthoate dioxygenase. Therefore some homologs may be bona fide gentisate 1,2-dioxygenases even if they score below the given cutoffs.
Probab=53.23 E-value=1.1e+02 Score=25.30 Aligned_cols=70 Identities=13% Similarity=0.054 Sum_probs=46.1
Q ss_pred cCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEeHHHHHHH
Q psy7149 88 KAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCITQTDYYRI 164 (167)
Q Consensus 88 ~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~~~~f~~l 164 (167)
++|..--..-..+..+|.|++|+-....++. ....++||+|---+- .. .+. .+.+++.++.++-.-+.+-
T Consensus 258 ~~G~~t~~~r~T~s~Vf~VieG~G~s~ig~~-~~~W~~gD~f~vPsW---~~--~~h-~a~~da~Lf~~~D~Pll~~ 327 (335)
T TIGR02272 258 PKGFRTATYRSTDATVFCVVEGRGQVRIGDA-VFRFSPKDVFVVPSW---HP--VRF-EASDDAVLFSFSDRPVQQK 327 (335)
T ss_pred CCCCCCCCccccccEEEEEEeCeEEEEECCE-EEEecCCCEEEECCC---Cc--Eec-ccCCCeEEEEecCHHHHHH
Confidence 5555544445567899999999988877665 457899999965432 11 122 2446777888866555543
No 63
>PF06249 EutQ: Ethanolamine utilisation protein EutQ; InterPro: IPR010424 The eut operon of Salmonella typhimurium encodes proteins involved in the cobalamin-dependent degradation of ethanolamine. The role of EutQ in this process is unclear [].; PDB: 2PYT_B 3LWC_A.
Probab=53.04 E-value=32 Score=25.00 Aligned_cols=29 Identities=24% Similarity=0.514 Sum_probs=21.9
Q ss_pred CCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 100 LDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 100 ~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
-+-+.+|++|.+.+..+ +.....+|||++
T Consensus 95 YDEi~~VlEG~L~i~~~-G~~~~A~~GDvi 123 (152)
T PF06249_consen 95 YDEIKYVLEGTLEISID-GQTVTAKPGDVI 123 (152)
T ss_dssp SEEEEEEEEEEEEEEET-TEEEEEETT-EE
T ss_pred cceEEEEEEeEEEEEEC-CEEEEEcCCcEE
Confidence 46778899999999754 556678899887
No 64
>PF01050 MannoseP_isomer: Mannose-6-phosphate isomerase; InterPro: IPR001538 Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyses the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals []. Three classes of PMI have been defined []. The type II phosphomannose isomerases are bifunctional enzymes 5.3.1.8 from EC. This entry covers the isomerase region of the protein []. The guanosine diphospho-D-mannose pyrophosphorylase region is described in another InterPro entry (see IPR005836 from INTERPRO).; GO: 0016779 nucleotidyltransferase activity, 0005976 polysaccharide metabolic process
Probab=52.50 E-value=66 Score=23.21 Aligned_cols=41 Identities=27% Similarity=0.341 Sum_probs=28.6
Q ss_pred cCCcEEE-ecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 88 KAGTIVM-NDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 88 ~~ge~I~-~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
.||.-+- +....-.-.++|++|...|..++ ....+.+|+.+
T Consensus 71 ~pG~~lSlq~H~~R~E~W~Vv~G~a~v~~~~-~~~~~~~g~sv 112 (151)
T PF01050_consen 71 NPGKRLSLQYHHHRSEHWTVVSGTAEVTLDD-EEFTLKEGDSV 112 (151)
T ss_pred cCCCccceeeecccccEEEEEeCeEEEEECC-EEEEEcCCCEE
Confidence 7777773 33444566678999999998754 35567777765
No 65
>TIGR02272 gentisate_1_2 gentisate 1,2-dioxygenase. This family consists of gentisate 1,2-dioxygenases. This ring-opening enzyme acts in salicylate degradation that goes via gentisate rather than via catechol. It converts gentisate to maleylpyruvate. Some putative gentisate 1,2-dioxygenases are excluded by a relatively high trusted cutoff score because they are too closely related to known examples of 1-hydroxy-2-naphthoate dioxygenase. Therefore some homologs may be bona fide gentisate 1,2-dioxygenases even if they score below the given cutoffs.
Probab=52.39 E-value=29 Score=28.55 Aligned_cols=47 Identities=13% Similarity=0.235 Sum_probs=33.6
Q ss_pred eEEccCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeee
Q psy7149 84 AVVEKAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGI 131 (167)
Q Consensus 84 ~~~~~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe 131 (167)
... .+|+.--..-..+..+++|++|+=..+.-++....+++||+|=-
T Consensus 86 q~l-~pGe~~~~HRht~sAl~~vveG~G~~t~V~g~~~~~~~gD~~~t 132 (335)
T TIGR02272 86 QLI-LPGEVAPSHRHTQSALRFIVEGKGAFTAVDGERTTMHPGDFIIT 132 (335)
T ss_pred EEe-CCCCCCCccccccceEEEEEEcCceEEEECCEEEeeeCCCEEEe
Confidence 445 78887766667788999999999543333455667788888843
No 66
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=51.48 E-value=37 Score=26.46 Aligned_cols=29 Identities=24% Similarity=0.489 Sum_probs=22.1
Q ss_pred CCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 100 LDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 100 ~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
-+-+.++++|++.+..+ +....++|||++
T Consensus 175 ~dEi~YVLEGe~~l~Id-G~t~~l~pGDvl 203 (233)
T PRK15457 175 YDEIDMVLEGELHVRHE-GETMIAKAGDVM 203 (233)
T ss_pred ceEEEEEEEeEEEEEEC-CEEEEeCCCcEE
Confidence 34567888999988774 556778999877
No 67
>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=49.71 E-value=23 Score=26.34 Aligned_cols=33 Identities=18% Similarity=0.356 Sum_probs=27.4
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.++..+.++.+++|.|..|+.+++..|.+....
T Consensus 13 ~~i~~~IefaK~iPgF~~L~~~DQi~LLk~~~~ 45 (191)
T cd06942 13 MHIQEIVQFVKSIPGFNQLSGEDRAQLLKGNMF 45 (191)
T ss_pred HHHHHHHHHHhcCCCcccCChhHHHHHHHHHHH
Confidence 566788999999999999999998887665543
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=47.88 E-value=22 Score=26.42 Aligned_cols=33 Identities=12% Similarity=0.368 Sum_probs=27.4
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
..+..+.++.+++|.|.+|+.+++..|.+..-.
T Consensus 23 ~~i~~~V~waK~iPgF~~L~~~DQi~LLk~~w~ 55 (189)
T cd06940 23 PAVREVVEFAKRIPGFRDLSQHDQVTLLKAGTF 55 (189)
T ss_pred HHHHHHHHHHhcCCCcccCChhhHHHHHHHhhH
Confidence 345678899999999999999998888776654
No 69
>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.
Probab=47.68 E-value=79 Score=20.79 Aligned_cols=33 Identities=18% Similarity=0.250 Sum_probs=21.3
Q ss_pred cCCCCCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 96 DGEELDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 96 ~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
.....-.++++.+|+..+..++ ....++||++|
T Consensus 19 h~h~~~~i~~v~~G~~~~~~~~-~~~~l~~g~~~ 51 (136)
T PF02311_consen 19 HWHDFYEIIYVLSGEGTLHIDG-QEYPLKPGDLF 51 (136)
T ss_dssp ETT-SEEEEEEEEE-EEEEETT-EEEEE-TT-EE
T ss_pred EECCCEEEEEEeCCEEEEEECC-EEEEEECCEEE
Confidence 3344667889999999986544 35678898887
No 70
>smart00430 HOLI Ligand binding domain of hormone receptors.
Probab=46.92 E-value=29 Score=24.07 Aligned_cols=30 Identities=10% Similarity=0.215 Sum_probs=25.0
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhc
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVM 81 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~ 81 (167)
++....++++++|.|..|+.+++..|.+..
T Consensus 4 ~~~~~~~~~~~~~~f~~L~~~dq~~Llk~~ 33 (163)
T smart00430 4 DLLLAVEWAKTFPFFRELSQEDKLILLKHF 33 (163)
T ss_pred HHHHHHHHHHhChhHhhCCHHHHHHHHHHH
Confidence 455678899999999999999998887643
No 71
>PRK04190 glucose-6-phosphate isomerase; Provisional
Probab=46.78 E-value=1.2e+02 Score=22.76 Aligned_cols=30 Identities=17% Similarity=0.058 Sum_probs=22.8
Q ss_pred CCeEEEEEEeEEEEEEcC----ceeEEecCCCee
Q psy7149 100 LDSWSVVINGCVEVELSD----GRSQMLQVGDSF 129 (167)
Q Consensus 100 ~~~lyiI~~G~v~v~~~~----~~~~~l~~Gd~F 129 (167)
..-+|++++|+..+..++ .....++||+++
T Consensus 97 ~~EiyyvlsG~g~~~l~~~~G~~~~~~v~pGd~v 130 (191)
T PRK04190 97 RAEIYYGLKGKGLMLLQDPEGEARWIEMEPGTVV 130 (191)
T ss_pred CCEEEEEEeCEEEEEEecCCCcEEEEEECCCCEE
Confidence 348999999999886532 246678999886
No 72
>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=45.55 E-value=33 Score=24.31 Aligned_cols=31 Identities=23% Similarity=0.295 Sum_probs=25.6
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhc
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVM 81 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~ 81 (167)
.++....++.+++|.|..|+.+++..|.+..
T Consensus 10 ~~l~~~ie~ak~~p~F~~L~~~Dq~~Llk~~ 40 (165)
T cd06930 10 RVLFKTVDWAKNLPAFRNLPLDDQLTLLQNS 40 (165)
T ss_pred HHHHHHHHHHHcCCccccCChHHHHHHHHHH
Confidence 3455678899999999999999998887764
No 73
>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=44.92 E-value=30 Score=25.71 Aligned_cols=32 Identities=9% Similarity=0.311 Sum_probs=26.6
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcc
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMV 82 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~ 82 (167)
.++..+.++-+++|.|+.|+.+++-.|.+..-
T Consensus 13 ~~l~~iI~waK~iP~F~~L~~~DQi~LLk~~~ 44 (195)
T cd06941 13 PSVQRVVEFAKRIPGFCDLSQDDQLLLIKAGF 44 (195)
T ss_pred HHHHHHHHHHHcCCCcccCCHHHHHHHHHHHH
Confidence 45677889999999999999998888765543
No 74
>PHA00672 hypothetical protein
Probab=44.57 E-value=1.1e+02 Score=21.63 Aligned_cols=37 Identities=11% Similarity=0.154 Sum_probs=28.9
Q ss_pred cCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecC
Q psy7149 88 KAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQV 125 (167)
Q Consensus 88 ~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~ 125 (167)
++|..+.-.=..-+.+ +|.+|.+.|+.+++....-++
T Consensus 55 PkGt~LtG~~hkf~~~-ii~sG~itV~tdge~~rl~g~ 91 (152)
T PHA00672 55 PAGVALTGALIKVSTV-LIFSGHATVFIGGEAVELRGY 91 (152)
T ss_pred cCceeeeeeeeEeeEE-EEecccEEEEeCCcEEEEecc
Confidence 8898887776677777 999999999988665554444
No 75
>cd06157 NR_LBD The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators. Ligand-binding domain (LBD) of nuclear receptor (NR): Nuclear receptors form a superfamily of ligand-activated transcription regulators, which regulate various physiological functions in metazoans, from development, reproduction, to homeostasis and metabolism. The superfamily contains not only receptors for known ligands but also orphan receptors for which ligands do not exist or have not been identified. The members of the family include receptors of steroids, thyroid hormone, retinoids, cholesterol by-products, lipids and heme. With few exceptions, 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=44.41 E-value=34 Score=23.82 Aligned_cols=32 Identities=13% Similarity=0.326 Sum_probs=25.8
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
++....++++++|.|..|+.+++..|.+..-.
T Consensus 10 ~~~~~i~~~~~~~~f~~L~~~dq~~Llk~~~~ 41 (168)
T cd06157 10 DLLLIVEWAKSIPGFRELPLEDQIVLLKSFWL 41 (168)
T ss_pred HHHHHHHHHHcCCchhcCChHHHHHHHHHHhH
Confidence 34567889999999999999998888766543
No 76
>cd06954 NR_LBD_LXR The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors. The ligand binding domain of Liver X receptors: Liver X receptors (LXRs) belong to a family of nuclear receptors of ligand-activated transcription factors. LXRs operate as cholesterol sensors which protect from cholesterol overload by stimulating reverse cholesterol transport from peripheral tissues to the liver and its excretion in the bile. Oxidized cholesterol derivatives or oxysterols were identified as specific ligands for LXRs. Upon ligand binding a conformational change leads to recruitment of co-factors, which stimulates expression of target genes. Among the LXR target genes are several genes involved in cholesterol efflux from peripheral tissues such as the ATP-binding-cassette transporters ABCA1, ABCG1 and ApoE. There are two LXR isoforms in mammals, LXRalpha and LXRbeta. LXRalpha is expressed mainly in the liver, intestine, kidney, splee
Probab=43.33 E-value=31 Score=26.52 Aligned_cols=32 Identities=22% Similarity=0.416 Sum_probs=26.1
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.+..+.++.+++|.|..|+.+++..|.+....
T Consensus 55 ~i~~~VefaK~lP~F~~L~~~DQi~LLK~~~~ 86 (236)
T cd06954 55 SVQEIVDFAKQLPGFLTLTREDQIALLKASTI 86 (236)
T ss_pred HHHHHHHHHcCCCCcccCChHHHHHHHHHhHH
Confidence 34568899999999999999998888766543
No 77
>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=42.69 E-value=36 Score=25.85 Aligned_cols=33 Identities=15% Similarity=0.201 Sum_probs=27.1
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
..+..+.++.+++|.|.+|+.+++..|.+....
T Consensus 38 ~~l~~~I~waK~lp~F~~L~~~DQi~LLk~~w~ 70 (213)
T cd06953 38 ELLFRQIQWTKKLPFFTELSIKDHTHLLTTKWA 70 (213)
T ss_pred HHHHHHHHHHhcCCchhhCCHHHHHHHHHHHHH
Confidence 345677899999999999999999888776544
No 78
>cd06938 NR_LBD_EcR The ligand binding domain (LBD) of the Ecdysone receptor, a member of the nuclear receptors super family. The ligand binding domain (LBD) of the ecdysone receptor: The ecdysone receptor (EcR) belongs to the superfamily of nuclear receptors (NRs) of ligand-dependent transcription factors. Ecdysone receptor is present only in invertebrates and regulates the expression of a large number of genes during development and reproduction. ECR functions as a heterodimer by partnering with ultraspiracle protein (USP), the ortholog of the vertebrate retinoid X receptor (RXR). The natural ligands of ecdysone receptor are ecdysteroids#the endogenous steroidal hormones found in invertebrates. In addition, insecticide bisacylhydrazine used against pests has shown to act on EcR. EcR must be dimerised with a USP for high-affinity ligand binding to occur. The ligand binding triggers a conformational change in the C-terminal part of the EcR ligand-binding domain that leads to transcript
Probab=41.99 E-value=29 Score=26.61 Aligned_cols=32 Identities=13% Similarity=0.292 Sum_probs=25.7
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.+..+.++.+++|.|..|+.+++..|.+....
T Consensus 51 ~i~~iIefaK~lp~F~~L~~~DQi~LLK~~~~ 82 (231)
T cd06938 51 TVQLIVEFAKRLPGFDKLSREDQITLLKACSS 82 (231)
T ss_pred HHHHHHHHHhcCCccccCChhHHHHHHHHHHH
Confidence 34557899999999999999988887765543
No 79
>cd06935 NR_LBD_TR The ligand binding domain of thyroid hormone receptor, a members of a superfamily of nuclear receptors. The ligand binding domain (LBD) of thyroid hormone receptors: Thyroid hormone receptors are members of a superfamily of nuclear receptors. Thyroid hormone receptors (TR) mediate the actions of thyroid hormones, which play critical roles in growth, development, and homeostasis in mammals. They regulate overall metabolic rate, cholesterol and triglyceride levels, and heart rate, and affect mood. TRs are expressed from two separate genes (alpha and beta) in human and each gene generates two isoforms of the receptor through differential promoter usage or splicing. TRalpha functions in the heart to regulate heart rate and rhythm and TRbeta is active in the liver and other tissues. The unliganded TRs function as transcription repressors, by binding to thyroid hormone response elements (TRE) predominantly as homodimers, or as heterodimers with retinoid X-receptors (RXR), a
Probab=40.89 E-value=37 Score=26.39 Aligned_cols=34 Identities=21% Similarity=0.309 Sum_probs=27.7
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhccee
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFA 84 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~ 84 (167)
..+..+.++-+++|.|.+|+.+++-.|.+....+
T Consensus 63 ~~l~~iVefAK~iPgF~~L~~~DQi~LLk~~~~E 96 (243)
T cd06935 63 PAITRVVDFAKKLPMFTELPCEDQIILLKGCCME 96 (243)
T ss_pred HHHHHHHHHHhcCCccccCChHHHHHHHHHhHHH
Confidence 4566788999999999999999988887766443
No 80
>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=39.68 E-value=40 Score=26.05 Aligned_cols=32 Identities=13% Similarity=0.179 Sum_probs=25.5
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
++-.+.++.+++|.|+.|+.+++..|.+..-.
T Consensus 50 ~L~~~VeWaK~lP~F~~L~~~DQi~LLk~~w~ 81 (237)
T cd07070 50 TFISIVDWARRCMVFKELEVADQMTLLQNCWS 81 (237)
T ss_pred HHHHHHHHHHhCCChhhCCHHHHHHHHHHHHH
Confidence 34457889999999999999998887666533
No 81
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=39.47 E-value=13 Score=28.74 Aligned_cols=75 Identities=9% Similarity=0.075 Sum_probs=48.0
Q ss_pred CCceeeeeCCCcccccccCCcccccccccccHHHHHHHHhcCCCCCCCHHHHHHHHHHhh----cChhhhcCCHHHHHHH
Q psy7149 2 DRGVNIVFDDASSNLVQSNGFVSSSLFQSLIVKDRVRECLEKDPSERTDDDIEQLLDFTQ----HLKAFTNMTLAVRKAL 77 (167)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~r~~l~k~p~~R~~~~~~~i~~~L~----~~~~F~~L~~~~l~~l 77 (167)
+.++..|+=||+-|||.-+=|-.+ |+.....|..|.+.+ +-++.+++.+...-. ..++=++|++..++.+
T Consensus 90 ~~alr~Gv~DYLiKPf~~eRl~~a-----L~~y~~~r~~l~~~~-~~sQ~~lD~l~~~~~k~~~~~~LPkGi~~~Tl~~i 163 (224)
T COG4565 90 KEALRYGVVDYLIKPFTFERLQQA-----LTRYRQKRHALESHQ-QLSQKELDQLFNIQSKEQPPDDLPKGLDELTLQKV 163 (224)
T ss_pred HHHHhcCchhheecceeHHHHHHH-----HHHHHHHHHHHhhhc-ccCHHHHHHHHhccccccCcccCCCCcCHHHHHHH
Confidence 356778999999999986555444 666666667676543 344555665544331 2233377777777777
Q ss_pred hhhcc
Q psy7149 78 CGVMV 82 (167)
Q Consensus 78 ~~~~~ 82 (167)
.+.+.
T Consensus 164 ~~~~~ 168 (224)
T COG4565 164 REALK 168 (224)
T ss_pred HHHHh
Confidence 77665
No 82
>cd06936 NR_LBD_Fxr The ligand binding domain of Farnesoid X receptor:a member of the nuclear receptor superfamily of ligand-activated transcription factors. The ligand binding domain (LBD) of Farnesoid X receptor: Farnesoid X receptor (FXR) is a member of the nuclear receptor superfamily of ligand-activated transcription factors. FXR is highly expressed in the liver, the intestine, the kidney, and the adrenals. FXR plays key roles in the regulation of bile acid, cholesterol, triglyceride, and glucose metabolism. Evidences show that it also regulates liver regeneration. Upon binding of ligands, such as bile acid, an endogenous ligand, FXRs bind to FXR response elements (FXREs) either as a monomer or as a heterodimer with retinoid X receptor (RXR), and regulate the expression of various genes involved in bile acid, lipid, and glucose metabolism. There are two FXR genes (FXRalpha and FXRbeta) in mammals. A single FXRalpha gene encodes four isoforms resulting from differential use of prom
Probab=39.24 E-value=39 Score=25.81 Aligned_cols=33 Identities=21% Similarity=0.308 Sum_probs=26.5
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.++..+.++.+++|.|..|+.+++..|.+....
T Consensus 47 ~~l~~~IefaK~iP~F~~L~~~DQi~LLk~~~~ 79 (221)
T cd06936 47 SHVQVLVEFTKGLPGFETLDHEDQIALLKGSAV 79 (221)
T ss_pred HHHHHHHHHHhCCCchhhCChhHHHHHHHHhHH
Confidence 345567899999999999999998888765544
No 83
>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=39.12 E-value=39 Score=25.23 Aligned_cols=32 Identities=16% Similarity=0.281 Sum_probs=26.2
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcc
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMV 82 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~ 82 (167)
.++....++.+++|.|..|+.+++..|.+...
T Consensus 41 ~~l~~~Iewak~lp~F~~L~~~DQ~~LLk~~~ 72 (207)
T cd06943 41 KQLFQLVEWAKRIPHFSELPLDDQVILLRAGW 72 (207)
T ss_pred HHHHHHHHHHHhCchhhccChhhhHHHHHHHH
Confidence 34556788999999999999999888877654
No 84
>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=39.10 E-value=42 Score=25.47 Aligned_cols=34 Identities=9% Similarity=0.099 Sum_probs=27.1
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhccee
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFA 84 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~ 84 (167)
.++....++.+++|.|..|+.+++..|.+..-.+
T Consensus 32 ~~l~~~v~wak~iP~F~~L~~~DQ~~LLk~~w~e 65 (222)
T cd06952 32 RLLFLSIHWARSIPAFQALGAETQTSLVRACWPE 65 (222)
T ss_pred HHHHHHHHHHHhCCchhhCChHHHHHHHHHHhHH
Confidence 4455678899999999999999988887765443
No 85
>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=37.29 E-value=47 Score=25.63 Aligned_cols=33 Identities=9% Similarity=0.340 Sum_probs=26.7
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.++..+.++.+++|.|..|+.+++-.|.+....
T Consensus 43 ~~l~~~VewAK~iP~F~~L~~~DQi~LLk~~w~ 75 (235)
T cd06949 43 RELVHMINWAKKIPGFVDLSLHDQVHLLESAWL 75 (235)
T ss_pred HHHHHHHHHHHhCCCcccCCHHHHHHHHHHhHH
Confidence 445678899999999999999998887665543
No 86
>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=37.21 E-value=47 Score=25.22 Aligned_cols=33 Identities=12% Similarity=0.369 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.++....++.+++|.|+.|+.+++..|.+....
T Consensus 38 ~~l~~~Ve~aK~lp~F~~L~~~DQi~LLk~~~~ 70 (221)
T cd06946 38 RELVVIIGWAKHIPGFSSLSLNDQMSLLQSAWM 70 (221)
T ss_pred HHHHHHHHHHHhCCCcccCCHHHHHHHHHHHHH
Confidence 455678899999999999999998887766543
No 87
>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=36.88 E-value=51 Score=25.05 Aligned_cols=32 Identities=13% Similarity=0.390 Sum_probs=26.6
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcc
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMV 82 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~ 82 (167)
..+..+.++.+++|.|..|+.+++..|.+...
T Consensus 38 ~~l~~~vewaK~lp~F~~L~~~DQi~LLk~~~ 69 (221)
T cd07068 38 RELVHIISWAKHIPGFSDLSLNDQMHLLQSAW 69 (221)
T ss_pred HHHHHHHHHHHhCCCcccCCHHHHHHHHHHhh
Confidence 44567889999999999999999988876553
No 88
>cd07072 NR_LBD_DHR38_like Ligand binding domain of DHR38_like proteins, members of the nuclear receptor superfamily. The ligand binding domain of nuclear receptor DHR38_like proteins: DHR38 is a member of the steroid receptor superfamily in Drosophila. DHR38 interacts with the USP component of the ecdysone receptor complex, suggesting that DHR38 might modulate ecdysone-triggered signals in the fly, in addition to the ECR/USP pathway. At least four differentially expressed mRNA isoforms have been detected during development. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR38 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=36.87 E-value=44 Score=26.03 Aligned_cols=34 Identities=12% Similarity=0.287 Sum_probs=27.8
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhccee
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFA 84 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~ 84 (167)
..+..+.++-+++|.|..|+.+++-.|.+....+
T Consensus 53 ~~i~~iv~wAK~IPgF~~L~~~DQi~LLk~~w~E 86 (239)
T cd07072 53 SSIDVIKTFAEKIPGFPDLCKEDQELLFQSASLE 86 (239)
T ss_pred HHHHHHHHHhccCCCccCCCHHHHHHHHHHhHHH
Confidence 4456788999999999999999988887766443
No 89
>KOG2757|consensus
Probab=36.79 E-value=1.1e+02 Score=25.61 Aligned_cols=42 Identities=17% Similarity=0.196 Sum_probs=32.2
Q ss_pred cCCcEEEecCCCCCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 88 KAGTIVMNDGEELDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 88 ~~ge~I~~~Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
+.|+.-.-++-.+-+++++++|+..+..+.+....+.+|++|
T Consensus 341 ~~g~~~~~~~~~~~SIllv~~G~g~l~~~t~~~~~v~rG~V~ 382 (411)
T KOG2757|consen 341 PTGESYKFPGVDGPSILLVLKGSGILKTDTDSKILVNRGDVL 382 (411)
T ss_pred CCCceEEeecCCCceEEEEEecceEEecCCCCceeeccCcEE
Confidence 556665667777889999999999887664555667888887
No 90
>PF00104 Hormone_recep: Ligand-binding domain of nuclear hormone receptor; InterPro: IPR000536 Steroid or nuclear hormone receptors constitute an important superfamily of transcription regulators that are involved in widely diverse physiological functions, including control of embryonic development, cell differentiation and homeostasis. The receptors function as dimeric molecules in nuclei to regulate the transcription of target genes in a ligand-responsive manner. Nuclear hormone receptors consist of a highly conserved DNA-binding domain that recognises specific sequences (IPR001628 from INTERPRO), connected via a linker region to a C-terminal ligand-binding domain. In addition, certain nuclear hormone receptors have an N-terminal modulatory domain (IPR001292 from INTERPRO). The ligand-binding domain acts in response to ligand binding, which caused a conformational change in the receptor to induce a response, thereby acting as a molecular switch to turn on transcriptional activity []. For example, after binding of the glucocorticoid receptor to the corticosteroid ligand, the receptor is induced to perform functions ranging from nuclear translocation, oligomerisation, cofactor/kinase/transcription factor association, and DNA binding []. The ligand-binding domain is a flexible unit, where the binding of a ligand stabilises its conformation, which in turn favours coactivator binding to modify receptor activity []; the coactivator can bind to the activator function 2 (AF2) site at the C-terminal end of the ligand-binding domain []. The binding of different ligands can alter the conformation of the ligand-binding domain, which ultimately affects the DNA-binding specificity of the DNA-binding domain. In the absence of ligand, steroid hormone receptors are thought to be weakly associated with nuclear components. This entry represents the C-terminal ligand-binding domain.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0003707 steroid hormone receptor activity, 0006355 regulation of transcription, DNA-dependent, 0043401 steroid hormone mediated signaling pathway, 0005634 nucleus; PDB: 3IXP_D 1R20_D 2R40_D 1R1K_D 1PDU_B 1OSH_A 3GD2_A 3DCT_A 3OMK_C 3FLI_A ....
Probab=36.30 E-value=66 Score=23.16 Aligned_cols=30 Identities=13% Similarity=0.402 Sum_probs=24.0
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhc
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVM 81 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~ 81 (167)
++..+.++.+++|.|..|+.+++..|.+..
T Consensus 29 ~~~~~v~~~k~~p~f~~L~~~dk~~Llk~~ 58 (203)
T PF00104_consen 29 ELRLIVDWAKSFPEFSELSMEDKIALLKSS 58 (203)
T ss_dssp HHHHHHHHHHTSTTGGGS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHhCcCHHhhhhhhhhhHHhhh
Confidence 344578899999999999999999887754
No 91
>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=34.07 E-value=54 Score=24.80 Aligned_cols=31 Identities=19% Similarity=0.321 Sum_probs=25.0
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhcc
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVMV 82 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~ 82 (167)
++....++.+.+|.|+.|+.+++..|.+...
T Consensus 44 ~l~~~vewak~~p~F~~L~~~Dq~~Llk~~~ 74 (222)
T cd06931 44 QLLVLVEWAKYIPAFCELPLDDQVALLRAHA 74 (222)
T ss_pred HHHHHHHHHHhCCccccCChHHHHHHHHHHH
Confidence 3456788899999999999999888766553
No 92
>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=33.30 E-value=61 Score=25.02 Aligned_cols=31 Identities=6% Similarity=0.133 Sum_probs=24.8
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhcc
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVMV 82 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~ 82 (167)
++..+.++.+++|.|.+|+.+++..|.+...
T Consensus 50 ~l~~~VewaK~lp~F~~L~~~DQi~LLk~~w 80 (237)
T cd06944 50 TLFSIVEWARNSVFFKELKVDDQMKLLQNCW 80 (237)
T ss_pred HHHHHHHHHHhCCChhcCCHHHHHHHHHHHh
Confidence 3445788999999999999999888766553
No 93
>cd06939 NR_LBD_ROR_like The ligand binding domain of Retinoid-related orphan receptors, of the nuclear receptor superfamily. The ligand binding domain (LBD) of Retinoid-related orphan receptors (RORs): Retinoid-related orphan receptors (RORs) are transcription factors belonging to the nuclear receptor superfamily. RORs are key regulators of many physiological processes during embryonic development. RORs bind as monomers to specific ROR response elements (ROREs) consisting of the consensus core motif AGGTCA preceded by a 5-bp A/T-rich sequence. Transcription regulation by RORs is mediated through certain corepressors, as well as coactivators. There are three subtypes of retinoid-related orphan receptors (RORs), alpha, beta, and gamma that differ only in N-terminal sequence and are distributed in distinct tissues. RORalpha plays a key role in the development of the cerebellum, particularly in the regulation of the maturation and survival of Purkinje cells. RORbeta expression is largely r
Probab=33.26 E-value=57 Score=25.33 Aligned_cols=34 Identities=12% Similarity=0.280 Sum_probs=27.5
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhccee
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFA 84 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~ 84 (167)
..++.+.++-+++|.|..|+.+++-.|.+....+
T Consensus 59 ~~i~~vVefAK~IPgF~~L~~~DQi~LLk~~~~E 92 (241)
T cd06939 59 EAIQYVVEFAKRIPGFMELCQNDQIVLLKAGSLE 92 (241)
T ss_pred HHHHHHHHHHhcCCCcccCCHHHHHHHHHHhHHH
Confidence 4456788999999999999999988887665443
No 94
>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=33.23 E-value=54 Score=25.81 Aligned_cols=34 Identities=26% Similarity=0.410 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhccee
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFA 84 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~ 84 (167)
..+..+.++-+++|.|.+|+.+++-.|.+....+
T Consensus 74 ~~i~~vVewAK~IPgF~~L~~~DQi~LLk~~~~E 107 (259)
T cd06932 74 ETIRELTEFAKSLPGFRNLDLNDQVTLLKYGVHE 107 (259)
T ss_pred HHHHHHHHHHhcCCCcccCChhHHHHHHHHhhHH
Confidence 4456688899999999999999988887665443
No 95
>cd06945 NR_LBD_Nurr1_like The ligand binding domain of Nurr1 and related nuclear receptor proteins, members of nuclear receptor superfamily. The ligand binding domain of nuclear receptor Nurr1_like: This family of nuclear receptors, including Nurr1, Nerve growth factor-induced-B (NGFI-B) and DHR38 are involved in the embryo development. Nurr1 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. NGFI-B is an early immediate gene product of 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
Probab=33.10 E-value=53 Score=25.46 Aligned_cols=33 Identities=6% Similarity=0.256 Sum_probs=26.8
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
..+..+.++-+++|.|.+|+.+++..|.+....
T Consensus 52 ~~l~~iv~wAK~IPgF~~L~~~DQi~LLk~~w~ 84 (239)
T cd06945 52 GSVDVIRQWAEKIPGFKDLHREDQDLLLESAFL 84 (239)
T ss_pred HHHHHHHHHHHhCCCcccCCHHHHHHHHHHHHH
Confidence 345678899999999999999998888766543
No 96
>cd07073 NR_LBD_AR Ligand binding domain of the nuclear receptor androgen receptor, ligand activated transcription regulator. The ligand binding domain of the androgen receptor (AR): AR is a member of the nuclear receptor family. It is activated by binding either of the androgenic hormones, testosterone or dihydrotestosterone, which are responsible for male primary sexual characteristics and for secondary male characteristics, respectively. The primary mechanism of action of ARs is by direct regulation of gene transcription. The binding of an androgen results in a conformational change in the androgen receptor which causes its transport from the cytosol into the cell nucleus, and dimerization. The receptor dimer binds to a hormone response element of AR-regulated genes and modulates their expression. Another mode of action is independent of their interactions with DNA. The receptors interact directly with signal transduction proteins in the cytoplasm, causing rapid changes in cell funct
Probab=33.07 E-value=59 Score=25.43 Aligned_cols=32 Identities=13% Similarity=0.256 Sum_probs=25.9
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcc
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMV 82 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~ 82 (167)
.++..+.++-+++|.|.+|+.+++-.|.+..-
T Consensus 39 ~~L~~~VeWAK~iP~F~~L~~~DQi~LLk~~w 70 (246)
T cd07073 39 RQLVHVVKWAKALPGFRNLHVDDQMAVIQYSW 70 (246)
T ss_pred HHHHHHHHHHHcCCCccCCCHHHHHHHHHHHH
Confidence 44566789999999999999998887766553
No 97
>COG4567 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]
Probab=32.86 E-value=6 Score=29.04 Aligned_cols=22 Identities=9% Similarity=0.125 Sum_probs=17.8
Q ss_pred ceeeeeCCCcccccccCCcccc
Q psy7149 4 GVNIVFDDASSNLVQSNGFVSS 25 (167)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~ 25 (167)
+|..||+||+.||-+.++++-.
T Consensus 99 AvKlGA~~YLaKPAdaDdi~aA 120 (182)
T COG4567 99 AVKLGACDYLAKPADADDILAA 120 (182)
T ss_pred HHHhhhhhhcCCCCChHHHHHH
Confidence 4678999999999887776543
No 98
>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=32.83 E-value=60 Score=25.00 Aligned_cols=30 Identities=10% Similarity=0.234 Sum_probs=25.2
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhc
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVM 81 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~ 81 (167)
++....++.+++|.|..|+.+++..|.+..
T Consensus 42 ~L~~~VewaK~lp~F~~L~~~DQi~LLk~~ 71 (236)
T cd06948 42 LLFSAVEWARNIPFFPDLQVTDQVALLRLS 71 (236)
T ss_pred HHHHHHHHHHhCcCcccCCHHHHHHHHHHh
Confidence 344578899999999999999998887766
No 99
>cd07350 NR_LBD_Dax1 The ligand binding domain of DAX1 protein, a nuclear receptor lacking DNA binding domain. The ligand binding domain of the DAX1 protein: DAX1 (dosage-sensitive sex reversal adrenal hypoplasia congenita critical region on chromosome X gene 1) is a nuclear receptor with a typical ligand binding domain, but lacks the DNA binding domain. DAX1 plays an important role in the normal development of several hormone-producing tissues. Duplications of the region of the X chromosome containing DAX1 cause dosage sensitive sex reversal. DAX1 acts as a global repressor of many nuclear receptors, including SF-1, LRH-1, ERR, ER, AR and PR. DAX1 can form homodimer and heterodimerizes with its alternatively spliced isoform DAX1A and other nuclear receptors such as SHP, ERalpha and SF-1.
Probab=32.50 E-value=62 Score=25.04 Aligned_cols=32 Identities=16% Similarity=0.189 Sum_probs=25.8
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.+....++.+++|.|..|+.+++-.|.+..-.
T Consensus 31 ~L~~~VeWAK~iP~F~~L~~~DQi~LLk~~W~ 62 (232)
T cd07350 31 VLVKTLRFVKGVPCFQELPLDDQLVLVRSCWA 62 (232)
T ss_pred HHHHHHHHHHhCcCcccCChHHHHHHHHHhhH
Confidence 44567889999999999999998888766543
No 100
>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=32.32 E-value=62 Score=24.89 Aligned_cols=33 Identities=24% Similarity=0.419 Sum_probs=26.8
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
..+..+.++-+++|.|..|+.+++-.|.+....
T Consensus 49 ~~l~~~V~wAK~iPgF~~L~~~DQi~LLk~~w~ 81 (231)
T cd06937 49 KCIIKIVEFAKRLPGFTTLTIADQITLLKAACL 81 (231)
T ss_pred HHHHHHHHHHhcCCccccCCHHHHHHHHHHHHH
Confidence 456678899999999999999988887765544
No 101
>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=32.07 E-value=62 Score=24.75 Aligned_cols=33 Identities=15% Similarity=0.121 Sum_probs=26.3
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
..+..+.++-+++|.|.+|+.+++-.|.+....
T Consensus 30 ~~L~~~V~wAK~iP~F~~L~~~DQi~LLk~~w~ 62 (222)
T cd06951 30 QVLLKTIRFVRNLPCFTYLPPDDQLRLLRRSWA 62 (222)
T ss_pred HHHHHHHHHHHhCCCcccCChHHHHHHHHHHhH
Confidence 445567889999999999999998877666544
No 102
>COG3706 PleD Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]
Probab=30.95 E-value=22 Score=30.38 Aligned_cols=17 Identities=12% Similarity=0.210 Sum_probs=15.1
Q ss_pred CCceeeeeCCCcccccc
Q psy7149 2 DRGVNIVFDDASSNLVQ 18 (167)
Q Consensus 2 ~~~~~~~~~~~~~~~~~ 18 (167)
.+|++.|++||+++|++
T Consensus 222 ~~Af~~G~~Dyi~kPi~ 238 (435)
T COG3706 222 VRAFELGVNDYITKPIE 238 (435)
T ss_pred HHHHHcCCcceEecCCC
Confidence 47889999999999976
No 103
>cd06933 NR_LBD_VDR The ligand binding domain of vitamin D receptors, a member of the nuclear receptor superfamily. The ligand binding domain of vitamin D receptors (VDR): VDR is a member of the nuclear receptor (NR) superfamily that functions as classical endocrine receptors. VDR controls a wide range of biological activities including calcium metabolism, cell proliferation and differentiation, and immunomodulation. VDR is a high affinity receptor for the biologically most active Vitamin D metabolite, 1alpha,25-dihydroxyvitamin D3 (1alpha,25(OH)2D3). The binding of the ligand to the receptor induces a conformational change of the ligand binding domain (LBD) with consequent dissociation of corepressors. Upon ligand binding, VDR forms heterodimer with the retinoid X receptor (RXR) that binds to vitamin D response elements (VDREs), recruits coactivators. This leads to the expression of a large number of genes. Approximately 200 human genes are considered to be primary targets of VDR and
Probab=30.84 E-value=67 Score=24.83 Aligned_cols=33 Identities=18% Similarity=0.327 Sum_probs=26.9
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
..+..+.++-+++|.|.+|+.+++-.|.+....
T Consensus 48 ~~l~~iI~wAK~iPgF~~L~~~DQi~LLk~~~~ 80 (238)
T cd06933 48 YSIQKVIGFAKMIPGFRDLTAEDQIALLKSSAI 80 (238)
T ss_pred HHHHHHHHHHcCCCccccCChHHHHHHHHHhHH
Confidence 455667899999999999999998888766544
No 104
>PF14633 SH2_2: SH2 domain; PDB: 3GXX_A 3GXW_B 3PJP_B 2XP1_A.
Probab=30.33 E-value=68 Score=24.80 Aligned_cols=44 Identities=11% Similarity=0.183 Sum_probs=29.1
Q ss_pred HHHHhhcChhhhcCCHHHHHHHhhhcceeEEccCCcEEEecCCCC-CeEEE
Q psy7149 56 LLDFTQHLKAFTNMTLAVRKALCGVMVFAVVEKAGTIVMNDGEEL-DSWSV 105 (167)
Q Consensus 56 i~~~L~~~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~~~Gd~~-~~lyi 105 (167)
.....-.+|.|.+++-.+-.+.++. . ..|++|+++...+ +++-+
T Consensus 31 ~~~R~I~HP~F~n~~~~qAe~~L~~-----~-~~Ge~iIRPSSkG~dhL~v 75 (220)
T PF14633_consen 31 FVKRVIKHPLFKNFNYKQAEEYLAD-----Q-DVGEVIIRPSSKGPDHLTV 75 (220)
T ss_dssp --HHHHCSTTEESS-HHHHHHHHCC-----S--TT-EEEEE-TTTTTEEEE
T ss_pred cccccccCCCccCCCHHHHHHHHhc-----C-CCCCEEEeeCCCCCCeEEE
Confidence 3456678999999999988877654 2 5799999998876 45533
No 105
>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=30.23 E-value=64 Score=25.09 Aligned_cols=34 Identities=9% Similarity=0.240 Sum_probs=27.1
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhccee
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFA 84 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~ 84 (167)
..+..+.++-+++|.|.+|+.+++-.|.+....+
T Consensus 52 ~~l~~iVewAK~iPgF~~L~~~DQi~LLk~~w~E 85 (238)
T cd07348 52 GSLEVIRKWAEKIPGFSDFCKEDQELLLESAFVE 85 (238)
T ss_pred HHHHHHHHHHccCCCccCCChHHHHHHHHHHHHH
Confidence 3455678899999999999999988887665443
No 106
>COG3257 GlxB Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]
Probab=30.18 E-value=2.7e+02 Score=21.79 Aligned_cols=57 Identities=16% Similarity=0.153 Sum_probs=33.0
Q ss_pred CCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEeH
Q psy7149 97 GEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCITQ 158 (167)
Q Consensus 97 Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~~ 158 (167)
++..+.+-||++|++.+..++. ...|.+|++- -+=.+....... .+.+++.+..+.+
T Consensus 80 d~~ae~~lfVv~Ge~tv~~~G~-th~l~eggya---ylPpgs~~~~~N-~~~~~~rfhw~rk 136 (264)
T COG3257 80 DEGAETFLFVVSGEITVKAEGK-THALREGGYA---YLPPGSGWTLRN-AQKEDSRFHWIRK 136 (264)
T ss_pred CCcceEEEEEEeeeEEEEEcCe-EEEeccCCeE---EeCCCCcceEee-ccCCceEEEEEee
Confidence 3457789999999999976543 4556676553 111233333332 2445666655543
No 107
>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=29.76 E-value=68 Score=24.89 Aligned_cols=33 Identities=6% Similarity=0.085 Sum_probs=25.9
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
..+..+.++-+++|.|..|+.+++-.|.+..-.
T Consensus 51 ~~L~~~VeWAK~iP~F~~L~~~DQi~LLk~~w~ 83 (241)
T cd07069 51 QTLFSIVEWARSSIFFRELKVDDQMKLLQNCWS 83 (241)
T ss_pred HHHHHHHHHHhhCCCcccCCHHHHHHHHHHHHH
Confidence 345567889999999999999988887665533
No 108
>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=29.59 E-value=78 Score=24.27 Aligned_cols=32 Identities=13% Similarity=0.042 Sum_probs=25.3
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.+....++-+++|.|..|+.+++-.|.+..-.
T Consensus 31 ~L~~~V~WAK~iP~F~~L~~~DQi~LLk~~W~ 62 (222)
T cd07349 31 VLVKTVAFMRNLPSFWQLPPQDQLLLLQNCWG 62 (222)
T ss_pred HHHHHHHHHhcCCCcccCChHHHHHHHHHccH
Confidence 44557889999999999999988877665533
No 109
>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=29.58 E-value=60 Score=24.88 Aligned_cols=33 Identities=21% Similarity=0.348 Sum_probs=26.3
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
..+..+.++-+++|.|.+|+.+++-.|.+..-.
T Consensus 46 ~~l~~iV~wAK~iPgF~~L~~~DQi~LLk~~~~ 78 (226)
T cd06934 46 YMIKQIIKFAKDLPYFRSLPIEDQISLLKGATF 78 (226)
T ss_pred HHHHHHHHHhcCCcccccCCcchHHHHHHHhHH
Confidence 445568899999999999999988887765543
No 110
>PF05726 Pirin_C: Pirin C-terminal cupin domain; InterPro: IPR008778 This entry represents C-terminal domain of Pirin proteins from both eukaryotes and prokaryotes. The function of Pirin is unknown but the gene coding for this protein is known to be expressed in all tissues in the human body although it is expressed most strongly in the liver and heart. Pirin is known to be a nuclear protein, exclusively localised within the nucleoplasma and predominantly concentrated within dot-like subnuclear structures []. Pirin is composed of two structurally similar domains arranged face to face. The N-terminal domain additionally features four beta-strands, and the C-terminal domain also includes four additional -strands and a short alpha-helix. Although the two domains are similar, the C-terminal domain of Pirin differs from the N-terminal domain as it does not contain a metal binding site and its sequence does not contain the conserved metal-coordinating residues []. Pirin is confirmed to be a member of the cupin superfamily on the basis of primary sequence and structural similarity. The presence of a metal binding site in the N-terminal beta-barrel of Pirin, may be significant in its role in regulating NFI DNA replication and NF-kappaB transcription factor activity []. Pirin structure has been found to closely resemble members of the cupin superfamily. Pirin contains the two characteristic sequences of the cupin superfamily, namely PG-(X)5-HXH-(X)4-E-(X)6-G and G-(X)5-PXG-(X)2-H-(X)3-N separated by a variable stretch of 15-50 amino acids. These motifs are best conserved in the N-terminal where the conserved histidine and glutamic acid residues correspond to the metal-coordinating residues. The C-terminal domain motifs lack the metal binding residues normally associated with the cupin fold []. Pirin was identified to be a metal-binding protein [], and was found that the metal-binding residues of Pirins are highly conserved across mammals, plants, fungi, and prokaryotic organisms. Pirin acts as a cofactor for the transcription factor NFI, the regulatory mechanism of which is generally believed to require the assistance of a metal ion []. Structural data supports the hypothesis that the bound iron of Pirin may participate in this transcriptional regulation by enhancing and stabilising the formation of the p50,Bcl3,DNA complex []. Metals have been implicated directly or indirectly in the NF-kappaB family of transcription factors that control expression of a number of early response genes associated with inflammatory responses, cell growth, cell cycle progression, and neoplastic transformation []. However, most metal-dependent transcription factors are DNA-binding proteins that bind to specific sequences when the metal binds to the protein. Pirin, on the other hand, appears to function differently and bind to the transcription factor DNA complex [].; PDB: 1J1L_A 3ACL_A 2P17_A.
Probab=28.89 E-value=1.7e+02 Score=19.22 Aligned_cols=66 Identities=18% Similarity=0.209 Sum_probs=32.7
Q ss_pred cCCcEEEec-CCCCCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEEEec-CceEEEEEeHHHHH
Q psy7149 88 KAGTIVMND-GEELDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMRTRC-DDCQFVCITQTDYY 162 (167)
Q Consensus 88 ~~ge~I~~~-Gd~~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~-~~~~ll~i~~~~f~ 162 (167)
++|..+-.. ...-+.+-++++|.+.+.... ..+.+|+. .++. .....++ .+. ++++++.+.-+-+.
T Consensus 7 ~~g~~~~~~~~~~~~~~iyv~~G~~~v~~~~---~~~~~~~~----~~l~-~g~~i~~-~a~~~~a~~lll~GePl~ 74 (104)
T PF05726_consen 7 EPGASFTLPLPPGHNAFIYVLEGSVEVGGEE---DPLEAGQL----VVLE-DGDEIEL-TAGEEGARFLLLGGEPLN 74 (104)
T ss_dssp -TT-EEEEEEETT-EEEEEEEESEEEETTTT---EEEETTEE----EEE--SECEEEE-EESSSSEEEEEEEE----
T ss_pred CCCCEEEeecCCCCEEEEEEEECcEEECCCc---ceECCCcE----EEEC-CCceEEE-EECCCCcEEEEEEccCCC
Confidence 556555322 344678888999998773322 33444432 2333 2233445 455 67888887665443
No 111
>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=27.31 E-value=78 Score=24.57 Aligned_cols=34 Identities=15% Similarity=0.299 Sum_probs=27.6
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhccee
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVFA 84 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~~ 84 (167)
..+..+.++-+++|.|..|+.+++-.|.+....+
T Consensus 52 ~~i~~iVewAK~iPgF~~L~~~DQi~LLk~~~~E 85 (238)
T cd07071 52 GSMEIIRGWAEKIPGFTDLPKADQDLLFESAFLE 85 (238)
T ss_pred HHHHHHHHHhccCCCccCCCHHHHHHHHHHHHHH
Confidence 4456788999999999999999988887766443
No 112
>PF06052 3-HAO: 3-hydroxyanthranilic acid dioxygenase; InterPro: IPR010329 Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase (1.13.11.6 from EC). It is part of the kynurenine pathway for the degradation of tryptophan and the biosynthesis of nicotinic acid [].The prokaryotic homologue is involved in the 2-nitrobenzoate degradation pathway []. The enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.; GO: 0000334 3-hydroxyanthranilate 3,4-dioxygenase activity, 0005506 iron ion binding, 0008152 metabolic process, 0055114 oxidation-reduction process; PDB: 1ZVF_A 1YFX_A 1YFW_A 1YFY_A 1YFU_A 2QNK_A 3FE5_A.
Probab=26.57 E-value=2.6e+02 Score=20.36 Aligned_cols=55 Identities=11% Similarity=0.119 Sum_probs=28.5
Q ss_pred CCCeEEEEEEeEEEEEE-c-C-ceeEEecCCCeeeecccccCCceeeEEEEecCceEEEEEeHH
Q psy7149 99 ELDSWSVVINGCVEVEL-S-D-GRSQMLQVGDSFGILPTMEKLYHEGVMRTRCDDCQFVCITQT 159 (167)
Q Consensus 99 ~~~~lyiI~~G~v~v~~-~-~-~~~~~l~~Gd~FGe~all~~~~r~~tv~~a~~~~~ll~i~~~ 159 (167)
++.-+|.-++|.+.+.. . + .....+++|++| ++......+-. . ..++.-++|.+.
T Consensus 52 e~eE~FyQ~kG~m~Lkv~e~g~~kdi~I~EGe~f----LLP~~vpHsP~-R-~~~tiGLViEr~ 109 (151)
T PF06052_consen 52 ETEEFFYQLKGDMCLKVVEDGKFKDIPIREGEMF----LLPANVPHSPQ-R-PADTIGLVIERK 109 (151)
T ss_dssp SS-EEEEEEES-EEEEEEETTEEEEEEE-TTEEE----EE-TT--EEEE-E--TT-EEEEEEE-
T ss_pred CcceEEEEEeCcEEEEEEeCCceEEEEeCCCcEE----ecCCCCCCCCc-C-CCCcEEEEEEec
Confidence 45578888999988743 2 2 234567899888 44333222223 2 356777777664
No 113
>cd06947 NR_LBD_GR_Like Ligand binding domain of nuclear hormone receptors:glucocorticoid receptor, mineralocorticoid receptor , progesterone receptor, and androgen receptor. The ligand binding domain of GR_like nuclear receptors: This family of NRs includes four distinct, but closely related nuclear hormone receptors: glucocorticoid receptor (GR), mineralocorticoid receptor (MR), progesterone receptor (PR), and androgen receptor (AR). These four receptors play key roles in some of the most fundamental physiological functions such as the stress response, metabolism, electrolyte homeostasis, immune function, growth, development, and reproduction. The NRs in this family use multiple signaling pathways and share similar functional mechanisms. The dominant signaling pathway is via direct DNA binding and transcriptional regulation of target genes. Another mechanism is via protein-protein interactions, mainly with other transcription factors such as nuclear factor-kappaB and activator prote
Probab=26.51 E-value=97 Score=24.20 Aligned_cols=33 Identities=15% Similarity=0.280 Sum_probs=26.4
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.++..+.++-+++|.|.+|+.+++-.|.+....
T Consensus 39 ~~L~~~VeWAK~iPgF~~L~~~DQi~LLk~~w~ 71 (246)
T cd06947 39 RQLVSVVKWAKALPGFRNLHLDDQMTLIQYSWM 71 (246)
T ss_pred HHHHHHHHHHHcCCCcccCCHHHHHHHHHHhHH
Confidence 345667899999999999999988887665543
No 114
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=26.09 E-value=2.7e+02 Score=21.76 Aligned_cols=55 Identities=11% Similarity=0.021 Sum_probs=30.4
Q ss_pred EEEEEeEEEEEEcCceeEEecCCCeeeeccccc-CCceeeEEEEecCceEEEEEeHHHHHHH
Q psy7149 104 SVVINGCVEVELSDGRSQMLQVGDSFGILPTME-KLYHEGVMRTRCDDCQFVCITQTDYYRI 164 (167)
Q Consensus 104 yiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~-~~~r~~tv~~a~~~~~ll~i~~~~f~~l 164 (167)
.++++|...+..++. ...+.||+++ ++. +.|..... ....++..+.+|+..+...
T Consensus 75 ~~~~~G~~~~~~~g~-~~~l~~G~~~----l~~~~~p~~~~~-~~~~~~~~l~i~~~~l~~~ 130 (302)
T PRK09685 75 VFQLSGHAIIEQDDR-QVQLAAGDIT----LIDASRPCSIYP-QGLSEQISLLLPRELVEQY 130 (302)
T ss_pred EEEecceEEEEECCe-EEEEcCCCEE----EEECCCCcEeec-CCCceeEEEEccHHHhhcc
Confidence 345899988876544 4567888775 332 23332221 1112345567777766543
No 115
>PF05523 FdtA: WxcM-like, C-terminal ; InterPro: IPR008894 This entry includes FdtA (Q6T1W8 from SWISSPROT) from Aneurinibacillus thermoaerophilus, which has been characterised as a dTDP-6-deoxy-3,4-keto-hexulose isomerase []. It also includes WxcM (Q93S92 from SWISSPROT) from Xanthomonas campestris pv campestris) []. ; PDB: 2PAK_A 2PAE_A 2PA7_B 2PAM_A.
Probab=26.00 E-value=2.3e+02 Score=19.67 Aligned_cols=59 Identities=19% Similarity=0.397 Sum_probs=24.6
Q ss_pred CCCCeEEEEEEeEEEEEEcC---ceeEEecCCCeeeeccccc-CCceeeEEEEecCceEEEEEeHHHH
Q psy7149 98 EELDSWSVVINGCVEVELSD---GRSQMLQVGDSFGILPTME-KLYHEGVMRTRCDDCQFVCITQTDY 161 (167)
Q Consensus 98 d~~~~lyiI~~G~v~v~~~~---~~~~~l~~Gd~FGe~all~-~~~r~~tv~~a~~~~~ll~i~~~~f 161 (167)
.....++++++|++.+...+ .....|...+ -|- .+. +-.+.... -.++|.++++..+.|
T Consensus 52 k~~~~~~~~l~Gs~~v~~~d~~~~~~~~L~~~~-~~L--~Ippg~w~~~~~--~s~~svlLv~as~~y 114 (131)
T PF05523_consen 52 KKTTQWFIVLSGSFKVVLDDGREEEEFILDEPN-KGL--YIPPGVWHGIKN--FSEDSVLLVLASEPY 114 (131)
T ss_dssp SS--EEEEEEES-EEEEEE-SS-EEEEEE--TT-EEE--EE-TT-EEEEE-----TT-EEEEEESS--
T ss_pred ccccEEEEEEeCEEEEEEecCCCcEEEEECCCC-eEE--EECCchhhHhhc--cCCCcEEEEEcCCCC
Confidence 45778999999999997532 2233344433 211 111 11122222 235577777766544
No 116
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=25.99 E-value=1.1e+02 Score=28.47 Aligned_cols=33 Identities=3% Similarity=0.052 Sum_probs=28.6
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.++..+++.+++..+|.+|+.++...+++.+.-
T Consensus 406 ~~~~~~y~~vrraypy~~L~~e~f~~v~~~l~~ 438 (814)
T COG1201 406 WEVEEAYRVVRRAYPYADLSREDFRLVLRYLAG 438 (814)
T ss_pred CCHHHHHHHHHhccccccCCHHHHHHHHHHHhh
Confidence 345788999999999999999999998887766
No 117
>COG5458 Uncharacterized conserved protein [Function unknown]
Probab=25.98 E-value=81 Score=22.06 Aligned_cols=32 Identities=22% Similarity=0.143 Sum_probs=20.0
Q ss_pred CCeEEEEEEeEEEEEEcCceeEEecCCCeeee
Q psy7149 100 LDSWSVVINGCVEVELSDGRSQMLQVGDSFGI 131 (167)
Q Consensus 100 ~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe 131 (167)
+.++|.|++|.|.....---+..++.|+-+|.
T Consensus 55 GgSLYwViKG~VqcRQ~ll~Ir~ftd~egigR 86 (144)
T COG5458 55 GGSLYWVIKGQVQCRQKLLDIRTFTDGEGIGR 86 (144)
T ss_pred CCeEEEEEeceeehhhhceeeeeccCCCccce
Confidence 67899999999987543222334444444444
No 118
>PF13128 DUF3954: Protein of unknown function (DUF3954)
Probab=25.73 E-value=1.5e+02 Score=17.34 Aligned_cols=28 Identities=18% Similarity=0.131 Sum_probs=19.1
Q ss_pred CCeEEEEEEeEEEEEEcCceeEEecCCCeeeecccc
Q psy7149 100 LDSWSVVINGCVEVELSDGRSQMLQVGDSFGILPTM 135 (167)
Q Consensus 100 ~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all 135 (167)
.+.+|++..|.+.... .|..=|||..+.
T Consensus 9 ~ngiYiV~~G~v~~i~--------pP~sGfGeq~~~ 36 (50)
T PF13128_consen 9 ENGIYIVKDGEVTFIE--------PPESGFGEQVIV 36 (50)
T ss_pred CCeEEEEECCeEEEcC--------CCCCCcceEEEE
Confidence 4678888888877653 244447877665
No 119
>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=25.28 E-value=1.1e+02 Score=23.08 Aligned_cols=30 Identities=10% Similarity=0.141 Sum_probs=24.3
Q ss_pred HHHHHHHHhhcChhhhcCCHHHHHHHhhhc
Q psy7149 52 DIEQLLDFTQHLKAFTNMTLAVRKALCGVM 81 (167)
Q Consensus 52 ~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~ 81 (167)
.+-...++-+++|.|..|+.+++-.|.+..
T Consensus 38 ~L~~~VewaK~ip~F~~L~~~DQi~LLk~~ 67 (206)
T cd06950 38 LLFMAVKWAKSIPAFSTLPFRDQLILLEES 67 (206)
T ss_pred HHHHHHHHHHhCCccccCCHHHHHHHHHHH
Confidence 345678899999999999999887776654
No 120
>PF14525 AraC_binding_2: AraC-binding-like domain
Probab=25.16 E-value=2.4e+02 Score=19.51 Aligned_cols=67 Identities=15% Similarity=0.115 Sum_probs=37.2
Q ss_pred cEEEecCCCCCe--EEEEEEeEEEEEEcCceeEEecCCCeeeecccccCCceeeEEE-EecCceEEEEEeHHHHHH
Q psy7149 91 TIVMNDGEELDS--WSVVINGCVEVELSDGRSQMLQVGDSFGILPTMEKLYHEGVMR-TRCDDCQFVCITQTDYYR 163 (167)
Q Consensus 91 e~I~~~Gd~~~~--lyiI~~G~v~v~~~~~~~~~l~~Gd~FGe~all~~~~r~~tv~-~a~~~~~ll~i~~~~f~~ 163 (167)
...++.....+. +.+.++|.+.+..+ +....+.||+++ +++.. ++.+.. ........+.||+..+..
T Consensus 44 ~~~vr~~~~~~~~~l~~~~~G~~~~~~~-g~~~~~~pg~~~----l~d~~-~~~~~~~~~~~~~~~l~ip~~~l~~ 113 (172)
T PF14525_consen 44 QRRVRSDAPDDHYLLVLPLSGSARIEQG-GREVELAPGDVV----LLDPG-QPYRLEFSAGCRQLSLRIPRALLER 113 (172)
T ss_pred CEEEECCCCCCEEEEEEEccCCEEEEEC-CEEEEEcCCeEE----EEcCC-CCEEEEECCCccEEEEEECHHHhcC
Confidence 445555543443 44558999988765 445678898754 34322 233331 122244567888666554
No 121
>PF02938 GAD: GAD domain; InterPro: IPR004115 This entry represetns an 2 layer alpha/beta insertion domain found in some glutamyl-tRNA amidotransferases and aspartyl tRNA synthetases [, ]. The function of this domain is not yet known.; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0005737 cytoplasm; PDB: 1ZQ1_D 1EQR_B 1IL2_B 1C0A_A 1L0W_A 1G51_B 1EFW_B 2D6F_D.
Probab=25.03 E-value=63 Score=21.10 Aligned_cols=28 Identities=18% Similarity=0.109 Sum_probs=20.9
Q ss_pred ChhhhcCCHHHHHHHhhhcceeEEccCCcEEE
Q psy7149 63 LKAFTNMTLAVRKALCGVMVFAVVEKAGTIVM 94 (167)
Q Consensus 63 ~~~F~~L~~~~l~~l~~~~~~~~~~~~ge~I~ 94 (167)
-|+.+.|+++++..|.+.+.. ++|++||
T Consensus 55 s~i~kfl~e~~~~~l~~~~~a----~~GD~ll 82 (95)
T PF02938_consen 55 SPIAKFLSEEELKALIERLGA----KPGDLLL 82 (95)
T ss_dssp CTTCCCCHHHHHHHHHHHTT------TTEEEE
T ss_pred CcccccCCHHHHHHHHHHhCC----CCCCEEE
Confidence 456666899999999998876 7888765
No 122
>CHL00133 psbV photosystem II cytochrome c550; Validated
Probab=25.01 E-value=1.2e+02 Score=22.32 Aligned_cols=21 Identities=14% Similarity=0.224 Sum_probs=18.6
Q ss_pred ChhhhcCCHHHHHHHhhhcce
Q psy7149 63 LKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 63 ~~~F~~L~~~~l~~l~~~~~~ 83 (167)
+|.|..|+++++..++..+..
T Consensus 127 MPa~~~LsdeEL~aVAaYIl~ 147 (163)
T CHL00133 127 FPKMRSLTDEDLYAIAGHILL 147 (163)
T ss_pred CCCCCCCCHHHHHHHHHHHHh
Confidence 788989999999999998764
No 123
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=23.98 E-value=3.4e+02 Score=20.91 Aligned_cols=28 Identities=11% Similarity=0.106 Sum_probs=17.6
Q ss_pred CeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 101 DSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 101 ~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
-.+.++.+|...+..++. ...+.+|+.+
T Consensus 45 ~~l~~~~~G~~~~~~~~~-~~~l~~g~~~ 72 (287)
T TIGR02297 45 YQLHYLTEGSIALQLDEH-EYSEYAPCFF 72 (287)
T ss_pred eeEEEEeeCceEEEECCE-EEEecCCeEE
Confidence 456677888887765443 4456666654
No 124
>COG4766 EutQ Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=23.90 E-value=1.7e+02 Score=21.41 Aligned_cols=27 Identities=19% Similarity=0.350 Sum_probs=16.9
Q ss_pred eEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 102 SWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 102 ~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
..-+|++|++.|...+..+ .-+|||++
T Consensus 120 e~d~VlEGrL~V~~~g~tv-~a~aGDvi 146 (176)
T COG4766 120 EIDYVLEGRLHVRIDGRTV-IAGAGDVI 146 (176)
T ss_pred ceeEEEeeeEEEEEcCCeE-ecCCCcEE
Confidence 3456788888887655432 34676654
No 125
>COG1039 RnhC Ribonuclease HIII [DNA replication, recombination, and repair]
Probab=22.53 E-value=1.8e+02 Score=23.54 Aligned_cols=48 Identities=8% Similarity=-0.006 Sum_probs=27.9
Q ss_pred cCCHHHHHHHhhhcceeEEc-cCCcEEEecCCCCCeEEEEEEeEEEEEE
Q psy7149 68 NMTLAVRKALCGVMVFAVVE-KAGTIVMNDGEELDSWSVVINGCVEVEL 115 (167)
Q Consensus 68 ~L~~~~l~~l~~~~~~~~~~-~~ge~I~~~Gd~~~~lyiI~~G~v~v~~ 115 (167)
.|++.+...+........+. .+--++|..--++..+++=.+|.+-+..
T Consensus 7 kls~s~~~~l~~~~~~~~~~~~~~~~~f~ak~~gvtv~~Y~Sgk~~~QG 55 (297)
T COG1039 7 KLSPSEIEKLKEQLKPSLFPSNPPYTVFAAKSPGVTVTIYKSGKVVIQG 55 (297)
T ss_pred EcCHHHHHHHHHHHhccccccCCCceEEEeeCCCeEEEEEccceEEEec
Confidence 35666666664444332221 2223455555577788888899888753
No 126
>COG0380 OtsA Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]
Probab=22.40 E-value=32 Score=29.84 Aligned_cols=28 Identities=18% Similarity=0.286 Sum_probs=22.4
Q ss_pred CCCceeeeeCCCcccccccCCcc-ccccc
Q psy7149 1 MDRGVNIVFDDASSNLVQSNGFV-SSSLF 28 (167)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ 28 (167)
.|-|||++|=||...+-+.+|.+ -||..
T Consensus 387 lrDGMNLvakEyVa~q~~~~G~LiLSeFa 415 (486)
T COG0380 387 LRDGMNLVAKEYVAAQRDKPGVLILSEFA 415 (486)
T ss_pred ccccccHHHHHHHHhhcCCCCcEEEeccc
Confidence 36799999999999888877765 66654
No 127
>cd07075 NR_LBD_MR Ligand binding domain of the mineralocorticoid receptor, a member of the nuclear receptor superfamily. The ligand binding domain of the mineralocorticoid receptor (MR): MR, also called aldosterone receptor, is a member of nuclear receptor superfamily involved in the regulation of electrolyte and fluid balance. The receptor is activated by mineralocorticoids such as aldosterone and deoxycorticosterone as well as glucocorticoids, like cortisol and cortisone. Binding of its ligand results in its translocation to the cell nucleus, homodimerization and binding to hormone response elements (HREs) present in the promoter of MR controlled genes. This results in the recruitment of the coactivators and the transcription of the activated genes. MR is expressed in many tissues and its activation results in the expression of proteins regulating electrolyte and fluid balance. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, MR h
Probab=22.38 E-value=1.2e+02 Score=23.79 Aligned_cols=31 Identities=19% Similarity=0.320 Sum_probs=25.5
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhc
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVM 81 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~ 81 (167)
.++..+.++-+++|.|.+|+.+++-.|.+..
T Consensus 39 ~~L~~iVeWAK~IPgF~~L~~~DQi~LLk~~ 69 (248)
T cd07075 39 KQMIQVVKWAKVLPGFRNLPLEDQITLIQYS 69 (248)
T ss_pred HHHHHHHHHHHcCCCcccCCHHHHHHHHHHH
Confidence 4556788999999999999999888776654
No 128
>PRK10296 DNA-binding transcriptional regulator ChbR; Provisional
Probab=21.66 E-value=1.8e+02 Score=22.55 Aligned_cols=29 Identities=24% Similarity=0.400 Sum_probs=19.6
Q ss_pred CCeEEEEEEeEEEEEEcCceeEEecCCCee
Q psy7149 100 LDSWSVVINGCVEVELSDGRSQMLQVGDSF 129 (167)
Q Consensus 100 ~~~lyiI~~G~v~v~~~~~~~~~l~~Gd~F 129 (167)
.-.++++++|.+.+..++.. ..+.+|+++
T Consensus 43 ~~ei~~v~~G~~~~~i~~~~-~~l~~g~l~ 71 (278)
T PRK10296 43 YYEFTLVLTGRYYQEINGKR-VLLERGDFV 71 (278)
T ss_pred cEEEEEEEeceEEEEECCEE-EEECCCcEE
Confidence 44678889999988765543 356666544
No 129
>PRK10117 trehalose-6-phosphate synthase; Provisional
Probab=21.40 E-value=61 Score=28.08 Aligned_cols=28 Identities=21% Similarity=0.313 Sum_probs=20.6
Q ss_pred CCCceeeeeCCCccccc-ccCC-ccccccc
Q psy7149 1 MDRGVNIVFDDASSNLV-QSNG-FVSSSLF 28 (167)
Q Consensus 1 ~~~~~~~~~~~~~~~~~-~~~~-~~~~~~~ 28 (167)
+|=|||++|=||..-+. +..| +|-||..
T Consensus 360 lRDGMNLVAkEyva~q~~~~~GvLILSefA 389 (474)
T PRK10117 360 LRDGMNLVAKEYVAAQDPANPGVLVLSQFA 389 (474)
T ss_pred cccccccccchheeeecCCCCccEEEeccc
Confidence 46799999999998876 4445 4466663
No 130
>PLN02288 mannose-6-phosphate isomerase
Probab=21.38 E-value=3.2e+02 Score=23.06 Aligned_cols=31 Identities=23% Similarity=0.189 Sum_probs=18.0
Q ss_pred CCCeEEEEEEeEEEEEEcCce-eEEecCCCee
Q psy7149 99 ELDSWSVVINGCVEVELSDGR-SQMLQVGDSF 129 (167)
Q Consensus 99 ~~~~lyiI~~G~v~v~~~~~~-~~~l~~Gd~F 129 (167)
.+-.+.++++|++.+...++. ...+++|+.|
T Consensus 353 ~gp~Illv~~G~~~i~~~~~~~~~~l~~G~~~ 384 (394)
T PLN02288 353 PGPSVFLVIEGEGVLSTGSSEDGTAAKRGDVF 384 (394)
T ss_pred CCCEEEEEEcCEEEEecCCccceEEEeceeEE
Confidence 345677888888887543322 2345666544
No 131
>TIGR02929 anfG_nitrog Fe-only nitrogenase, delta subunit. Nitrogenase, also called dinitrogenase, is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, AnfG, represents the delta subunit of the Fe-only alternative nitrogenase. It is homologous to VnfG, the delta subunit of the V-containing (vanadium) nitrogenase.
Probab=21.31 E-value=2.8e+02 Score=18.95 Aligned_cols=46 Identities=20% Similarity=0.152 Sum_probs=31.0
Q ss_pred HHHhcCCCCCC-CHHHHHH------H-HHHhhcChhhhcCCHHHHHHHhhhcce
Q psy7149 38 RECLEKDPSER-TDDDIEQ------L-LDFTQHLKAFTNMTLAVRKALCGVMVF 83 (167)
Q Consensus 38 r~~l~k~p~~R-~~~~~~~------i-~~~L~~~~~F~~L~~~~l~~l~~~~~~ 83 (167)
.++|.-.|..+ |+.|.-. + .++-.++|++..|+.++++.|...++-
T Consensus 36 ~~lL~GE~~~~~Tp~Dr~y~~DAv~la~~~k~rfpW~~~~~kdei~~l~~~lk~ 89 (109)
T TIGR02929 36 RQILCGENAREDTSADRCYWVDAVTLAGAYKRRFPWLEDMTKDEIKTLMQALHE 89 (109)
T ss_pred HHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHhCcHHHhCCHHHHHHHHHHHHH
Confidence 35555555444 6655432 2 234468999999999999999887654
No 132
>cd07074 NR_LBD_PR Ligand binding domain of the progesterone receptor, a member of the nuclear hormone receptor. The ligand binding domain of the progesterone receptor (PR): PR is a member of the nuclear receptor superfamily of ligand dependent transcription factors, mediating the biological actions of progesterone. PR functions in a variety of biological processes including development of the mammary gland, regulating cell cycle progression, protein processing, and metabolism. When no binding hormone is present the carboxyl terminal inhibits transcription. Binding to a hormone induces a structural change that removes the inhibitory action. After progesterone binds to the receptor, PR forms a dimer and the complex enters the nucleus where it interacts with the hormone response element (HRE) in the promoters of progesterone responsive genes and alters their transcription. In addition, rapid actions of PR that occur independent of transcription, have also been observed in several tissues
Probab=21.30 E-value=1.3e+02 Score=23.66 Aligned_cols=31 Identities=13% Similarity=0.295 Sum_probs=25.0
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhc
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVM 81 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~ 81 (167)
.++-.+.++-+++|.|.+|+.+++-.|.+..
T Consensus 39 r~L~~vVeWAK~lPgF~~L~~~DQi~LLk~s 69 (248)
T cd07074 39 RQLLSVVKWSKSLPGFRNLHIDDQITLIQYS 69 (248)
T ss_pred HHHHHHHHHHhcCCCcccCCHHHHHHHHHHH
Confidence 3455678899999999999999888776654
No 133
>PRK10766 DNA-binding transcriptional regulator TorR; Provisional
Probab=21.26 E-value=14 Score=27.19 Aligned_cols=18 Identities=17% Similarity=0.226 Sum_probs=14.2
Q ss_pred CceeeeeCCCcccccccC
Q psy7149 3 RGVNIVFDDASSNLVQSN 20 (167)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~ 20 (167)
++++.|||||+.+|++..
T Consensus 90 ~~l~~Ga~d~l~kP~~~~ 107 (221)
T PRK10766 90 VGLEMGADDYVTKPLELR 107 (221)
T ss_pred HHHHcCCCcEEeCCCCHH
Confidence 457789999999988653
No 134
>cd07076 NR_LBD_GR Ligand binding domain of the glucocorticoid receptor, a member of the nuclear receptor superfamily. The ligand binding domain of the glucocorticoid receptor (GR): GR is a ligand-activated transcription factor belonging to the nuclear receptor superfamily. It binds with high affinity to cortisol and other glucocorticoids. GR is expressed in almost every cell in the body and regulates genes controlling a wide variety of processes including the development, metabolism, and immune response of the organism. In the absence of hormone, the glucocorticoid receptor (GR) is complexes with a variety of heat shock proteins in the cytosol. The binding of the glucocorticoids results in release of the heat shock proteins and transforms it to its active state. One mechanism of action of GR is by direct activation of gene transcription. The activated form of GR forms dimers, translocates into the nucleus, and binds to specific hormone responsive elements, activating gene transcription
Probab=21.14 E-value=1.4e+02 Score=23.44 Aligned_cols=31 Identities=13% Similarity=0.259 Sum_probs=25.2
Q ss_pred HHHHHHHHHhhcChhhhcCCHHHHHHHhhhc
Q psy7149 51 DDIEQLLDFTQHLKAFTNMTLAVRKALCGVM 81 (167)
Q Consensus 51 ~~~~~i~~~L~~~~~F~~L~~~~l~~l~~~~ 81 (167)
.++-.+.++-+++|.|.+|+-+++-.|.+..
T Consensus 39 r~L~~~VeWAK~IPgF~~L~l~DQi~LLk~s 69 (247)
T cd07076 39 RQVVAAVKWAKAIPGFRNLHLDDQMTLLQYS 69 (247)
T ss_pred HHHHHHHHHHhcCCCcccCCHHHHHHHHHHh
Confidence 4455678899999999999999888776654
No 135
>KOG1448|consensus
Probab=20.15 E-value=1.2e+02 Score=24.73 Aligned_cols=52 Identities=10% Similarity=0.151 Sum_probs=35.3
Q ss_pred hcChhhhcCCHHHHH-HHhhh-------cceeEEccCCcEEEecC--CCCCeEEEEEEeEEEE
Q psy7149 61 QHLKAFTNMTLAVRK-ALCGV-------MVFAVVEKAGTIVMNDG--EELDSWSVVINGCVEV 113 (167)
Q Consensus 61 ~~~~~F~~L~~~~l~-~l~~~-------~~~~~~~~~ge~I~~~G--d~~~~lyiI~~G~v~v 113 (167)
.++.+|.+.+..+|. .++.. ..++.| ..|++-+.=| -.+.+.|++.+|+=.+
T Consensus 2 ~~i~lf~g~shp~La~~I~~~lgi~l~~v~~kkf-~nge~~v~i~esvR~~dV~iiqsgsg~i 63 (316)
T KOG1448|consen 2 KNIKLFSGDSHPELAERIAARLGIELGKVNLKKF-SNGETSVQIGESVRGEDVYIIQSGSGPI 63 (316)
T ss_pred CceEEEcCCCCHHHHHHHHHHhCCCcceeeeEEc-cCCcEEEecccccccCcEEEeccCCCcc
Confidence 355677777666554 34443 356778 8899776544 4588999999998774
Done!