Query 001516
Match_columns 1062
No_of_seqs 427 out of 1537
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 02:47:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001516.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001516hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0954 PHD finger protein [Ge 100.0 1.7E-42 3.8E-47 400.3 8.6 524 3-596 328-892 (893)
2 KOG0954 PHD finger protein [Ge 100.0 2.9E-36 6.3E-41 349.0 9.6 168 701-886 267-440 (893)
3 KOG0956 PHD finger protein AF1 100.0 1.8E-35 3.9E-40 339.8 5.6 170 702-887 2-185 (900)
4 COG5141 PHD zinc finger-contai 100.0 3E-35 6.6E-40 328.3 4.3 168 703-886 191-366 (669)
5 KOG0955 PHD finger protein BR1 100.0 3.4E-34 7.3E-39 351.0 9.1 169 702-886 216-397 (1051)
6 KOG0957 PHD finger protein [Ge 100.0 5.5E-32 1.2E-36 302.7 8.1 242 707-968 121-413 (707)
7 PF13832 zf-HC5HC2H_2: PHD-zin 99.9 2.2E-24 4.7E-29 205.8 6.1 107 2-113 4-110 (110)
8 PF13832 zf-HC5HC2H_2: PHD-zin 99.9 2.5E-23 5.5E-28 198.4 7.1 106 776-882 2-110 (110)
9 KOG0956 PHD finger protein AF1 99.9 1.1E-23 2.3E-28 243.4 2.7 113 3-119 67-186 (900)
10 COG5141 PHD zinc finger-contai 99.9 4.3E-23 9.4E-28 231.6 2.6 116 3-120 252-369 (669)
11 KOG0955 PHD finger protein BR1 99.8 1.4E-21 3E-26 240.8 3.9 114 2-117 277-397 (1051)
12 PF13771 zf-HC5HC2H: PHD-like 99.7 5.4E-18 1.2E-22 156.1 4.6 88 23-114 1-90 (90)
13 KOG0957 PHD finger protein [Ge 99.7 6.9E-18 1.5E-22 190.4 1.1 113 3-119 187-304 (707)
14 PF13771 zf-HC5HC2H: PHD-like 99.5 7.8E-15 1.7E-19 135.2 3.0 85 797-883 1-90 (90)
15 KOG1080 Histone H3 (Lys4) meth 99.0 3.6E-10 7.7E-15 141.2 6.5 143 700-865 568-715 (1005)
16 PF13831 PHD_2: PHD-finger; PD 98.9 2.3E-10 4.9E-15 89.7 0.3 35 718-752 1-36 (36)
17 KOG1080 Histone H3 (Lys4) meth 97.6 1.8E-05 3.9E-10 100.0 2.0 86 2-95 631-716 (1005)
18 PF00628 PHD: PHD-finger; Int 97.6 3.9E-05 8.4E-10 63.9 2.3 46 707-753 1-50 (51)
19 smart00249 PHD PHD zinc finger 97.5 9.3E-05 2E-09 59.0 3.4 44 707-751 1-47 (47)
20 KOG1084 Transcription factor T 97.1 0.00021 4.6E-09 82.8 2.1 98 775-883 222-321 (375)
21 KOG1244 Predicted transcriptio 96.9 0.00038 8.2E-09 76.1 2.0 51 705-756 281-333 (336)
22 KOG1512 PHD Zn-finger protein 96.7 0.00061 1.3E-08 74.8 1.7 45 704-749 313-357 (381)
23 PF15446 zf-PHD-like: PHD/FYVE 96.6 0.0022 4.8E-08 66.3 4.7 127 707-858 1-140 (175)
24 KOG1084 Transcription factor T 96.5 0.0012 2.6E-08 76.7 2.5 86 17-114 236-321 (375)
25 KOG4323 Polycomb-like PHD Zn-f 96.3 0.002 4.4E-08 75.8 2.2 51 704-754 167-224 (464)
26 KOG4323 Polycomb-like PHD Zn-f 96.0 0.006 1.3E-07 72.0 4.3 135 706-884 84-223 (464)
27 COG5034 TNG2 Chromatin remodel 95.8 0.046 1E-06 60.0 9.7 52 699-753 215-269 (271)
28 KOG0825 PHD Zn-finger protein 95.1 0.01 2.3E-07 72.5 2.0 52 702-754 212-266 (1134)
29 KOG4299 PHD Zn-finger protein 94.2 0.019 4.2E-07 69.4 1.4 48 706-754 254-305 (613)
30 KOG1973 Chromatin remodeling p 93.3 0.039 8.4E-07 61.9 1.8 50 702-754 216-268 (274)
31 smart00249 PHD PHD zinc finger 91.3 0.17 3.7E-06 40.1 2.7 32 829-862 1-34 (47)
32 PF14446 Prok-RING_1: Prokaryo 90.7 0.17 3.7E-06 43.7 2.2 33 704-736 4-36 (54)
33 KOG0383 Predicted helicase [Ge 87.6 0.24 5.2E-06 61.8 1.3 50 700-753 42-93 (696)
34 TIGR02844 spore_III_D sporulat 86.8 0.89 1.9E-05 42.4 4.2 50 222-272 9-60 (80)
35 PF10198 Ada3: Histone acetylt 85.2 5.1 0.00011 40.7 9.0 82 531-612 14-104 (131)
36 PF09012 FeoC: FeoC like trans 83.9 0.71 1.5E-05 41.1 2.1 31 224-254 5-35 (69)
37 PF00628 PHD: PHD-finger; Int 80.1 1.1 2.3E-05 37.2 1.8 30 829-860 1-32 (51)
38 PF00356 LacI: Bacterial regul 79.5 1.8 3.9E-05 36.2 2.9 44 235-278 1-45 (46)
39 KOG1044 Actin-binding LIM Zn-f 77.3 1.2 2.6E-05 54.1 1.6 87 774-866 133-228 (670)
40 KOG1512 PHD Zn-finger protein 77.0 1.4 3.1E-05 49.3 2.1 50 704-753 257-316 (381)
41 PF08220 HTH_DeoR: DeoR-like h 75.8 1.9 4.2E-05 37.2 2.1 34 222-255 3-36 (57)
42 KOG4443 Putative transcription 74.4 1.8 3.9E-05 53.4 2.1 48 706-754 69-118 (694)
43 KOG1973 Chromatin remodeling p 73.3 1.7 3.7E-05 48.9 1.5 47 828-884 220-267 (274)
44 PF00130 C1_1: Phorbol esters/ 72.7 3.4 7.3E-05 34.6 2.8 34 705-738 11-45 (53)
45 KOG1245 Chromatin remodeling c 71.2 1.2 2.6E-05 60.0 -0.4 51 704-755 1107-1159(1404)
46 smart00530 HTH_XRE Helix-turn- 67.7 7.5 0.00016 30.2 3.7 48 225-272 2-50 (56)
47 PF02318 FYVE_2: FYVE-type zin 67.6 3.8 8.2E-05 40.5 2.3 48 706-754 55-103 (118)
48 KOG1473 Nucleosome remodeling 67.3 5.2 0.00011 52.1 3.9 116 700-858 339-458 (1414)
49 cd00029 C1 Protein kinase C co 67.2 3.2 6.9E-05 33.9 1.5 34 705-738 11-45 (50)
50 TIGR02607 antidote_HigA addict 66.6 9.7 0.00021 34.0 4.6 54 219-272 3-58 (78)
51 PF02796 HTH_7: Helix-turn-hel 65.8 6.9 0.00015 32.2 3.2 31 223-254 12-42 (45)
52 smart00109 C1 Protein kinase C 64.5 3.1 6.8E-05 33.6 0.9 33 705-737 11-43 (49)
53 PF07649 C1_3: C1-like domain; 64.4 3.1 6.8E-05 31.4 0.8 28 707-735 2-29 (30)
54 PF13443 HTH_26: Cro/C1-type H 60.5 9.6 0.00021 32.7 3.3 48 225-272 2-51 (63)
55 PF01381 HTH_3: Helix-turn-hel 60.1 12 0.00027 31.1 3.8 48 225-272 1-49 (55)
56 PF13404 HTH_AsnC-type: AsnC-t 58.4 8.5 0.00018 31.6 2.4 32 223-254 7-38 (42)
57 PF03107 C1_2: C1 domain; Int 56.2 9.1 0.0002 29.1 2.1 27 707-735 2-29 (30)
58 cd04718 BAH_plant_2 BAH, or Br 55.6 7.2 0.00016 40.5 1.9 27 730-756 1-29 (148)
59 PF13412 HTH_24: Winged helix- 54.7 10 0.00022 31.1 2.4 33 222-254 6-38 (48)
60 KOG4443 Putative transcription 54.3 5.5 0.00012 49.3 1.0 48 706-753 19-70 (694)
61 cd00093 HTH_XRE Helix-turn-hel 52.6 21 0.00046 27.8 3.9 48 224-271 3-51 (58)
62 PF01978 TrmB: Sugar-specific 51.9 11 0.00023 33.2 2.2 33 222-254 11-43 (68)
63 PF13901 DUF4206: Domain of un 51.1 12 0.00027 40.3 3.0 44 704-754 151-198 (202)
64 KOG4236 Serine/threonine prote 50.6 8.1 0.00017 47.2 1.6 34 703-736 154-188 (888)
65 PF10668 Phage_terminase: Phag 49.5 10 0.00022 33.8 1.6 21 231-251 20-40 (60)
66 KOG1701 Focal adhesion adaptor 48.9 6.4 0.00014 46.7 0.4 154 707-884 276-460 (468)
67 TIGR03070 couple_hipB transcri 48.6 29 0.00064 28.5 4.3 36 220-255 2-37 (58)
68 PF13542 HTH_Tnp_ISL3: Helix-t 46.4 17 0.00038 30.0 2.5 31 222-254 18-48 (52)
69 PHA02591 hypothetical protein; 46.2 21 0.00046 33.4 3.2 37 217-254 44-80 (83)
70 smart00550 Zalpha Z-DNA-bindin 45.9 17 0.00036 32.6 2.5 34 222-255 9-44 (68)
71 PF07227 DUF1423: Protein of u 45.9 15 0.00032 44.1 2.7 47 707-753 130-191 (446)
72 cd00569 HTH_Hin_like Helix-tur 44.6 32 0.0007 24.3 3.5 30 222-252 11-40 (42)
73 PF13936 HTH_38: Helix-turn-he 43.7 15 0.00033 30.2 1.7 30 224-254 12-41 (44)
74 KOG0825 PHD Zn-finger protein 43.2 36 0.00078 43.3 5.4 49 827-885 215-266 (1134)
75 PRK09492 treR trehalose repres 42.8 21 0.00046 39.4 3.3 52 231-282 2-54 (315)
76 PF14197 Cep57_CLD_2: Centroso 42.8 72 0.0016 29.2 6.0 59 545-610 2-62 (69)
77 smart00420 HTH_DEOR helix_turn 41.5 23 0.0005 28.5 2.5 32 223-254 4-35 (53)
78 KOG3799 Rab3 effector RIM1 and 41.1 12 0.00026 38.2 0.8 50 704-753 64-115 (169)
79 PRK10014 DNA-binding transcrip 41.0 23 0.0005 39.6 3.2 52 231-282 4-56 (342)
80 COG5034 TNG2 Chromatin remodel 40.9 13 0.00028 41.6 1.1 46 826-881 219-266 (271)
81 PRK14987 gluconate operon tran 40.0 23 0.0005 39.6 3.0 52 231-282 3-55 (331)
82 PF07649 C1_3: C1-like domain; 39.6 18 0.00039 27.3 1.5 27 829-857 2-30 (30)
83 PF12324 HTH_15: Helix-turn-he 39.0 23 0.0005 33.1 2.3 34 222-255 27-60 (77)
84 PF13518 HTH_28: Helix-turn-he 38.6 22 0.00049 29.0 2.0 27 224-252 5-31 (52)
85 smart00354 HTH_LACI helix_turn 38.0 32 0.00069 30.7 3.0 47 234-280 1-48 (70)
86 PF04967 HTH_10: HTH DNA bindi 36.7 20 0.00044 31.1 1.5 22 233-254 23-44 (53)
87 PF12844 HTH_19: Helix-turn-he 36.5 43 0.00094 28.7 3.5 49 224-272 3-52 (64)
88 PHA01976 helix-turn-helix prot 35.9 62 0.0014 28.0 4.5 52 220-271 2-54 (67)
89 PF14446 Prok-RING_1: Prokaryo 35.7 39 0.00084 29.7 3.0 38 827-866 5-45 (54)
90 PRK15431 ferrous iron transpor 35.3 24 0.00051 33.1 1.8 27 228-254 11-37 (78)
91 PF08279 HTH_11: HTH domain; 34.7 32 0.00069 28.8 2.4 32 223-254 4-36 (55)
92 PRK10681 DNA-binding transcrip 34.7 30 0.00065 38.4 2.8 34 222-255 10-43 (252)
93 KOG1244 Predicted transcriptio 33.9 27 0.0006 39.4 2.3 49 706-754 225-284 (336)
94 PF01022 HTH_5: Bacterial regu 33.8 31 0.00067 28.4 2.1 31 223-254 6-36 (47)
95 PF08746 zf-RING-like: RING-li 33.6 26 0.00055 29.0 1.5 30 830-859 1-30 (43)
96 TIGR02405 trehalos_R_Ecol treh 33.3 35 0.00076 37.9 3.1 50 233-282 1-51 (311)
97 PF11793 FANCL_C: FANCL C-term 33.3 20 0.00044 32.4 1.0 32 706-737 3-38 (70)
98 PRK09726 antitoxin HipB; Provi 33.2 64 0.0014 30.0 4.3 59 218-276 10-69 (88)
99 COG5194 APC11 Component of SCF 32.4 16 0.00035 34.3 0.2 32 57-88 21-65 (88)
100 PF03107 C1_2: C1 domain; Int 31.8 30 0.00065 26.3 1.6 27 829-857 2-30 (30)
101 PF14569 zf-UDP: Zinc-binding 31.7 11 0.00023 35.2 -1.0 50 704-754 8-60 (80)
102 COG5194 APC11 Component of SCF 30.9 20 0.00042 33.8 0.5 33 828-860 21-66 (88)
103 PF01325 Fe_dep_repress: Iron 30.8 47 0.001 29.2 2.8 25 230-254 19-43 (60)
104 KOG4299 PHD Zn-finger protein 30.5 20 0.00043 44.5 0.6 30 56-88 253-285 (613)
105 smart00345 HTH_GNTR helix_turn 30.3 47 0.001 27.4 2.7 21 235-255 22-42 (60)
106 COG1349 GlpR Transcriptional r 30.1 39 0.00084 37.7 2.7 34 222-255 8-41 (253)
107 PRK06266 transcription initiat 30.0 40 0.00086 36.0 2.7 35 221-255 24-58 (178)
108 PF00165 HTH_AraC: Bacterial r 29.9 27 0.00059 27.9 1.1 25 231-255 6-30 (42)
109 PRK10339 DNA-binding transcrip 29.9 44 0.00095 37.4 3.2 49 233-281 1-52 (327)
110 KOG1844 PHD Zn-finger proteins 29.2 31 0.00067 41.8 1.9 46 709-754 89-135 (508)
111 smart00744 RINGv The RING-vari 29.0 19 0.00041 30.5 0.1 31 707-737 1-34 (49)
112 KOG0383 Predicted helicase [Ge 28.1 42 0.00092 42.7 2.9 30 828-860 48-77 (696)
113 PF08221 HTH_9: RNA polymerase 28.0 45 0.00098 29.5 2.3 35 221-255 15-49 (62)
114 TIGR00373 conserved hypothetic 27.6 45 0.00097 34.8 2.5 34 222-255 17-50 (158)
115 PRK10703 DNA-binding transcrip 27.4 51 0.0011 37.0 3.2 51 233-283 1-52 (341)
116 KOG4362 Transcriptional regula 27.4 20 0.00042 45.3 -0.2 67 16-88 328-394 (684)
117 PF04760 IF2_N: Translation in 27.1 28 0.00061 29.5 0.8 23 232-254 2-24 (54)
118 PF08746 zf-RING-like: RING-li 26.7 39 0.00086 27.9 1.5 30 59-88 1-30 (43)
119 COG2522 Predicted transcriptio 26.6 55 0.0012 33.0 2.8 33 222-255 12-44 (119)
120 PF13764 E3_UbLigase_R4: E3 ub 26.0 1.9E+02 0.004 37.9 7.9 30 700-729 463-497 (802)
121 PRK05472 redox-sensing transcr 25.7 45 0.00097 35.9 2.2 34 222-255 19-54 (213)
122 PRK10401 DNA-binding transcrip 25.2 58 0.0013 36.7 3.1 50 233-282 1-51 (346)
123 PRK10727 DNA-binding transcrip 25.2 59 0.0013 36.6 3.1 51 233-283 1-52 (343)
124 TIGR03830 CxxCG_CxxCG_HTH puta 25.1 1.2E+02 0.0026 29.5 4.9 53 222-274 67-119 (127)
125 PRK09526 lacI lac repressor; R 25.1 62 0.0013 36.3 3.3 53 231-283 3-56 (342)
126 PRK11169 leucine-responsive tr 24.5 50 0.0011 34.3 2.2 33 222-254 17-49 (164)
127 TIGR02531 yecD_yerC TrpR-relat 24.2 57 0.0012 31.1 2.3 29 223-252 41-69 (88)
128 KOG0696 Serine/threonine prote 24.1 31 0.00068 41.3 0.7 33 705-737 56-89 (683)
129 PF07227 DUF1423: Protein of u 24.0 48 0.001 40.0 2.2 20 706-731 114-133 (446)
130 PF10497 zf-4CXXC_R1: Zinc-fin 24.0 62 0.0013 31.8 2.6 62 702-785 4-81 (105)
131 KOG0804 Cytoplasmic Zn-finger 23.8 36 0.00079 40.9 1.1 46 706-756 176-222 (493)
132 TIGR00180 parB_part ParB-like 23.7 67 0.0015 34.0 3.0 52 217-268 104-155 (187)
133 PLN02638 cellulose synthase A 23.4 50 0.0011 43.8 2.3 50 704-754 16-68 (1079)
134 PLN02400 cellulose synthase 22.9 61 0.0013 43.1 2.9 49 705-754 36-87 (1085)
135 PF13639 zf-RING_2: Ring finge 22.8 33 0.00072 27.7 0.4 30 707-737 2-31 (44)
136 PF05043 Mga: Mga helix-turn-h 22.7 79 0.0017 29.0 2.9 43 222-274 19-61 (87)
137 smart00342 HTH_ARAC helix_turn 22.5 64 0.0014 28.0 2.2 42 233-274 1-49 (84)
138 PF08280 HTH_Mga: M protein tr 22.4 78 0.0017 27.5 2.6 33 223-255 9-41 (59)
139 smart00344 HTH_ASNC helix_turn 22.4 68 0.0015 30.4 2.5 32 223-254 7-38 (108)
140 KOG0695 Serine/threonine prote 22.3 33 0.00071 40.1 0.4 35 705-739 141-176 (593)
141 PRK10072 putative transcriptio 21.9 1.1E+02 0.0024 29.6 3.9 52 224-275 37-88 (96)
142 PHA02862 5L protein; Provision 21.9 33 0.00071 35.7 0.2 33 705-737 2-34 (156)
143 PRK10434 srlR DNA-bindng trans 21.7 66 0.0014 35.9 2.6 34 222-255 8-41 (256)
144 PRK10141 DNA-binding transcrip 21.5 71 0.0015 31.9 2.5 33 222-254 19-51 (117)
145 PF10078 DUF2316: Uncharacteri 21.2 59 0.0013 31.3 1.8 25 231-255 21-45 (89)
146 PRK11179 DNA-binding transcrip 21.1 71 0.0015 32.7 2.5 33 222-254 12-44 (153)
147 PRK04424 fatty acid biosynthes 21.1 74 0.0016 33.9 2.7 35 221-255 9-43 (185)
148 PF13551 HTH_29: Winged helix- 21.1 1.1E+02 0.0024 28.7 3.6 50 228-277 7-76 (112)
149 smart00421 HTH_LUXR helix_turn 20.9 69 0.0015 25.9 1.9 28 227-255 13-40 (58)
150 PF10367 Vps39_2: Vacuolar sor 20.7 40 0.00087 31.7 0.6 30 829-859 80-109 (109)
151 smart00418 HTH_ARSR helix_turn 20.7 77 0.0017 26.0 2.2 30 224-254 2-31 (66)
152 PLN02436 cellulose synthase A 20.4 66 0.0014 42.7 2.5 49 705-754 36-87 (1094)
153 PLN02195 cellulose synthase A 20.2 68 0.0015 42.3 2.5 49 705-754 6-57 (977)
No 1
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=100.00 E-value=1.7e-42 Score=400.29 Aligned_cols=524 Identities=30% Similarity=0.392 Sum_probs=321.7
Q ss_pred CCCCCCCCcceecCCCCCcHhhhhhcccCceeeccCccccccccccCchhhhccccccccccccCceeeCCCCCCCcccc
Q 001516 3 SLPKAGGALKPVNGGSMEFAHLFCSLLMPEVYIEDTMKVEPLMNVGGIKETRMKLVCNICRVKCGACVRCSHGTCRTSFH 82 (1062)
Q Consensus 3 lCP~kgGALK~T~~G~~~WvHv~CALw~PEv~f~~~~~~epV~~V~~I~~~R~~LkC~iC~~k~GAcIqCs~~~C~~~FH 82 (1062)
|||++||+||++.+| .+|||+.||||+|||+|+++..|+||++|+.|+..||.|.|.+|+.+.||||||+.+.|.++||
T Consensus 328 LCPkkGGamK~~~sg-T~wAHvsCALwIPEVsie~~ekmePItkfs~IpesRwslvC~LCk~k~GACIqCs~k~C~t~fH 406 (893)
T KOG0954|consen 328 LCPKKGGAMKPTKSG-TKWAHVSCALWIPEVSIECPEKMEPITKFSHIPESRWSLVCNLCKVKSGACIQCSNKTCRTAFH 406 (893)
T ss_pred eccccCCcccccCCC-CeeeEeeeeeccceeeccCHhhcCcccccCCCcHHHHHHHHHHhcccCcceEEecccchhhhcc
Confidence 799999999999988 5999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCceEEEccccCCcceeEeecCCCCCCCCCCCCCCCCCCCCCCCCC--ccccccccccccccCccceeeeeccC
Q 001516 83 PICAREARHRLEVWGKYGCNNVELRAFCAKHSDIQDNSSTPRTGDPCSAIGS--ESCVSNNLHETLSMSKLHKLKFSCKN 160 (1062)
Q Consensus 83 vtCA~~aG~~~e~~~~~g~~~~~~~~fC~~Hr~~~~~~~~~~~g~~~e~d~~--~~~~~~~~~~~l~~~~l~Qlq~~~~~ 160 (1062)
++||+++|..|.++.+. .+.+.|+.||.+|..-+........++....... ............+.+.++++...
T Consensus 407 v~CA~~aG~~~~~~~~~-~D~v~~~s~c~khs~~~~~~s~g~~~e~p~p~~~~p~~~~~e~~~~s~r~q~l~~~e~e--- 482 (893)
T KOG0954|consen 407 VTCAFEAGLEMKTILKE-NDEVKFKSYCSKHSDHREGKSLGNEAESPHPRCHLPEQSVGEGHRSSDRAQKLQELEGE--- 482 (893)
T ss_pred chhhhhcCCeeeeeecc-CCchhheeecccccccccccccccccCCCCccccChhhhhhhhhhhhHHHHHHhhcchh---
Confidence 99999999999999754 7788999999999987753222111111100000 00123334444555555554422
Q ss_pred CCeeeEeeecCCCCCCCCCCccccccCCcccccccccccccCCCCCCCCCCCCCCCCCcchHHHHHHHhhhCCcchhhhh
Q 001516 161 GDKIGVHTETSDANSDRSTDSEVTGFSDSRLISVPTSECTNAGKPDRSEFEDVNPSDALNFTLILKKLIDRGKVNVKDIA 240 (1062)
Q Consensus 161 gd~~~~~~~t~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kli~~gkv~~~~~a 240 (1062)
.|.-.++.-.-|..++|.-.+++.- .=+. .+..+-....-.+..+.+|.+++||++|+|||+++++|
T Consensus 483 ----------f~~~v~~~diae~l~~~e~~vs~iy--nywk-lkrks~~n~~lippk~d~~~~i~kk~~~~~kv~~kl~a 549 (893)
T KOG0954|consen 483 ----------FYDIVRNEDIAELLSMPEFAVSAIY--NYWK-LKRKSRFNKELIPPKSDEVGLIAKKLEDLGKVRVKLVA 549 (893)
T ss_pred ----------HhhhhhHHHHHHHhcCchHHHHHHH--HHHH-HhhhccCCCcCCCCcchhccchhhHHHHhhhhhhHHHH
Confidence 2222222222344445555554410 0011 34444444678899999999999999999999999999
Q ss_pred hhhcCChhhhhhccccccccchh-----------hHHHHHHhhhcccccccccceeeccccccccccc-------ccccC
Q 001516 241 SDIGISPDLLKTTLADGTFASDL-----------QCKLVKWLSNHAYLGGLLKNVKLKIKSSISSKAD-------IKNSD 302 (1062)
Q Consensus 241 ~~~g~s~~~~~a~l~~~~~~~~~-----------~~k~~~wl~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~ 302 (1062)
.++ +|.+.+.+...|.+--. |.--..+|-.|.||++.++...++.+.++.+..- +.-.+
T Consensus 550 hlr---qdlerv~~~~~~~trrekas~s~~ki~eq~f~~ql~l~~q~~~~~~~~~n~~~n~~f~~~~r~tl~~k~~~s~~ 626 (893)
T KOG0954|consen 550 HLR---QDLERVRNLCYTKTRREKASNSYAKIDEQLFPDQLLLQHQHMGSSDKGKNLKRNTTFYSERRATLCTKGIVSLD 626 (893)
T ss_pred HHH---HHHHHhhcccchhcccchhhhhHHHHHhHHHHHHHHHHHHhhcccccchhhhhhccccCCcchhHhhhccccCC
Confidence 998 77777765422222111 1112233678999999999998887666544332 22233
Q ss_pred CCCcccc---ccCCCCcccccccCCCCcccccceecccCcccccccceecCCCcccccchhhhcc--cCC-CCcccCccc
Q 001516 303 SDGLMVS---ESDVADPVAVKSVPPRRRTKSSIRILRDDKMVSSSEEIFSGNGIAADKDEVKVEQ--LDG-EEPAIHNKV 376 (1062)
Q Consensus 303 ~~~~~~~---~~~~~~~~~~~~vp~~~rtk~~~~il~dn~~~cs~e~~~~~ng~~~~~~~~~~~~--~~~-~~~~~~~~~ 376 (1062)
+++...+ .--+..+.++ ||-.=.-|.-+|.--+--..||+....-+.+..- ..+ ..|...-++
T Consensus 627 ~d~~~~a~q~lq~il~p~~~-----------~~~~~i~n~~r~~~t~n~rkns~~~v~ak~~nnrl~~s~Shsp~~~h~~ 695 (893)
T KOG0954|consen 627 SDILDPAVQKLQSILRPHEI-----------NICNNITNNTRCTLTENCRKNSIVVVPAKANNNRLLKSGSHSPAPDHSP 695 (893)
T ss_pred ccccCHHHHHhhcccCcchh-----------hhhhccccCcccccChhhccCcceeeecccccCccccCCCcCCccccCC
Confidence 4433221 1112222222 1111112222222100011222222100000000 000 000000000
Q ss_pred -----------cCCCCCCCCCCCCCCCCccccCCCCCCCCCCCCCCCCCCcccccccccccchhhccc---cCCCCCCCC
Q 001516 377 -----------STPDCTEKSPTDPTGSEDSLARGSPMSEGSAAKPSDCGFFESCQSEEAALPDQINLL---NVDQENPIC 442 (1062)
Q Consensus 377 -----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~ 442 (1062)
.-++.....+.+-..++. ++.+ .+.+-+.++- |+.++--.-
T Consensus 696 sp~~~t~s~~~~h~gk~g~~pr~d~~s~s----asss---------------------~n~ksq~~skirsn~s~~s~n~ 750 (893)
T KOG0954|consen 696 SPKNSTVSDQKVHHGKSGVIPRDDHGSQS----ASSS---------------------SNVKSQNASKIRSNSSQNSGNG 750 (893)
T ss_pred CcCCCccchhhcCCccCCCCccccccccc----cccc---------------------cCcccccccccccCcccccCCC
Confidence 000001111111111100 0000 0111111111 333333333
Q ss_pred CcCCCcccccccCCCCCccccchhhhhh-hccccCccCCCcccccCCcccccccccccCCCccccccCccCccCCCcccC
Q 001516 443 SSVDTLVPYFINAKPSSGFFWHPYIHKS-LQMQSGLLSGNKVHKSDGDTEISRLEASSTASVCCNHQGRHSKCNDMSCKS 521 (1062)
Q Consensus 443 ~~~~~~~~~~~~~~~~~~~~~hp~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 521 (1062)
+...+.++.++|.+.+.+|..|-||++. ..+.-..+++ ...+..+.+|.....-+.=.-..++++.
T Consensus 751 ni~~~~sss~~~~~~~p~fsph~~~~~s~s~s~~e~~sk-----s~~~s~~~~~kq~y~~~~~~~~~~~q~~-------- 817 (893)
T KOG0954|consen 751 NIPNPISSSLFNQEAYPGFSPHRYIHKSLSESGKEQTSK-----SSTDSDVARMKQTYTHLAGSEEGNKQLQ-------- 817 (893)
T ss_pred cCCCCcchhhhccccCCCCCcchhhhhhhhhhccccccc-----ccccCCcchhhheecccccccchhhHHH--------
Confidence 3334677799999999999999999999 5554444332 3445555555522211111122222222
Q ss_pred CccchHHHHHhhhccccccCCCcchhhHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhhHHHHhhhhcchhhHHH
Q 001516 522 DGVNLEQVFKARTRGVLELSPTDEVEGEIIYFQHRLLGNAFSRKRLADNLVCKAVKTLNQEIDVARGRRWDAVLV 596 (1062)
Q Consensus 522 ~~~~~~q~~~~~~~~~~~~~p~de~e~E~~~~q~~ll~~~~~~~~~~~~l~~~v~~~l~~e~~~~~~r~~d~~~~ 596 (1062)
....+-|+++|+.+|+++.+|.|+.++|..|.|..+++.+..+++..+++..+++++++.|++....|+||..++
T Consensus 818 g~e~~~~~s~~~p~~~~d~s~~D~e~~~~~~~q~~~~g~~r~rkqssd~~n~~~asr~~~~~~~~~g~~~~~s~~ 892 (893)
T KOG0954|consen 818 GAETFLQLSKARPLGILDLSPEDEEEGELLYYQLQLLGTARSRKQSSDNLNYEVASRLPLEIDEQHGRRWDDSLV 892 (893)
T ss_pred HHHHHHHhhccCCcccccCCCCchhhhhHHhhhhccccceecccccccCcChhhhccCCCccccccCcCcchhhc
Confidence 236788999999999999999999999999999999999999999999999999999999999999999998765
No 2
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=100.00 E-value=2.9e-36 Score=348.99 Aligned_cols=168 Identities=32% Similarity=0.763 Sum_probs=152.6
Q ss_pred CCCCCCcCcccCCCCC-CCCCEEEecccCcccccccccCcccCCCccccccccccccCCCCCCCCCCccCCCCccccccc
Q 001516 701 SKEHPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECSL 779 (1062)
Q Consensus 701 ~ke~~~~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~~~~~~s~~s~vn~~~~p~~~~~C~L 779 (1062)
..+++..|+||..++. ..|+|||||.|++.|||.||||..+|+++|||+.|... + .+.|+|
T Consensus 267 e~dedviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~gpWlCr~Calg----------------~--~ppCvL 328 (893)
T KOG0954|consen 267 EYDEDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPEGPWLCRTCALG----------------I--EPPCVL 328 (893)
T ss_pred eccccceeceecCCCccccceeEEeccchhHHHHhhhceeecCCCCeeehhcccc----------------C--CCCeee
Confidence 3457899999999886 58999999999999999999999999999999999976 1 679999
Q ss_pred CCCCCCCceecCCC-chhhhhcccccccceeecC-ccccccCccccCCCC--cccccccCcCCeeeecCCcCcccccchh
Q 001516 780 CGGTTGAFRKSANG-QWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKGI--DVCCICRHKHGICIKCNYGNCQTTFHPT 855 (1062)
Q Consensus 780 Cp~~gGALK~T~~g-~WVHV~CALW~PEv~f~n~-~lepV~gie~I~k~r--~~C~iC~~k~GA~IqC~~~~C~~~FH~t 855 (1062)
||.+||+||++..| .|+|++||||+|||+|.+. .|+||..+..|+..+ +.|.+|+.+.||||+|+.++|.++||+.
T Consensus 329 CPkkGGamK~~~sgT~wAHvsCALwIPEVsie~~ekmePItkfs~IpesRwslvC~LCk~k~GACIqCs~k~C~t~fHv~ 408 (893)
T KOG0954|consen 329 CPKKGGAMKPTKSGTKWAHVSCALWIPEVSIECPEKMEPITKFSHIPESRWSLVCNLCKVKSGACIQCSNKTCRTAFHVT 408 (893)
T ss_pred ccccCCcccccCCCCeeeEeeeeeccceeeccCHhhcCcccccCCCcHHHHHHHHHHhcccCcceEEecccchhhhccch
Confidence 99999999999776 6999999999999999987 899999999999774 8999999999999999999999999999
Q ss_pred hhhhcCcEEEEee-CCCcccceeccCccchhh
Q 001516 856 CARSAGFYLNVKS-TGGNFQHKAYCEKHSLEQ 886 (1062)
Q Consensus 856 CA~~aG~~~~~~~-~~g~i~~~iyC~kHs~~~ 886 (1062)
||+.+|..|.+.. .++...++.||.+|+..+
T Consensus 409 CA~~aG~~~~~~~~~~D~v~~~s~c~khs~~~ 440 (893)
T KOG0954|consen 409 CAFEAGLEMKTILKENDEVKFKSYCSKHSDHR 440 (893)
T ss_pred hhhhcCCeeeeeeccCCchhheeecccccccc
Confidence 9999999998743 355678899999998765
No 3
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=100.00 E-value=1.8e-35 Score=339.77 Aligned_cols=170 Identities=35% Similarity=0.802 Sum_probs=146.7
Q ss_pred CCCCCcCcccCCCCC-CCCCEEEecc--cCcccccccccCcccCCCccccccccccccCCCCCCCCCCccCCCCcccccc
Q 001516 702 KEHPRSCDICRRSET-ILNPILICSG--CKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECS 778 (1062)
Q Consensus 702 ke~~~~CsVC~~~E~-~~N~IL~Cd~--C~laVHq~CYGi~~ip~g~WlCd~C~~~~~~~~s~~s~vn~~~~p~~~~~C~ 778 (1062)
|++..-|+||-|... ..|+|||||+ |.++|||.||||.++|+|+|||++|+... +. ..+.|.
T Consensus 2 KEMVGGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqe--ra-------------arvrCe 66 (900)
T KOG0956|consen 2 KEMVGGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQE--RA-------------ARVRCE 66 (900)
T ss_pred cccccceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCCCchhhhhhhhhh--hh-------------ccceee
Confidence 456677999998555 4899999996 99999999999999999999999998752 21 268999
Q ss_pred cCCCCCCCceecCCCchhhhhcccccccceeecC-ccccccCccccCCC--CcccccccCc-------CCeeeecCCcCc
Q 001516 779 LCGGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHK-------HGICIKCNYGNC 848 (1062)
Q Consensus 779 LCp~~gGALK~T~~g~WVHV~CALW~PEv~f~n~-~lepV~gie~I~k~--r~~C~iC~~k-------~GA~IqC~~~~C 848 (1062)
|||.++||||+|++|-|+||+||||+|||.|.|- .|+||- +..++.. +..|+||+.. .|||++|+..+|
T Consensus 67 LCP~kdGALKkTDn~GWAHVVCALYIPEVrFgNV~TMEPIi-Lq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~C 145 (900)
T KOG0956|consen 67 LCPHKDGALKKTDNGGWAHVVCALYIPEVRFGNVHTMEPII-LQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGC 145 (900)
T ss_pred cccCcccceecccCCCceEEEEEeeccceeeccccccccee-eccCchhhhcceeeeecccCCccccccccceecccccc
Confidence 9999999999999999999999999999999997 789876 4566654 5899999973 899999999999
Q ss_pred ccccchhhhhhcCcEEEEeeC-CCcccceeccCccchhhH
Q 001516 849 QTTFHPTCARSAGFYLNVKST-GGNFQHKAYCEKHSLEQK 887 (1062)
Q Consensus 849 ~~~FH~tCA~~aG~~~~~~~~-~g~i~~~iyC~kHs~~~~ 887 (1062)
.+.|||+||+.+|+..+..+. -++++|=-||+.|..+.+
T Consensus 146 kqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKlk 185 (900)
T KOG0956|consen 146 KQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKLK 185 (900)
T ss_pred hhhhhhhHhhhhccceeccccccccceechhHHHHHHHhh
Confidence 999999999999999976532 346677789999987544
No 4
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=100.00 E-value=3e-35 Score=328.32 Aligned_cols=168 Identities=32% Similarity=0.721 Sum_probs=147.3
Q ss_pred CCCCcCcccCCCCC-CCCCEEEecccCcccccccccCcccCCCccccccccccccCCCCCCCCCCccCCCCcccccccCC
Q 001516 703 EHPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECSLCG 781 (1062)
Q Consensus 703 e~~~~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~~~~~~s~~s~vn~~~~p~~~~~C~LCp 781 (1062)
+.+..|.+|...++ +.|.||+||+|+++|||.||||..+|+|.|||++|.+.. +...-|.+||
T Consensus 191 ~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~----------------~~i~~C~fCp 254 (669)
T COG5141 191 EFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGE----------------YQIRCCSFCP 254 (669)
T ss_pred hhhhhhHhccccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhcccc----------------cceeEEEecc
Confidence 45678999998875 479999999999999999999999999999999999872 2245599999
Q ss_pred CCCCCceecCCCchhhhhcccccccceeecC-ccccccCccccCCC--CcccccccCcCCeeeecCCcCcccccchhhhh
Q 001516 782 GTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHKHGICIKCNYGNCQTTFHPTCAR 858 (1062)
Q Consensus 782 ~~gGALK~T~~g~WVHV~CALW~PEv~f~n~-~lepV~gie~I~k~--r~~C~iC~~k~GA~IqC~~~~C~~~FH~tCA~ 858 (1062)
..+||||.|.+|+|+|++||+|+||++|.+- .++||+++.+++.. ++.|+||+..+|+||||++.+|.++||++||+
T Consensus 255 s~dGaFkqT~dgrW~H~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYHVtCAr 334 (669)
T COG5141 255 SSDGAFKQTSDGRWGHVICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCAR 334 (669)
T ss_pred CCCCceeeccCCchHhHhHHHhcchhccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhhhhhhh
Confidence 9999999999999999999999999999987 89999999999877 58899999999999999999999999999999
Q ss_pred hcCcEEE-EeeCCC---cccceeccCccchhh
Q 001516 859 SAGFYLN-VKSTGG---NFQHKAYCEKHSLEQ 886 (1062)
Q Consensus 859 ~aG~~~~-~~~~~g---~i~~~iyC~kHs~~~ 886 (1062)
++|+++. ....++ .+....||.+|.+..
T Consensus 335 rag~f~~~~~s~n~~s~~id~e~~c~kh~p~g 366 (669)
T COG5141 335 RAGYFDLNIYSHNGISYCIDHEPLCRKHYPLG 366 (669)
T ss_pred hcchhhhhhhcccccceeecchhhhcCCCCcc
Confidence 9999985 222222 234556999998743
No 5
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=100.00 E-value=3.4e-34 Score=351.03 Aligned_cols=169 Identities=36% Similarity=0.815 Sum_probs=150.7
Q ss_pred CCCCCcCcccCCCCC-CCCCEEEecccCcccccccccCcccCCCccccccccccccCCCCCCCCCCccCCCCcccccccC
Q 001516 702 KEHPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECSLC 780 (1062)
Q Consensus 702 ke~~~~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~~~~~~s~~s~vn~~~~p~~~~~C~LC 780 (1062)
-+.+.+|+||.+.+. +.|.|||||+|+++|||.|||++.+|+|.|+|+.|.... ...+.|.||
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~ipeg~WlCr~Cl~s~----------------~~~v~c~~c 279 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFIPEGQWLCRRCLQSP----------------QRPVRCLLC 279 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCCCCCCcEeehhhccCc----------------CcccceEec
Confidence 356789999999885 579999999999999999999999999999999999762 225799999
Q ss_pred CCCCCCceecCCCchhhhhcccccccceeecC-ccccccCccccCCC--CcccccccCcC-CeeeecCCcCcccccchhh
Q 001516 781 GGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHKH-GICIKCNYGNCQTTFHPTC 856 (1062)
Q Consensus 781 p~~gGALK~T~~g~WVHV~CALW~PEv~f~n~-~lepV~gie~I~k~--r~~C~iC~~k~-GA~IqC~~~~C~~~FH~tC 856 (1062)
|..+||||+|.+|+|+|++||+|+||++|.+. .+++|.+++.|+.. ++.|++|+.++ |+||||+..+|.++||++|
T Consensus 280 p~~~gAFkqt~dgrw~Hv~caiwipev~F~nt~~~E~I~~i~~i~~aRwkL~cy~cK~~~~gaciqcs~~~c~~a~hvtc 359 (1051)
T KOG0955|consen 280 PSKGGAFKQTDDGRWAHVVCAIWIPEVSFANTVFLEPIDSIENIPPARWKLTCYICKQKGLGACIQCSKANCYTAFHVTC 359 (1051)
T ss_pred cCCCCcceeccCCceeeeehhhcccccccccchhhccccchhcCcHhhhhceeeeeccCCCCcceecchhhhhhhhhhhh
Confidence 99999999999999999999999999999998 89999999999865 69999999998 9999999999999999999
Q ss_pred hhhcCcEEEEeeC--C---C---cccceeccCccchhh
Q 001516 857 ARSAGFYLNVKST--G---G---NFQHKAYCEKHSLEQ 886 (1062)
Q Consensus 857 A~~aG~~~~~~~~--~---g---~i~~~iyC~kHs~~~ 886 (1062)
|+++|++|..... . + .+....||.+|.+..
T Consensus 360 a~~agl~m~~~~~~~~s~~~~s~~v~~~syC~~H~pp~ 397 (1051)
T KOG0955|consen 360 ARRAGLYMKSNTVKELSKNGTSQSVNKISYCDKHTPPG 397 (1051)
T ss_pred HhhcCceEeecccccccccccccccceeeeccCCCCch
Confidence 9999999985311 1 1 136678999999863
No 6
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=99.97 E-value=5.5e-32 Score=302.70 Aligned_cols=242 Identities=26% Similarity=0.492 Sum_probs=182.1
Q ss_pred cCcccCCCCC-CCCCEEEecccCcccccccccCcc---cC-------CCccccccccccccCCCCCCCCCCccCCCCccc
Q 001516 707 SCDICRRSET-ILNPILICSGCKVAVHLDCYRNAK---ES-------TGPWYCELCEELLSSRSSGAPSVNFWEKPYFVA 775 (1062)
Q Consensus 707 ~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CYGi~~---ip-------~g~WlCd~C~~~~~~~~s~~s~vn~~~~p~~~~ 775 (1062)
.|+||..... .-|.||+|++|++.||..|||+.. ++ ..+|||+.|.+..+ .+
T Consensus 121 iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs-----------------~P 183 (707)
T KOG0957|consen 121 ICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVS-----------------LP 183 (707)
T ss_pred EEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCC-----------------CC
Confidence 7999997544 468999999999999999999862 22 36899999999742 47
Q ss_pred ccccCCCCCCCceecCCCchhhhhcccccccceeecC-ccccccC--ccccCCCCcccccccCc----CCeeeecCCcCc
Q 001516 776 ECSLCGGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAG--MEAFPKGIDVCCICRHK----HGICIKCNYGNC 848 (1062)
Q Consensus 776 ~C~LCp~~gGALK~T~~g~WVHV~CALW~PEv~f~n~-~lepV~g--ie~I~k~r~~C~iC~~k----~GA~IqC~~~~C 848 (1062)
.|.|||+++|+||.|+-|+|||++||||+|+|.|++. .+.+|.. |.....+...|.+|..+ .|+||.|..+.|
T Consensus 184 ~CElCPn~~GifKetDigrWvH~iCALYvpGVafg~~~~l~~Vtl~em~ysk~Gak~Cs~Ced~~fARtGvci~CdaGMC 263 (707)
T KOG0957|consen 184 HCELCPNRFGIFKETDIGRWVHAICALYVPGVAFGQTHTLCGVTLEEMDYSKFGAKTCSACEDKIFARTGVCIRCDAGMC 263 (707)
T ss_pred ccccCCCcCCcccccchhhHHHHHHHhhcCccccccccccccccHHHhhhhhhccchhccccchhhhhcceeeeccchhh
Confidence 9999999999999999999999999999999999876 5666653 33344457899999974 899999999999
Q ss_pred ccccchhhhhhcCcEEEEeeCCCc-ccceeccCccchhhHhhhhhcccchhhhhhHHHHH--------------------
Q 001516 849 QTTFHPTCARSAGFYLNVKSTGGN-FQHKAYCEKHSLEQKMKAETQKHGVEELKGIKQIR-------------------- 907 (1062)
Q Consensus 849 ~~~FH~tCA~~aG~~~~~~~~~g~-i~~~iyC~kHs~~~~~k~~~q~~~~e~lksmrrlr-------------------- 907 (1062)
..+|||+||+..|+.++...+++. ..+.+||++|+.....+.-...|...+...|+|.|
T Consensus 264 k~YfHVTCAQk~GlLvea~~e~DiAdpfya~CK~Ht~r~~~K~~rrny~~l~~~~~~r~~~k~~L~~~e~~~~p~~~eaq 343 (707)
T KOG0957|consen 264 KEYFHVTCAQKLGLLVEATDENDIADPFYAFCKKHTNRDNLKPYRRNYDDLEKSEARRITVKRRLRSGELEKNPQKKEAQ 343 (707)
T ss_pred hhhhhhhHHhhhcceeeccccccchhhHHHHHHhhcchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhcccccCCCccHHH
Confidence 999999999999999986544442 36788999998754322111122222222222222
Q ss_pred ----HHHHHHHHHHH--------HHHHHHHHhHhhhhchHHHHHhhhchhhHhhhccCCcccCCCCCCccccc
Q 001516 908 ----VELERLRLLCE--------RIIKREKIKRELILCSHEILAFKRDHHAARLVHGRIPFFPPDVSSESATT 968 (1062)
Q Consensus 908 ----velE~lrll~~--------ri~kREklkrel~~~~~dIl~~krd~~~a~s~~i~sp~~~~~~S~~~a~t 968 (1062)
.++.+.+.-.. -|+.++|..|.++.....+...+++ |..|+|+...|+...++.++.|
T Consensus 344 ari~~~l~kv~~k~~~~k~~~p~~wvp~~K~~RlLtsSAsa~rrl~~K---AE~mg~s~~~f~~~ead~~~~i 413 (707)
T KOG0957|consen 344 ARIREELDKVIEKECKNKPKGPISWVPKPKQARLLTSSASAFRRLETK---AEEMGLSRKEFRQREADPFFNI 413 (707)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCCCCccccccccccchHHHHHHHHHH---HHHhcccHhhhcccccCccccc
Confidence 11111111111 1566778888899999989888855 9999999999999888887555
No 7
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=99.90 E-value=2.2e-24 Score=205.76 Aligned_cols=107 Identities=42% Similarity=0.859 Sum_probs=98.9
Q ss_pred CCCCCCCCCcceecCCCCCcHhhhhhcccCceeeccCccccccccccCchhhhccccccccccccCceeeCCCCCCCccc
Q 001516 2 CSLPKAGGALKPVNGGSMEFAHLFCSLLMPEVYIEDTMKVEPLMNVGGIKETRMKLVCNICRVKCGACVRCSHGTCRTSF 81 (1062)
Q Consensus 2 ClCP~kgGALK~T~~G~~~WvHv~CALw~PEv~f~~~~~~epV~~V~~I~~~R~~LkC~iC~~k~GAcIqCs~~~C~~~F 81 (1062)
.|||.++||||+|.++ .|||++||+|+|+++|.+...+++|. +..|+.++++++|.||+++.|+||+|+.++|.++|
T Consensus 4 ~lC~~~~Galk~t~~~--~WvHv~Cal~~~~~~~~~~~~~~~v~-~~~i~~~~~~~~C~iC~~~~G~~i~C~~~~C~~~f 80 (110)
T PF13832_consen 4 VLCPKRGGALKRTSDG--QWVHVLCALWIPEVIFNNGESMEPVD-ISNIPPSRFKLKCSICGKSGGACIKCSHPGCSTAF 80 (110)
T ss_pred EeCCCCCCcccCccCC--cEEEeEccceeCccEEeechhcCccc-ceeecchhcCCcCcCCCCCCceeEEcCCCCCCcCC
Confidence 4899999999999966 89999999999999999999999995 99999999999999999999999999999999999
Q ss_pred chhhhhhcCceEEEccccCCcceeEeecCCCC
Q 001516 82 HPICAREARHRLEVWGKYGCNNVELRAFCAKH 113 (1062)
Q Consensus 82 HvtCA~~aG~~~e~~~~~g~~~~~~~~fC~~H 113 (1062)
|++||+.+|+.+++...+. ...+.+||++|
T Consensus 81 H~~CA~~~g~~~~~~~~~~--~~~~~~~C~~H 110 (110)
T PF13832_consen 81 HPTCARKAGLYFEIENEED--NVQFIAYCPKH 110 (110)
T ss_pred CHHHHHHCCCeEEeeecCC--CceEEEECCCC
Confidence 9999999999998864322 56899999999
No 8
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=99.88 E-value=2.5e-23 Score=198.44 Aligned_cols=106 Identities=43% Similarity=0.980 Sum_probs=97.3
Q ss_pred ccccCCCCCCCceecCCCchhhhhcccccccceeecC-ccccccCccccCCC--CcccccccCcCCeeeecCCcCccccc
Q 001516 776 ECSLCGGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHKHGICIKCNYGNCQTTF 852 (1062)
Q Consensus 776 ~C~LCp~~gGALK~T~~g~WVHV~CALW~PEv~f~n~-~lepV~gie~I~k~--r~~C~iC~~k~GA~IqC~~~~C~~~F 852 (1062)
.|.|||..+||||+|.++.|||++||+|+|++.|.+. .+++++ ++.++.. +.+|.+|++..|++|+|..++|.++|
T Consensus 2 ~C~lC~~~~Galk~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~-~~~i~~~~~~~~C~iC~~~~G~~i~C~~~~C~~~f 80 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTSDGQWVHVLCALWIPEVIFNNGESMEPVD-ISNIPPSRFKLKCSICGKSGGACIKCSHPGCSTAF 80 (110)
T ss_pred ccEeCCCCCCcccCccCCcEEEeEccceeCccEEeechhcCccc-ceeecchhcCCcCcCCCCCCceeEEcCCCCCCcCC
Confidence 6999999999999999999999999999999999987 677887 7787765 69999999999999999999999999
Q ss_pred chhhhhhcCcEEEEeeCCCcccceeccCcc
Q 001516 853 HPTCARSAGFYLNVKSTGGNFQHKAYCEKH 882 (1062)
Q Consensus 853 H~tCA~~aG~~~~~~~~~g~i~~~iyC~kH 882 (1062)
||+||+.+|+++.+...+....+.+||++|
T Consensus 81 H~~CA~~~g~~~~~~~~~~~~~~~~~C~~H 110 (110)
T PF13832_consen 81 HPTCARKAGLYFEIENEEDNVQFIAYCPKH 110 (110)
T ss_pred CHHHHHHCCCeEEeeecCCCceEEEECCCC
Confidence 999999999999887655566789999999
No 9
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=99.88 E-value=1.1e-23 Score=243.38 Aligned_cols=113 Identities=31% Similarity=0.646 Sum_probs=104.4
Q ss_pred CCCCCCCCcceecCCCCCcHhhhhhcccCceeeccCccccccccccCchhhhccccccccccc-------cCceeeCCCC
Q 001516 3 SLPKAGGALKPVNGGSMEFAHLFCSLLMPEVYIEDTMKVEPLMNVGGIKETRMKLVCNICRVK-------CGACVRCSHG 75 (1062)
Q Consensus 3 lCP~kgGALK~T~~G~~~WvHv~CALw~PEv~f~~~~~~epV~~V~~I~~~R~~LkC~iC~~k-------~GAcIqCs~~ 75 (1062)
|||.+.||||+|+.| .|+||+||||||||.|.++..||||+ +..||.+|++..|+||... .|||++|...
T Consensus 67 LCP~kdGALKkTDn~--GWAHVVCALYIPEVrFgNV~TMEPIi-Lq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs 143 (900)
T KOG0956|consen 67 LCPHKDGALKKTDNG--GWAHVVCALYIPEVRFGNVHTMEPII-LQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKS 143 (900)
T ss_pred cccCcccceecccCC--CceEEEEEeeccceeeccccccccee-eccCchhhhcceeeeecccCCccccccccceecccc
Confidence 799999999999966 79999999999999999999999996 9999999999999999752 7999999999
Q ss_pred CCCcccchhhhhhcCceEEEccccCCcceeEeecCCCCCCCCCC
Q 001516 76 TCRTSFHPICAREARHRLEVWGKYGCNNVELRAFCAKHSDIQDN 119 (1062)
Q Consensus 76 ~C~~~FHvtCA~~aG~~~e~~~~~g~~~~~~~~fC~~Hr~~~~~ 119 (1062)
.|..+||||||+.+|+++|..+ .+-++|.|--||++|-.+-.+
T Consensus 144 ~CkqaFHVTCAQ~~GLLCEE~g-n~~dNVKYCGYCk~HfsKlkk 186 (900)
T KOG0956|consen 144 GCKQAFHVTCAQRAGLLCEEEG-NISDNVKYCGYCKYHFSKLKK 186 (900)
T ss_pred cchhhhhhhHhhhhccceeccc-cccccceechhHHHHHHHhhc
Confidence 9999999999999999999764 567899999999999876654
No 10
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=99.86 E-value=4.3e-23 Score=231.60 Aligned_cols=116 Identities=27% Similarity=0.598 Sum_probs=104.9
Q ss_pred CCCCCCCCcceecCCCCCcHhhhhhcccCceeeccCccccccccccCchhhhccccccccccccCceeeCCCCCCCcccc
Q 001516 3 SLPKAGGALKPVNGGSMEFAHLFCSLLMPEVYIEDTMKVEPLMNVGGIKETRMKLVCNICRVKCGACVRCSHGTCRTSFH 82 (1062)
Q Consensus 3 lCP~kgGALK~T~~G~~~WvHv~CALw~PEv~f~~~~~~epV~~V~~I~~~R~~LkC~iC~~k~GAcIqCs~~~C~~~FH 82 (1062)
+||+..||||.|.+| +|+|++||+|+||.+|++...++||.||..++..||++.|.||+.+.|+||||++..|.++||
T Consensus 252 fCps~dGaFkqT~dg--rW~H~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYH 329 (669)
T COG5141 252 FCPSSDGAFKQTSDG--RWGHVICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYH 329 (669)
T ss_pred eccCCCCceeeccCC--chHhHhHHHhcchhccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhh
Confidence 689999999999988 899999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCceEE-EccccCC-cceeEeecCCCCCCCCCCC
Q 001516 83 PICAREARHRLE-VWGKYGC-NNVELRAFCAKHSDIQDNS 120 (1062)
Q Consensus 83 vtCA~~aG~~~e-~~~~~g~-~~~~~~~fC~~Hr~~~~~~ 120 (1062)
+|||+.||+++- +...+|- ..+....||++|.|..+..
T Consensus 330 VtCArrag~f~~~~~s~n~~s~~id~e~~c~kh~p~gy~~ 369 (669)
T COG5141 330 VTCARRAGYFDLNIYSHNGISYCIDHEPLCRKHYPLGYGR 369 (669)
T ss_pred hhhhhhcchhhhhhhcccccceeecchhhhcCCCCcchhc
Confidence 999999999876 4433442 2345678999999999853
No 11
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=99.83 E-value=1.4e-21 Score=240.82 Aligned_cols=114 Identities=36% Similarity=0.692 Sum_probs=104.2
Q ss_pred CCCCCCCCCcceecCCCCCcHhhhhhcccCceeeccCccccccccccCchhhhcccccccccccc-CceeeCCCCCCCcc
Q 001516 2 CSLPKAGGALKPVNGGSMEFAHLFCSLLMPEVYIEDTMKVEPLMNVGGIKETRMKLVCNICRVKC-GACVRCSHGTCRTS 80 (1062)
Q Consensus 2 ClCP~kgGALK~T~~G~~~WvHv~CALw~PEv~f~~~~~~epV~~V~~I~~~R~~LkC~iC~~k~-GAcIqCs~~~C~~~ 80 (1062)
.+||+++||||+|.+| +|+|++||+|+||++|.+...++||.+|+.|+..||+|.|.+|+++. ||||||+..+|.++
T Consensus 277 ~~cp~~~gAFkqt~dg--rw~Hv~caiwipev~F~nt~~~E~I~~i~~i~~aRwkL~cy~cK~~~~gaciqcs~~~c~~a 354 (1051)
T KOG0955|consen 277 LLCPSKGGAFKQTDDG--RWAHVVCAIWIPEVSFANTVFLEPIDSIENIPPARWKLTCYICKQKGLGACIQCSKANCYTA 354 (1051)
T ss_pred EeccCCCCcceeccCC--ceeeeehhhcccccccccchhhccccchhcCcHhhhhceeeeeccCCCCcceecchhhhhhh
Confidence 5899999999999988 89999999999999999999999999999999999999999999998 99999999999999
Q ss_pred cchhhhhhcCceEEEc-cccC----C-cceeEeecCCCCCCCC
Q 001516 81 FHPICAREARHRLEVW-GKYG----C-NNVELRAFCAKHSDIQ 117 (1062)
Q Consensus 81 FHvtCA~~aG~~~e~~-~~~g----~-~~~~~~~fC~~Hr~~~ 117 (1062)
||||||+++|++|... ..++ . ..+.+.+||.+|.|..
T Consensus 355 ~hvtca~~agl~m~~~~~~~~s~~~~s~~v~~~syC~~H~pp~ 397 (1051)
T KOG0955|consen 355 FHVTCARRAGLYMKSNTVKELSKNGTSQSVNKISYCDKHTPPG 397 (1051)
T ss_pred hhhhhHhhcCceEeecccccccccccccccceeeeccCCCCch
Confidence 9999999999999843 1222 1 3368899999999996
No 12
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=99.71 E-value=5.4e-18 Score=156.11 Aligned_cols=88 Identities=42% Similarity=0.737 Sum_probs=80.4
Q ss_pred hhhhhcccCceeeccCcc--ccccccccCchhhhccccccccccccCceeeCCCCCCCcccchhhhhhcCceEEEccccC
Q 001516 23 HLFCSLLMPEVYIEDTMK--VEPLMNVGGIKETRMKLVCNICRVKCGACVRCSHGTCRTSFHPICAREARHRLEVWGKYG 100 (1062)
Q Consensus 23 Hv~CALw~PEv~f~~~~~--~epV~~V~~I~~~R~~LkC~iC~~k~GAcIqCs~~~C~~~FHvtCA~~aG~~~e~~~~~g 100 (1062)
|++||||+||+++.+... +.++.+|+.++.++++++|++|+++.||+|+|.+++|.+.||++||+.+|+.+++..
T Consensus 1 H~~Calwsp~v~~~~~~~~~~~~i~~v~~~~~~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~~~~~~~~--- 77 (90)
T PF13771_consen 1 HENCALWSPEVYFDESEDIGGFSIEDVEKEIKRRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAGCFIEFDE--- 77 (90)
T ss_pred ChHHheecCceEEeCCCccccccHHhHHHHHHHHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCCeEEEEcc---
Confidence 899999999999988764 677889999999999999999998889999999999999999999999999999874
Q ss_pred CcceeEeecCCCCC
Q 001516 101 CNNVELRAFCAKHS 114 (1062)
Q Consensus 101 ~~~~~~~~fC~~Hr 114 (1062)
++..+.+||++|+
T Consensus 78 -~~~~~~~~C~~H~ 90 (90)
T PF13771_consen 78 -DNGKFRIFCPKHS 90 (90)
T ss_pred -CCCceEEEChhcC
Confidence 2336899999996
No 13
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=99.67 E-value=6.9e-18 Score=190.37 Aligned_cols=113 Identities=26% Similarity=0.523 Sum_probs=97.0
Q ss_pred CCCCCCCCcceecCCCCCcHhhhhhcccCceeeccCccccccccccCchhhhcc-ccccccccc----cCceeeCCCCCC
Q 001516 3 SLPKAGGALKPVNGGSMEFAHLFCSLLMPEVYIEDTMKVEPLMNVGGIKETRMK-LVCNICRVK----CGACVRCSHGTC 77 (1062)
Q Consensus 3 lCP~kgGALK~T~~G~~~WvHv~CALw~PEv~f~~~~~~epV~~V~~I~~~R~~-LkC~iC~~k----~GAcIqCs~~~C 77 (1062)
|||+++|+||.|+.| +|||++||||+|+|-|++...+-+|. +.......|. ..|++|..+ .|.||.|..|.|
T Consensus 187 lCPn~~GifKetDig--rWvH~iCALYvpGVafg~~~~l~~Vt-l~em~ysk~Gak~Cs~Ced~~fARtGvci~CdaGMC 263 (707)
T KOG0957|consen 187 LCPNRFGIFKETDIG--RWVHAICALYVPGVAFGQTHTLCGVT-LEEMDYSKFGAKTCSACEDKIFARTGVCIRCDAGMC 263 (707)
T ss_pred cCCCcCCcccccchh--hHHHHHHHhhcCcccccccccccccc-HHHhhhhhhccchhccccchhhhhcceeeeccchhh
Confidence 799999999999977 89999999999999999999998884 5555555554 489999864 899999999999
Q ss_pred CcccchhhhhhcCceEEEccccCCcceeEeecCCCCCCCCCC
Q 001516 78 RTSFHPICAREARHRLEVWGKYGCNNVELRAFCAKHSDIQDN 119 (1062)
Q Consensus 78 ~~~FHvtCA~~aG~~~e~~~~~g~~~~~~~~fC~~Hr~~~~~ 119 (1062)
..+||||||+.+|++++...++ +-.++|++||++|..+...
T Consensus 264 k~YfHVTCAQk~GlLvea~~e~-DiAdpfya~CK~Ht~r~~~ 304 (707)
T KOG0957|consen 264 KEYFHVTCAQKLGLLVEATDEN-DIADPFYAFCKKHTNRDNL 304 (707)
T ss_pred hhhhhhhHHhhhcceeeccccc-cchhhHHHHHHhhcchhhh
Confidence 9999999999999999987532 2446899999999987653
No 14
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=99.50 E-value=7.8e-15 Score=135.16 Aligned_cols=85 Identities=34% Similarity=0.686 Sum_probs=72.5
Q ss_pred hhhcccccccceeecCc---cccccCccccCCC--CcccccccCcCCeeeecCCcCcccccchhhhhhcCcEEEEeeCCC
Q 001516 797 HAFCAEWVFESTFRRGQ---VNPVAGMEAFPKG--IDVCCICRHKHGICIKCNYGNCQTTFHPTCARSAGFYLNVKSTGG 871 (1062)
Q Consensus 797 HV~CALW~PEv~f~n~~---lepV~gie~I~k~--r~~C~iC~~k~GA~IqC~~~~C~~~FH~tCA~~aG~~~~~~~~~g 871 (1062)
|++||+|+|++++.+.. +.++.+++.+.+. +++|++|+++.||+|+|..++|..+||++||+.+|+.+.+.. .
T Consensus 1 H~~Calwsp~v~~~~~~~~~~~~i~~v~~~~~~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~~~~~~~~--~ 78 (90)
T PF13771_consen 1 HENCALWSPEVYFDESEDIGGFSIEDVEKEIKRRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAGCFIEFDE--D 78 (90)
T ss_pred ChHHheecCceEEeCCCccccccHHhHHHHHHHHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCCeEEEEcc--C
Confidence 89999999999998763 4566777665543 699999999889999999999999999999999999998863 2
Q ss_pred cccceeccCccc
Q 001516 872 NFQHKAYCEKHS 883 (1062)
Q Consensus 872 ~i~~~iyC~kHs 883 (1062)
...+.+||++|+
T Consensus 79 ~~~~~~~C~~H~ 90 (90)
T PF13771_consen 79 NGKFRIFCPKHS 90 (90)
T ss_pred CCceEEEChhcC
Confidence 236889999995
No 15
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=98.99 E-value=3.6e-10 Score=141.16 Aligned_cols=143 Identities=34% Similarity=0.763 Sum_probs=122.6
Q ss_pred CCCCCCCcCcccCCCCC-CCCCEEEecccCcccccccccCcccC-CCccccccccccccCCCCCCCCCCccCCCCccccc
Q 001516 700 FSKEHPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKES-TGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAEC 777 (1062)
Q Consensus 700 ~~ke~~~~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CYGi~~ip-~g~WlCd~C~~~~~~~~s~~s~vn~~~~p~~~~~C 777 (1062)
+.+.....|.+|...+. ..|.++.|+.|...+|+.|||....+ ...|+|+.|... . ....|
T Consensus 568 l~~~~t~~c~~~~~~~~~~~n~~~~~~~~~~~~~s~~~g~~~~~~~~~~~~~~~~~~--~---------------~~r~~ 630 (1005)
T KOG1080|consen 568 LSKWTTERCAVCRDDEDWEKNVSIICDRCTRSVHSECYGNLKSYDGTSWVCDSCETL--D---------------IKRSC 630 (1005)
T ss_pred hcCCCcccccccccccccccceeeeeccccccCCCcccccCCCCCCCcchhhccccc--c---------------CCchh
Confidence 55566678999999764 58999999999999999999988766 457999999874 1 15789
Q ss_pred ccCCCCCCCceecCCCchhhhhcccccccceeecC-ccccccCccccCCC--CcccccccCcCCeeeecCCcCcccccch
Q 001516 778 SLCGGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHKHGICIKCNYGNCQTTFHP 854 (1062)
Q Consensus 778 ~LCp~~gGALK~T~~g~WVHV~CALW~PEv~f~n~-~lepV~gie~I~k~--r~~C~iC~~k~GA~IqC~~~~C~~~FH~ 854 (1062)
+||+..+||+++++.|.|+|+-||.|.|++.+.+. .+.|..++..++.. -..|.+ .|-|.+|. .|...||.
T Consensus 631 ~l~~~~g~al~p~d~gr~~~~e~a~~~~e~~~~~~~~~~p~~~~~~~p~~~~~~~~~~----~~~~~~~~--~~~~~~~~ 704 (1005)
T KOG1080|consen 631 CLCPVKGGALKPTDEGRWVHVECAWFRPEVCLASPERMEPAVGTFKIPALSFLKICFI----HGSCRQCC--KCETGSHA 704 (1005)
T ss_pred hhccccCcccCCCCccchhhhhchhccccccCCCccCCCCcccccccCccchhhhccc----cccccccc--hhhhccee
Confidence 99999999999999999999999999999999887 78888888777765 255666 67888898 89999999
Q ss_pred hhhhhcCcEEE
Q 001516 855 TCARSAGFYLN 865 (1062)
Q Consensus 855 tCA~~aG~~~~ 865 (1062)
.||..+++.+.
T Consensus 705 ~~a~~~~~~~~ 715 (1005)
T KOG1080|consen 705 MCASRAGYIME 715 (1005)
T ss_pred hhhcCccChhh
Confidence 99999998874
No 16
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=98.91 E-value=2.3e-10 Score=89.74 Aligned_cols=35 Identities=46% Similarity=1.149 Sum_probs=21.6
Q ss_pred CCCEEEecccCcccccccccCcccCCC-cccccccc
Q 001516 718 LNPILICSGCKVAVHLDCYRNAKESTG-PWYCELCE 752 (1062)
Q Consensus 718 ~N~IL~Cd~C~laVHq~CYGi~~ip~g-~WlCd~C~ 752 (1062)
.|+||+|++|++.||+.|||+...+++ .|+|++|+
T Consensus 1 ~n~ll~C~~C~v~VH~~CYGv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 1 TNPLLFCDNCNVAVHQSCYGVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp -CEEEE-SSS--EEEHHHHT-SS--SS-----HHH-
T ss_pred CCceEEeCCCCCcCChhhCCcccCCCCCcEECCcCC
Confidence 388999999999999999999988865 89999995
No 17
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=97.65 E-value=1.8e-05 Score=100.02 Aligned_cols=86 Identities=34% Similarity=0.696 Sum_probs=79.0
Q ss_pred CCCCCCCCCcceecCCCCCcHhhhhhcccCceeeccCccccccccccCchhhhccccccccccccCceeeCCCCCCCccc
Q 001516 2 CSLPKAGGALKPVNGGSMEFAHLFCSLLMPEVYIEDTMKVEPLMNVGGIKETRMKLVCNICRVKCGACVRCSHGTCRTSF 81 (1062)
Q Consensus 2 ClCP~kgGALK~T~~G~~~WvHv~CALw~PEv~f~~~~~~epV~~V~~I~~~R~~LkC~iC~~k~GAcIqCs~~~C~~~F 81 (1062)
|+||.+||||+|++.| .|+|+-||.|.|++.+.+...|+|+.++..++...+...|.+ .|-|.||+ .|.+.|
T Consensus 631 ~l~~~~g~al~p~d~g--r~~~~e~a~~~~e~~~~~~~~~~p~~~~~~~p~~~~~~~~~~----~~~~~~~~--~~~~~~ 702 (1005)
T KOG1080|consen 631 CLCPVKGGALKPTDEG--RWVHVECAWFRPEVCLASPERMEPAVGTFKIPALSFLKICFI----HGSCRQCC--KCETGS 702 (1005)
T ss_pred hhccccCcccCCCCcc--chhhhhchhccccccCCCccCCCCcccccccCccchhhhccc----cccccccc--hhhhcc
Confidence 8999999999999966 899999999999999999999999999999999999988888 58888888 899999
Q ss_pred chhhhhhcCceEEE
Q 001516 82 HPICAREARHRLEV 95 (1062)
Q Consensus 82 HvtCA~~aG~~~e~ 95 (1062)
|..||..+|+.++.
T Consensus 703 ~~~~a~~~~~~~~~ 716 (1005)
T KOG1080|consen 703 HAMCASRAGYIMEA 716 (1005)
T ss_pred eehhhcCccChhhh
Confidence 99999998887654
No 18
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=97.57 E-value=3.9e-05 Score=63.85 Aligned_cols=46 Identities=26% Similarity=0.795 Sum_probs=38.3
Q ss_pred cCcccCCCCCCCCCEEEecccCcccccccccCccc----CCCccccccccc
Q 001516 707 SCDICRRSETILNPILICSGCKVAVHLDCYRNAKE----STGPWYCELCEE 753 (1062)
Q Consensus 707 ~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYGi~~i----p~g~WlCd~C~~ 753 (1062)
+|.||...+ ..+.+|+|+.|+..+|..|+|+... +.+.|+|..|..
T Consensus 1 ~C~vC~~~~-~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSD-DDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSC-TTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcC-CCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 488999843 4789999999999999999998743 345899999963
No 19
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG1084 consensus Transcription factor TCF20 [Transcription]
Probab=97.10 E-value=0.00021 Score=82.80 Aligned_cols=98 Identities=23% Similarity=0.375 Sum_probs=73.3
Q ss_pred cccccCCCCCCCceec-CCCchhhhhcccccccceeecC-ccccccCccccCCCCcccccccCcCCeeeecCCcCccccc
Q 001516 775 AECSLCGGTTGAFRKS-ANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKGIDVCCICRHKHGICIKCNYGNCQTTF 852 (1062)
Q Consensus 775 ~~C~LCp~~gGALK~T-~~g~WVHV~CALW~PEv~f~n~-~lepV~gie~I~k~r~~C~iC~~k~GA~IqC~~~~C~~~F 852 (1062)
..|++++. +..++ ....|+|+.|++|.|.+.+..+ .+..+.......+ .+.|..|.++ |+.+.|....|...+
T Consensus 222 ~~~~l~~~---~~~~d~~~~~~~h~~c~~~~~~~~~~q~~~l~~~~~~v~r~~-~~~c~~c~k~-ga~~~c~~~~~~~~~ 296 (375)
T KOG1084|consen 222 FFCALSPK---ATIPDIGFELWYHRYCALWAPNVHESQGGQLTNVDNAVIRFP-SLQCILCQKP-GATLKCVQASLLSNA 296 (375)
T ss_pred hhhhhcCC---CcCCccchhHHHHHHHHhcCCcceeccCccccCchhhhhccc-chhcccccCC-CCchhhhhhhhhccc
Confidence 47777764 33444 4568999999999999999776 6766554221122 3799999996 999999999999999
Q ss_pred chhhhhhcCcEEEEeeCCCcccceeccCccc
Q 001516 853 HPTCARSAGFYLNVKSTGGNFQHKAYCEKHS 883 (1062)
Q Consensus 853 H~tCA~~aG~~~~~~~~~g~i~~~iyC~kHs 883 (1062)
|.+|+.........+ ..+++|+.|.
T Consensus 297 h~~c~~~~~~~~~~~------~r~v~~~~h~ 321 (375)
T KOG1084|consen 297 HFPCARAKNGIPLDY------DRKVSCPRHR 321 (375)
T ss_pred CcccccCcccccchh------hhhccCCCCC
Confidence 999998875554211 4567999999
No 21
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=96.93 E-value=0.00038 Score=76.07 Aligned_cols=51 Identities=33% Similarity=0.811 Sum_probs=43.8
Q ss_pred CCcCcccCCCCCCCCCEEEecccCcccccccccCc--ccCCCcccccccccccc
Q 001516 705 PRSCDICRRSETILNPILICSGCKVAVHLDCYRNA--KESTGPWYCELCEELLS 756 (1062)
Q Consensus 705 ~~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYGi~--~ip~g~WlCd~C~~~~~ 756 (1062)
--.|+||+-+|+ ++++||||.|...+|-+|...+ ..|+|.|-|..|.....
T Consensus 281 ck~csicgtsen-ddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~~~ 333 (336)
T KOG1244|consen 281 CKYCSICGTSEN-DDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEELK 333 (336)
T ss_pred cceeccccCcCC-CceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHHHh
Confidence 457999998875 6899999999999999999865 45799999999987643
No 22
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.75 E-value=0.00061 Score=74.84 Aligned_cols=45 Identities=24% Similarity=0.540 Sum_probs=40.7
Q ss_pred CCCcCcccCCCCCCCCCEEEecccCcccccccccCcccCCCccccc
Q 001516 704 HPRSCDICRRSETILNPILICSGCKVAVHLDCYRNAKESTGPWYCE 749 (1062)
Q Consensus 704 ~~~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd 749 (1062)
.-..|.||..++- ..+++|||.|...+|..|.|...+|.|.|.||
T Consensus 313 ~C~lC~IC~~P~~-E~E~~FCD~CDRG~HT~CVGL~~lP~G~WICD 357 (381)
T KOG1512|consen 313 SCELCRICLGPVI-ESEHLFCDVCDRGPHTLCVGLQDLPRGEWICD 357 (381)
T ss_pred ccHhhhccCCccc-chheeccccccCCCCccccccccccCccchhh
Confidence 4467999998764 57999999999999999999999999999999
No 23
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=96.63 E-value=0.0022 Score=66.30 Aligned_cols=127 Identities=17% Similarity=0.394 Sum_probs=72.9
Q ss_pred cCcccCCC-C-CCCCCEEEecccCcccccccccCc--------ccCCCc--cccccccccccCCCCCCCCCCccCCCCcc
Q 001516 707 SCDICRRS-E-TILNPILICSGCKVAVHLDCYRNA--------KESTGP--WYCELCEELLSSRSSGAPSVNFWEKPYFV 774 (1062)
Q Consensus 707 ~CsVC~~~-E-~~~N~IL~Cd~C~laVHq~CYGi~--------~ip~g~--WlCd~C~~~~~~~~s~~s~vn~~~~p~~~ 774 (1062)
.|.+|... + ...++||+|.+|..++|+.|.|.. ++.++. .-|+.|......+.. ..| ..
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kKD~--------~aP-~~ 71 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKKDP--------RAP-HH 71 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcccC--------CCC-CC
Confidence 49999752 3 356899999999999999999964 344444 569999876332211 113 36
Q ss_pred cccccCCCCCCCceecCCCchhhhhccccc-ccceeecCccccccCccccCCCCcccccccCcCCeeeecCCcCcccccc
Q 001516 775 AECSLCGGTTGAFRKSANGQWVHAFCAEWV-FESTFRRGQVNPVAGMEAFPKGIDVCCICRHKHGICIKCNYGNCQTTFH 853 (1062)
Q Consensus 775 ~~C~LCp~~gGALK~T~~g~WVHV~CALW~-PEv~f~n~~lepV~gie~I~k~r~~C~iC~~k~GA~IqC~~~~C~~~FH 853 (1062)
..|.-|...|-+-++.....- -+. -.....|+-.+||..+..-.-++ ..-....|. .|..+||
T Consensus 72 ~~C~~C~~~G~~c~pfr~r~T------~kQEe~~ReeNgG~DPit~Vd~~lvnN--------~~nVLFRC~--~C~RawH 135 (175)
T PF15446_consen 72 GMCQQCKKPGPSCKPFRPRKT------PKQEEKLREENGGVDPITPVDPELVNN--------PDNVLFRCT--SCHRAWH 135 (175)
T ss_pred CcccccCCCCCCCcccCCCCC------cHHHHHHHHHcCCCCCCccCCHHHccC--------hhheEEecC--Cccceee
Confidence 789999887654333211100 000 01122233344555443211111 134567788 8888999
Q ss_pred hhhhh
Q 001516 854 PTCAR 858 (1062)
Q Consensus 854 ~tCA~ 858 (1062)
..-.-
T Consensus 136 ~~HLP 140 (175)
T PF15446_consen 136 FEHLP 140 (175)
T ss_pred hhhCC
Confidence 76543
No 24
>KOG1084 consensus Transcription factor TCF20 [Transcription]
Probab=96.54 E-value=0.0012 Score=76.68 Aligned_cols=86 Identities=21% Similarity=0.391 Sum_probs=67.3
Q ss_pred CCCCcHhhhhhcccCceeeccCccccccccccCchhhhccccccccccccCceeeCCCCCCCcccchhhhhhcCceEEEc
Q 001516 17 GSMEFAHLFCSLLMPEVYIEDTMKVEPLMNVGGIKETRMKLVCNICRVKCGACVRCSHGTCRTSFHPICAREARHRLEVW 96 (1062)
Q Consensus 17 G~~~WvHv~CALw~PEv~f~~~~~~epV~~V~~I~~~R~~LkC~iC~~k~GAcIqCs~~~C~~~FHvtCA~~aG~~~e~~ 96 (1062)
|...|.|+.|++|.|++.+.+...+..+ .....+-+.+.|..|.++ |+.+.|....|...+|.+|+..+-...--.
T Consensus 236 ~~~~~~h~~c~~~~~~~~~~q~~~l~~~---~~~v~r~~~~~c~~c~k~-ga~~~c~~~~~~~~~h~~c~~~~~~~~~~~ 311 (375)
T KOG1084|consen 236 GFELWYHRYCALWAPNVHESQGGQLTNV---DNAVIRFPSLQCILCQKP-GATLKCVQASLLSNAHFPCARAKNGIPLDY 311 (375)
T ss_pred chhHHHHHHHHhcCCcceeccCccccCc---hhhhhcccchhcccccCC-CCchhhhhhhhhcccCcccccCcccccchh
Confidence 5568999999999999999988777544 333333444899999965 999999999999999999997766432211
Q ss_pred cccCCcceeEeecCCCCC
Q 001516 97 GKYGCNNVELRAFCAKHS 114 (1062)
Q Consensus 97 ~~~g~~~~~~~~fC~~Hr 114 (1062)
.-.++|..|+
T Consensus 312 --------~r~v~~~~h~ 321 (375)
T KOG1084|consen 312 --------DRKVSCPRHR 321 (375)
T ss_pred --------hhhccCCCCC
Confidence 2368999999
No 25
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=96.27 E-value=0.002 Score=75.81 Aligned_cols=51 Identities=22% Similarity=0.585 Sum_probs=41.9
Q ss_pred CCCcCcccCCCCC-CCCCEEEecccCcccccccccCcc------cCCCcccccccccc
Q 001516 704 HPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAK------ESTGPWYCELCEEL 754 (1062)
Q Consensus 704 ~~~~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CYGi~~------ip~g~WlCd~C~~~ 754 (1062)
.++.|+||..+.. ..|+||+|++|+--+|+.|.-... .+...|+|..|.+.
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 3567999998764 678999999999999999986432 34678999999986
No 26
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=95.99 E-value=0.006 Score=71.98 Aligned_cols=135 Identities=16% Similarity=0.234 Sum_probs=86.1
Q ss_pred CcCcccCCCCC-CCCCEEEecccCcccccccccCcccCCCccccccccccccCCCCCCCCCCccCCCCcccccccCCCCC
Q 001516 706 RSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECSLCGGTT 784 (1062)
Q Consensus 706 ~~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~~~~~~s~~s~vn~~~~p~~~~~C~LCp~~g 784 (1062)
..|.||..... ..|.++.|++|+...||.|--......+.|.+..|..... ...|
T Consensus 84 ~~~nv~~s~~~~p~~e~~~~~r~~~~~~q~~~i~~~~~~~~~~~~~c~~~~~------------------------~~~g 139 (464)
T KOG4323|consen 84 LNPNVLTSETVLPENEKVICGRCKSGYHQGCNIPRFPSLDIGESTECVFPIF------------------------SQEG 139 (464)
T ss_pred cCCcccccccccCchhhhhhhhhccCcccccCccCcCcCCcccccccccccc------------------------cccc
Confidence 56999997432 4789999999999999999654444467888888876521 1346
Q ss_pred CCceecCCCchhhhhcccccccceeecCccccccCccccCCCCcccccccCc----CCeeeecCCcCcccccchhhhhhc
Q 001516 785 GAFRKSANGQWVHAFCAEWVFESTFRRGQVNPVAGMEAFPKGIDVCCICRHK----HGICIKCNYGNCQTTFHPTCARSA 860 (1062)
Q Consensus 785 GALK~T~~g~WVHV~CALW~PEv~f~n~~lepV~gie~I~k~r~~C~iC~~k----~GA~IqC~~~~C~~~FH~tCA~~a 860 (1062)
|++|.. .-+| |-+.|....+.. ....+..+.|+||..- .--+|+|. .|.++||-.|-+--
T Consensus 140 ~a~K~g---~~a~-------~~l~y~~~~l~w----D~~~~~n~qc~vC~~g~~~~~NrmlqC~--~C~~~fHq~Chqp~ 203 (464)
T KOG4323|consen 140 GALKKG---RLAR-------PSLPYPEASLDW----DSGHKVNLQCSVCYCGGPGAGNRMLQCD--KCRQWYHQACHQPL 203 (464)
T ss_pred cccccc---cccc-------ccccCccccccc----CccccccceeeeeecCCcCccceeeeec--ccccHHHHHhccCC
Confidence 777653 3444 333332111110 1122334669999952 22689999 99999999998765
Q ss_pred CcEEEEeeCCCcccceeccCccch
Q 001516 861 GFYLNVKSTGGNFQHKAYCEKHSL 884 (1062)
Q Consensus 861 G~~~~~~~~~g~i~~~iyC~kHs~ 884 (1062)
--.+.+ +...+..||..-..
T Consensus 204 i~~~l~----~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 204 IKDELA----GDPFYEWFCDVCNR 223 (464)
T ss_pred CCHhhc----cCccceEeehhhcc
Confidence 333322 22456668876654
No 27
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=95.81 E-value=0.046 Score=60.01 Aligned_cols=52 Identities=29% Similarity=0.779 Sum_probs=41.6
Q ss_pred CCCCCCCCcCcccCCCCCCCCCEEEecc--cCc-ccccccccCcccCCCccccccccc
Q 001516 699 DFSKEHPRSCDICRRSETILNPILICSG--CKV-AVHLDCYRNAKESTGPWYCELCEE 753 (1062)
Q Consensus 699 e~~ke~~~~CsVC~~~E~~~N~IL~Cd~--C~l-aVHq~CYGi~~ip~g~WlCd~C~~ 753 (1062)
+.+.++.++| -|.+.- .++||-||+ |.. =||..|.|+...|.|.|+|+-|+.
T Consensus 215 d~se~e~lYC-fCqqvS--yGqMVaCDn~nCkrEWFH~~CVGLk~pPKG~WYC~eCk~ 269 (271)
T COG5034 215 DNSEGEELYC-FCQQVS--YGQMVACDNANCKREWFHLECVGLKEPPKGKWYCPECKK 269 (271)
T ss_pred ccccCceeEE-Eecccc--cccceecCCCCCchhheeccccccCCCCCCcEeCHHhHh
Confidence 4555566666 466643 589999997 876 499999999999999999999975
No 28
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.08 E-value=0.01 Score=72.46 Aligned_cols=52 Identities=27% Similarity=0.776 Sum_probs=43.7
Q ss_pred CCCCCcCcccCCCCCCCCCEEEecccCcc-cccccccCc--ccCCCcccccccccc
Q 001516 702 KEHPRSCDICRRSETILNPILICSGCKVA-VHLDCYRNA--KESTGPWYCELCEEL 754 (1062)
Q Consensus 702 ke~~~~CsVC~~~E~~~N~IL~Cd~C~la-VHq~CYGi~--~ip~g~WlCd~C~~~ 754 (1062)
-.+...|.||...|. .+.||.|+.|+.. +|-+|...+ ++|-+.|||+-|...
T Consensus 212 ~~E~~~C~IC~~~Dp-EdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~dL 266 (1134)
T KOG0825|consen 212 SQEEVKCDICTVHDP-EDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSLL 266 (1134)
T ss_pred ccccccceeeccCCh-HHhheeecccccceeeccccCcccccccccceecCcchhh
Confidence 344567999998775 5789999999999 999999764 478899999999764
No 29
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.23 E-value=0.019 Score=69.38 Aligned_cols=48 Identities=29% Similarity=0.800 Sum_probs=42.0
Q ss_pred CcCcccCCCCCCCCCEEEecccCcccccccccCc----ccCCCcccccccccc
Q 001516 706 RSCDICRRSETILNPILICSGCKVAVHLDCYRNA----KESTGPWYCELCEEL 754 (1062)
Q Consensus 706 ~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYGi~----~ip~g~WlCd~C~~~ 754 (1062)
.+|+-|...+. .|.|+.||+|..+|||.|.-.+ .+|.|.|+|.-|..-
T Consensus 254 ~fCsaCn~~~~-F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k 305 (613)
T KOG4299|consen 254 DFCSACNGSGL-FNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIK 305 (613)
T ss_pred HHHHHhCCccc-cccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeee
Confidence 59999999875 3999999999999999999765 367899999999764
No 30
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=93.35 E-value=0.039 Score=61.88 Aligned_cols=50 Identities=22% Similarity=0.624 Sum_probs=40.4
Q ss_pred CCCCCcCcccCCCCCCCCCEEEecc--cC-cccccccccCcccCCCcccccccccc
Q 001516 702 KEHPRSCDICRRSETILNPILICSG--CK-VAVHLDCYRNAKESTGPWYCELCEEL 754 (1062)
Q Consensus 702 ke~~~~CsVC~~~E~~~N~IL~Cd~--C~-laVHq~CYGi~~ip~g~WlCd~C~~~ 754 (1062)
.++..+|-.+ . .....||-||+ |. -=||..|.|+...|.|.|||..|...
T Consensus 216 ~~e~~yC~Cn-q--vsyg~Mi~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~ 268 (274)
T KOG1973|consen 216 PDEPTYCICN-Q--VSYGKMIGCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCKAE 268 (274)
T ss_pred CCCCEEEEec-c--cccccccccCCCCCCcceEEEeccccccCCCCcccchhhhhh
Confidence 3445566444 2 23689999998 99 78999999999999999999999875
No 31
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=90.71 E-value=0.17 Score=43.71 Aligned_cols=33 Identities=24% Similarity=0.679 Sum_probs=28.4
Q ss_pred CCCcCcccCCCCCCCCCEEEecccCcccccccc
Q 001516 704 HPRSCDICRRSETILNPILICSGCKVAVHLDCY 736 (1062)
Q Consensus 704 ~~~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CY 736 (1062)
....|.+|.+.=..++.+|+|..|+...|+.||
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence 346799999854447899999999999999999
No 33
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=87.61 E-value=0.24 Score=61.79 Aligned_cols=50 Identities=22% Similarity=0.636 Sum_probs=40.6
Q ss_pred CCCCCCCcCcccCCCCCCCCCEEEecccCcccccccccCc--ccCCCccccccccc
Q 001516 700 FSKEHPRSCDICRRSETILNPILICSGCKVAVHLDCYRNA--KESTGPWYCELCEE 753 (1062)
Q Consensus 700 ~~ke~~~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYGi~--~ip~g~WlCd~C~~ 753 (1062)
++..+...|.||.+ +..++.|+.|-.++|.+|-+.+ ..|.+.|+|.+|..
T Consensus 42 ~~~~~~e~c~ic~~----~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~ 93 (696)
T KOG0383|consen 42 WDDAEQEACRICAD----GGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFC 93 (696)
T ss_pred cchhhhhhhhhhcC----CCcEEEeccccHHHHHHccCCCCCcCCccceeeeeecc
Confidence 44556678999998 5678899999999999999866 35556699999943
No 34
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=86.77 E-value=0.89 Score=42.36 Aligned_cols=50 Identities=18% Similarity=0.282 Sum_probs=45.2
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhcccc--ccccchhhHHHHHHhh
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLAD--GTFASDLQCKLVKWLS 272 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~--~~~~~~~~~k~~~wl~ 272 (1062)
..|+.-|.+ |+++++|||.+.|+|..++--.|.. ..++|..+.+|..-.+
T Consensus 9 ~~I~e~l~~-~~~ti~dvA~~~gvS~~TVsr~L~~~~~~Vs~~Tr~rV~~aa~ 60 (80)
T TIGR02844 9 LEIGKYIVE-TKATVRETAKVFGVSKSTVHKDVTERLPEINPELAEEVKEVLD 60 (80)
T ss_pred HHHHHHHHH-CCCCHHHHHHHhCCCHHHHHHHhcCCCCCCCHHHHHHHHHHHc
Confidence 567888888 9999999999999999999999985 5789999999998877
No 35
>PF10198 Ada3: Histone acetyltransferases subunit 3; InterPro: IPR019340 This entry is found in Ada3 and homologous proteins which function as part of histone acetyltransferase complexes []. Ada3 is an essential component of the Ada transcriptional coactivator (alteration/deficiency in activation) complex. It plays a key role in linking histone acetyltransferase-containing complexes to p53 (tumour suppressor protein) thereby regulating p53 acetylation, stability and transcriptional activation following DNA damage [].
Probab=85.20 E-value=5.1 Score=40.68 Aligned_cols=82 Identities=20% Similarity=0.197 Sum_probs=55.5
Q ss_pred Hhhhcccc---------ccCCCcchhhHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhhHHHHhhhhcchhhHHHHHHHH
Q 001516 531 KARTRGVL---------ELSPTDEVEGEIIYFQHRLLGNAFSRKRLADNLVCKAVKTLNQEIDVARGRRWDAVLVNQYLC 601 (1062)
Q Consensus 531 ~~~~~~~~---------~~~p~de~e~E~~~~q~~ll~~~~~~~~~~~~l~~~v~~~l~~e~~~~~~r~~d~~~~nq~L~ 601 (1062)
-.+..||+ .-..+|||-.||-.+|++|-.-...|..+...|..-+..++...=-+.-..--|..+..-|++
T Consensus 14 EL~~~Gll~~~d~~d~~~~~eDDEI~aeLR~lQ~eLr~~~~~N~~rk~rL~~~~~e~ma~QE~~~~l~~lD~~V~~aY~K 93 (131)
T PF10198_consen 14 ELRYIGLLSEDDDPDWQDNREDDEISAELRRLQAELREQSAHNNARKKRLLKIAKEEMARQEYKRILDDLDKQVEQAYKK 93 (131)
T ss_pred HHHHcCCcCCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888998 336689999999999999999888877776777655555553322222223344555667888
Q ss_pred HHHHHHHccCc
Q 001516 602 ELREAKKQGRK 612 (1062)
Q Consensus 602 ~~reakkq~~k 612 (1062)
.++..++..++
T Consensus 94 r~~~~~kkkk~ 104 (131)
T PF10198_consen 94 RMRARKKKKKK 104 (131)
T ss_pred HHHHhhcccCc
Confidence 88776555443
No 36
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=83.87 E-value=0.71 Score=41.15 Aligned_cols=31 Identities=35% Similarity=0.694 Sum_probs=24.3
Q ss_pred HHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 224 ILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 224 ~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
|+.-|.++|.||+.|||.++++||+.|++-|
T Consensus 5 i~~~l~~~~~~S~~eLa~~~~~s~~~ve~mL 35 (69)
T PF09012_consen 5 IRDYLRERGRVSLAELAREFGISPEAVEAML 35 (69)
T ss_dssp HHHHHHHS-SEEHHHHHHHTT--HHHHHHHH
T ss_pred HHHHHHHcCCcCHHHHHHHHCcCHHHHHHHH
Confidence 4444668999999999999999999999988
No 37
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=80.12 E-value=1.1 Score=37.25 Aligned_cols=30 Identities=27% Similarity=0.835 Sum_probs=25.3
Q ss_pred ccccccCc--CCeeeecCCcCcccccchhhhhhc
Q 001516 829 VCCICRHK--HGICIKCNYGNCQTTFHPTCARSA 860 (1062)
Q Consensus 829 ~C~iC~~k--~GA~IqC~~~~C~~~FH~tCA~~a 860 (1062)
+|.+|++. .+.+|+|. .|..+||..|....
T Consensus 1 ~C~vC~~~~~~~~~i~C~--~C~~~~H~~C~~~~ 32 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD--SCNRWYHQECVGPP 32 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS--TTSCEEETTTSTSS
T ss_pred eCcCCCCcCCCCCeEEcC--CCChhhCcccCCCC
Confidence 47888873 78899999 99999999998654
No 38
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=79.46 E-value=1.8 Score=36.21 Aligned_cols=44 Identities=18% Similarity=0.317 Sum_probs=39.3
Q ss_pred chhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhhhccccc
Q 001516 235 NVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLSNHAYLG 278 (1062)
Q Consensus 235 ~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~~~~~~~ 278 (1062)
+++|||.+.|+|.-++--+|. ....++..+-||.+..+..-|.+
T Consensus 1 Ti~dIA~~agvS~~TVSr~ln~~~~vs~~tr~rI~~~a~~lgY~p 45 (46)
T PF00356_consen 1 TIKDIAREAGVSKSTVSRVLNGPPRVSEETRERILEAAEELGYRP 45 (46)
T ss_dssp CHHHHHHHHTSSHHHHHHHHTTCSSSTHHHHHHHHHHHHHHTB-S
T ss_pred CHHHHHHHHCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHCCCC
Confidence 478999999999999999999 57899999999999999888765
No 39
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=77.33 E-value=1.2 Score=54.10 Aligned_cols=87 Identities=25% Similarity=0.401 Sum_probs=44.2
Q ss_pred ccccccCCC---CCCCceecCCCchhhhhcccccccceeecCccccccCccccC-----CCCcccccccCc-CCeeeecC
Q 001516 774 VAECSLCGG---TTGAFRKSANGQWVHAFCAEWVFESTFRRGQVNPVAGMEAFP-----KGIDVCCICRHK-HGICIKCN 844 (1062)
Q Consensus 774 ~~~C~LCp~---~gGALK~T~~g~WVHV~CALW~PEv~f~n~~lepV~gie~I~-----k~r~~C~iC~~k-~GA~IqC~ 844 (1062)
...|.-|.. .|++|.- .+-+| ||.|..-..--.+-++.+..-+++..-. ..-.+|..|.+- .|..++=.
T Consensus 133 ps~cagc~~~lk~gq~lla-ld~qw-hv~cfkc~~c~~vL~gey~skdg~pyce~dy~~~fgvkc~~c~~fisgkvLqag 210 (670)
T KOG1044|consen 133 PSTCAGCGEELKNGQALLA-LDKQW-HVSCFKCKSCSAVLNGEYMSKDGVPYCEKDYQAKFGVKCEECEKFISGKVLQAG 210 (670)
T ss_pred Cccccchhhhhhccceeee-eccce-eeeeeehhhhcccccceeeccCCCcchhhhhhhhcCeehHHhhhhhhhhhhhcc
Confidence 467888864 2344433 34467 6777543322222222111111211100 113677777763 45555433
Q ss_pred CcCcccccchhhhhhcCcEEEE
Q 001516 845 YGNCQTTFHPTCARSAGFYLNV 866 (1062)
Q Consensus 845 ~~~C~~~FH~tCA~~aG~~~~~ 866 (1062)
+ ..|||+||+-..|--.|
T Consensus 211 --~--kh~HPtCARCsRCgqmF 228 (670)
T KOG1044|consen 211 --D--KHFHPTCARCSRCGQMF 228 (670)
T ss_pred --C--cccCcchhhhhhhcccc
Confidence 4 79999999988666544
No 40
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=77.02 E-value=1.4 Score=49.28 Aligned_cols=50 Identities=20% Similarity=0.332 Sum_probs=39.5
Q ss_pred CCCcCcccCCCC-C----CCCCEEEecccCcccccccccCcc-----cCCCccccccccc
Q 001516 704 HPRSCDICRRSE-T----ILNPILICSGCKVAVHLDCYRNAK-----ESTGPWYCELCEE 753 (1062)
Q Consensus 704 ~~~~CsVC~~~E-~----~~N~IL~Cd~C~laVHq~CYGi~~-----ip~g~WlCd~C~~ 753 (1062)
....|.+|++.. + .-|.+|.|.-|..+.|.+|..... +....|-|--|..
T Consensus 257 ~~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~l 316 (381)
T KOG1512|consen 257 RRNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCEL 316 (381)
T ss_pred chhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHh
Confidence 346799999864 2 247899999999999999997653 3467899988864
No 41
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=75.82 E-value=1.9 Score=37.17 Aligned_cols=34 Identities=35% Similarity=0.602 Sum_probs=30.2
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
..||+-|-+.|+++++++|..+|+|+.++.--|+
T Consensus 3 ~~Il~~l~~~~~~s~~ela~~~~VS~~TiRRDl~ 36 (57)
T PF08220_consen 3 QQILELLKEKGKVSVKELAEEFGVSEMTIRRDLN 36 (57)
T ss_pred HHHHHHHHHcCCEEHHHHHHHHCcCHHHHHHHHH
Confidence 4578888889999999999999999999988773
No 42
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=74.43 E-value=1.8 Score=53.38 Aligned_cols=48 Identities=31% Similarity=0.841 Sum_probs=35.5
Q ss_pred CcCcccCCCCCCCCCEEEecccCcccccccccC--cccCCCcccccccccc
Q 001516 706 RSCDICRRSETILNPILICSGCKVAVHLDCYRN--AKESTGPWYCELCEEL 754 (1062)
Q Consensus 706 ~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYGi--~~ip~g~WlCd~C~~~ 754 (1062)
..|-.|... ...+.+++|++|.+++|-+|--. ..++.++|+|..|...
T Consensus 69 rvCe~c~~~-gD~~kf~~Ck~cDvsyh~yc~~P~~~~v~sg~~~ckk~~~c 118 (694)
T KOG4443|consen 69 RVCEACGTT-GDPKKFLLCKRCDVSYHCYCQKPPNDKVPSGPWLCKKCTRC 118 (694)
T ss_pred eeeeecccc-CCcccccccccccccccccccCCccccccCcccccHHHHhh
Confidence 445555421 23578999999999999888643 3578999999999765
No 43
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=73.28 E-value=1.7 Score=48.93 Aligned_cols=47 Identities=28% Similarity=0.616 Sum_probs=34.2
Q ss_pred cccccccCcCCeeeecCCcCcc-cccchhhhhhcCcEEEEeeCCCcccceeccCccch
Q 001516 828 DVCCICRHKHGICIKCNYGNCQ-TTFHPTCARSAGFYLNVKSTGGNFQHKAYCEKHSL 884 (1062)
Q Consensus 828 ~~C~iC~~k~GA~IqC~~~~C~-~~FH~tCA~~aG~~~~~~~~~g~i~~~iyC~kHs~ 884 (1062)
..|.-+....|-+|.|...+|. .|||..|- |+.. .+-|.| ||+.-..
T Consensus 220 ~yC~Cnqvsyg~Mi~CDn~~C~~eWFH~~CV---GL~~---~PkgkW----yC~~C~~ 267 (274)
T KOG1973|consen 220 TYCICNQVSYGKMIGCDNPGCPIEWFHFTCV---GLKT---KPKGKW----YCPRCKA 267 (274)
T ss_pred EEEEecccccccccccCCCCCCcceEEEecc---cccc---CCCCcc----cchhhhh
Confidence 4554444569999999999999 99999996 4443 344557 9986544
No 44
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=72.73 E-value=3.4 Score=34.64 Aligned_cols=34 Identities=26% Similarity=0.608 Sum_probs=26.0
Q ss_pred CCcCcccCCCC-CCCCCEEEecccCcccccccccC
Q 001516 705 PRSCDICRRSE-TILNPILICSGCKVAVHLDCYRN 738 (1062)
Q Consensus 705 ~~~CsVC~~~E-~~~N~IL~Cd~C~laVHq~CYGi 738 (1062)
...|++|...= ....+-+.|..|++.+|..|...
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 36899999853 24678999999999999999853
No 45
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=71.23 E-value=1.2 Score=59.99 Aligned_cols=51 Identities=31% Similarity=0.762 Sum_probs=42.4
Q ss_pred CCCcCcccCCCCCCCCCEEEecccCcccccccccCc--ccCCCccccccccccc
Q 001516 704 HPRSCDICRRSETILNPILICSGCKVAVHLDCYRNA--KESTGPWYCELCEELL 755 (1062)
Q Consensus 704 ~~~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYGi~--~ip~g~WlCd~C~~~~ 755 (1062)
....|-||+.... .+.++.|+.|.-.+|..|.... .++.++|+|..|.-..
T Consensus 1107 ~~~~c~~cr~k~~-~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQ-DEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhccc-chhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 4568999998543 4689999999999999999754 5788999999998764
No 46
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=67.72 E-value=7.5 Score=30.23 Aligned_cols=48 Identities=23% Similarity=0.261 Sum_probs=36.4
Q ss_pred HHHHhhhCCcchhhhhhhhcCChhhhhhccccc-cccchhhHHHHHHhh
Q 001516 225 LKKLIDRGKVNVKDIASDIGISPDLLKTTLADG-TFASDLQCKLVKWLS 272 (1062)
Q Consensus 225 ~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~~-~~~~~~~~k~~~wl~ 272 (1062)
++++++..+++..++|..+|+++.+|..-+... ...++...+|..+|.
T Consensus 2 i~~~~~~~~~s~~~la~~~~i~~~~i~~~~~~~~~~~~~~~~~i~~~~~ 50 (56)
T smart00530 2 LKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALG 50 (56)
T ss_pred HHHHHHHcCCCHHHHHHHhCCCHHHHHHHHCCCCCCCHHHHHHHHHHhC
Confidence 456677888999999999999999998876633 335566667777663
No 47
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=67.55 E-value=3.8 Score=40.51 Aligned_cols=48 Identities=25% Similarity=0.666 Sum_probs=36.0
Q ss_pred CcCcccCCC-CCCCCCEEEecccCcccccccccCcccCCCcccccccccc
Q 001516 706 RSCDICRRS-ETILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 754 (1062)
Q Consensus 706 ~~CsVC~~~-E~~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~ 754 (1062)
..|..|... ....|.-..|..|...|=+.| |+....+..|+|..|...
T Consensus 55 ~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C-~~~~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 55 RHCARCGKPFGFLFNRGRVCVDCKHRVCKKC-GVYSKKEPIWLCKVCQKQ 103 (118)
T ss_dssp SB-TTTS-BCSCTSTTCEEETTTTEEEETTS-EEETSSSCCEEEHHHHHH
T ss_pred cchhhhCCcccccCCCCCcCCcCCccccCcc-CCcCCCCCCEEChhhHHH
Confidence 469999874 334677799999999999999 444445778999999865
No 48
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=67.35 E-value=5.2 Score=52.09 Aligned_cols=116 Identities=21% Similarity=0.344 Sum_probs=74.0
Q ss_pred CCCCCCCcCcccCCCCCCCCCEEEecccCcccccccccCcc--cCCCccccccccccccCCCCCCCCCCccCCCCccccc
Q 001516 700 FSKEHPRSCDICRRSETILNPILICSGCKVAVHLDCYRNAK--ESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAEC 777 (1062)
Q Consensus 700 ~~ke~~~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYGi~~--ip~g~WlCd~C~~~~~~~~s~~s~vn~~~~p~~~~~C 777 (1062)
.+..-+..|-+|.+ .+.++.|..|...||..|.--+. .|...|-|..|..-+-+ + .+.|
T Consensus 339 ~~~~~ddhcrf~~d----~~~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~hkvn---------g------vvd~ 399 (1414)
T KOG1473|consen 339 GEIEYDDHCRFCHD----LGDLLCCETCPRVVHLECVFHPRFAVPSAFWECEVCNIHKVN---------G------VVDC 399 (1414)
T ss_pred cceeecccccccCc----ccceeecccCCceEEeeecCCccccCCCccchhhhhhhhccC---------c------cccc
Confidence 44455678999998 68899999999999999976543 56788999999865221 1 4557
Q ss_pred ccCCCCCCCcee-cCCCchhhhhcccccccceeecCccccccCccccCCCCcccccccCcCCeeeecCCcCcccccch-h
Q 001516 778 SLCGGTTGAFRK-SANGQWVHAFCAEWVFESTFRRGQVNPVAGMEAFPKGIDVCCICRHKHGICIKCNYGNCQTTFHP-T 855 (1062)
Q Consensus 778 ~LCp~~gGALK~-T~~g~WVHV~CALW~PEv~f~n~~lepV~gie~I~k~r~~C~iC~~k~GA~IqC~~~~C~~~FH~-t 855 (1062)
+|=+.+.+...+ +..|.==|- + .+.. ....|.||+.. |. .-|.|..|...||. .
T Consensus 400 vl~~~K~~~~iR~~~iG~dr~g------r-------~ywf---------i~rrl~Ie~~d-et-~l~yysT~pqly~ll~ 455 (1414)
T KOG1473|consen 400 VLPPSKNVDSIRHTPIGRDRYG------R-------KYWF---------ISRRLRIEGMD-ET-LLWYYSTCPQLYHLLR 455 (1414)
T ss_pred ccChhhcccceeccCCCcCccc------c-------chhc---------eeeeeEEecCC-Cc-EEEEecCcHHHHHHHH
Confidence 776665554422 221110000 0 0000 02678888864 43 34666779999998 7
Q ss_pred hhh
Q 001516 856 CAR 858 (1062)
Q Consensus 856 CA~ 858 (1062)
|.-
T Consensus 456 cLd 458 (1414)
T KOG1473|consen 456 CLD 458 (1414)
T ss_pred Hhc
Confidence 864
No 49
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=67.18 E-value=3.2 Score=33.89 Aligned_cols=34 Identities=41% Similarity=0.812 Sum_probs=26.8
Q ss_pred CCcCcccCCCCC-CCCCEEEecccCcccccccccC
Q 001516 705 PRSCDICRRSET-ILNPILICSGCKVAVHLDCYRN 738 (1062)
Q Consensus 705 ~~~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CYGi 738 (1062)
..+|.+|...-. ...+-+.|+.|++.||..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 467999997532 2357889999999999999853
No 50
>TIGR02607 antidote_HigA addiction module antidote protein, HigA family. Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by Pfam model pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair.
Probab=66.62 E-value=9.7 Score=33.97 Aligned_cols=54 Identities=19% Similarity=0.330 Sum_probs=41.7
Q ss_pred cchHHHHH-HHhhhCCcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhh
Q 001516 219 LNFTLILK-KLIDRGKVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLS 272 (1062)
Q Consensus 219 ~~~~~~~~-kli~~gkv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~ 272 (1062)
......++ .|++...++..++|..+|+|..+|-.-+. ...+.++.-.+|.+.|.
T Consensus 3 ~~~g~~i~~~~~~~~~~t~~~lA~~~gis~~tis~~~~g~~~~~~~~~~~l~~~l~ 58 (78)
T TIGR02607 3 AHPGEILREEFLEPLGLSIRALAKALGVSRSTLSRIVNGRRGITADMALRLAKALG 58 (78)
T ss_pred CCHHHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHcCCCCCCHHHHHHHHHHcC
Confidence 34455677 89999999999999999999999988876 33456666666666554
No 51
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=65.81 E-value=6.9 Score=32.16 Aligned_cols=31 Identities=26% Similarity=0.429 Sum_probs=22.6
Q ss_pred HHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 223 LILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 223 ~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
--+++|.++| .++.+||.++|||..+|---|
T Consensus 12 ~~i~~l~~~G-~si~~IA~~~gvsr~TvyR~l 42 (45)
T PF02796_consen 12 EEIKELYAEG-MSIAEIAKQFGVSRSTVYRYL 42 (45)
T ss_dssp HHHHHHHHTT---HHHHHHHTTS-HHHHHHHH
T ss_pred HHHHHHHHCC-CCHHHHHHHHCcCHHHHHHHH
Confidence 3455688899 999999999999998876544
No 52
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=64.48 E-value=3.1 Score=33.57 Aligned_cols=33 Identities=39% Similarity=0.632 Sum_probs=25.3
Q ss_pred CCcCcccCCCCCCCCCEEEecccCccccccccc
Q 001516 705 PRSCDICRRSETILNPILICSGCKVAVHLDCYR 737 (1062)
Q Consensus 705 ~~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYG 737 (1062)
..+|.+|...-....+-+.|..|++.+|..|..
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~ 43 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAE 43 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHh
Confidence 467999997532111578999999999999974
No 53
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=64.37 E-value=3.1 Score=31.44 Aligned_cols=28 Identities=29% Similarity=0.710 Sum_probs=12.3
Q ss_pred cCcccCCCCCCCCCEEEecccCccccccc
Q 001516 707 SCDICRRSETILNPILICSGCKVAVHLDC 735 (1062)
Q Consensus 707 ~CsVC~~~E~~~N~IL~Cd~C~laVHq~C 735 (1062)
.|++|...-. ++....|..|+..+|..|
T Consensus 2 ~C~~C~~~~~-~~~~Y~C~~Cdf~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPID-GGWFYRCSECDFDLHEEC 29 (30)
T ss_dssp --TTTS-----S--EEE-TTT-----HHH
T ss_pred cCCcCCCcCC-CCceEECccCCCccChhc
Confidence 5999998543 247889999999999988
No 54
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=60.46 E-value=9.6 Score=32.67 Aligned_cols=48 Identities=31% Similarity=0.349 Sum_probs=31.7
Q ss_pred HHHHhhhCCcchhhhhhhhcCChhhhhhccccc--cccchhhHHHHHHhh
Q 001516 225 LKKLIDRGKVNVKDIASDIGISPDLLKTTLADG--TFASDLQCKLVKWLS 272 (1062)
Q Consensus 225 ~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~~--~~~~~~~~k~~~wl~ 272 (1062)
|++|+++..++..++|..+|||..+|..-+... .+.-+.-.+|-+.|.
T Consensus 2 L~~~m~~~~it~~~La~~~gis~~tl~~~~~~~~~~~~~~~l~~ia~~l~ 51 (63)
T PF13443_consen 2 LKELMAERGITQKDLARKTGISRSTLSRILNGKPSNPSLDTLEKIAKALN 51 (63)
T ss_dssp HHHHHHHTT--HHHHHHHHT--HHHHHHHHTTT-----HHHHHHHHHHHT
T ss_pred HHHHHHHcCCCHHHHHHHHCcCHHHHHHHHhcccccccHHHHHHHHHHcC
Confidence 678888888899999999999999998888733 455555556665553
No 55
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=60.06 E-value=12 Score=31.06 Aligned_cols=48 Identities=23% Similarity=0.264 Sum_probs=37.1
Q ss_pred HHHHhhhCCcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhh
Q 001516 225 LKKLIDRGKVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLS 272 (1062)
Q Consensus 225 ~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~ 272 (1062)
||++.++-..+.+|+|..+|+|+.+|..-+. .....++.-.+|-+-|.
T Consensus 1 ik~~r~~~gls~~~la~~~gis~~~i~~~~~g~~~~~~~~~~~ia~~l~ 49 (55)
T PF01381_consen 1 IKELRKEKGLSQKELAEKLGISRSTISRIENGKRNPSLDTLKKIAKALG 49 (55)
T ss_dssp HHHHHHHTTS-HHHHHHHHTS-HHHHHHHHTTSSTSBHHHHHHHHHHHT
T ss_pred CHHHHHHcCCCHHHHHHHhCCCcchhHHHhcCCCCCCHHHHHHHHHHHC
Confidence 5778888999999999999999999998876 45566677677766654
No 56
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=58.36 E-value=8.5 Score=31.57 Aligned_cols=32 Identities=22% Similarity=0.506 Sum_probs=25.1
Q ss_pred HHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 223 LILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 223 ~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
-||+-|.+-|..+..+||.++|+|+.++..-+
T Consensus 7 ~Il~~Lq~d~r~s~~~la~~lglS~~~v~~Ri 38 (42)
T PF13404_consen 7 KILRLLQEDGRRSYAELAEELGLSESTVRRRI 38 (42)
T ss_dssp HHHHHHHH-TTS-HHHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHHcCCccHHHHHHHHCcCHHHHHHHH
Confidence 47788888999999999999999999987654
No 57
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=56.23 E-value=9.1 Score=29.10 Aligned_cols=27 Identities=37% Similarity=0.898 Sum_probs=21.6
Q ss_pred cCcccCCCCCCCCC-EEEecccCccccccc
Q 001516 707 SCDICRRSETILNP-ILICSGCKVAVHLDC 735 (1062)
Q Consensus 707 ~CsVC~~~E~~~N~-IL~Cd~C~laVHq~C 735 (1062)
.|+||++.-+ +. ...|..|...+|..|
T Consensus 2 ~C~~C~~~~~--~~~~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKID--GFYFYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcC--CCEeEEeCCCCCeEcCcc
Confidence 4999987432 33 889999999999988
No 58
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=55.61 E-value=7.2 Score=40.46 Aligned_cols=27 Identities=37% Similarity=0.808 Sum_probs=21.9
Q ss_pred ccccccccCc--ccCCCcccccccccccc
Q 001516 730 AVHLDCYRNA--KESTGPWYCELCEELLS 756 (1062)
Q Consensus 730 aVHq~CYGi~--~ip~g~WlCd~C~~~~~ 756 (1062)
.+|..|...+ .+|+|+|+|..|.....
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~ 29 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEKS 29 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCCC
Confidence 3799999754 68899999999998643
No 59
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=54.67 E-value=10 Score=31.07 Aligned_cols=33 Identities=27% Similarity=0.429 Sum_probs=27.1
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
--||.-|.+.|.++.++||..+|+|..++...|
T Consensus 6 ~~Il~~l~~~~~~t~~ela~~~~is~~tv~~~l 38 (48)
T PF13412_consen 6 RKILNYLRENPRITQKELAEKLGISRSTVNRYL 38 (48)
T ss_dssp HHHHHHHHHCTTS-HHHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHHHcCCCCHHHHHHHhCCCHHHHHHHH
Confidence 457888999999999999999999999887665
No 60
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=54.34 E-value=5.5 Score=49.34 Aligned_cols=48 Identities=27% Similarity=0.603 Sum_probs=34.2
Q ss_pred CcCcccCCCCC-CCCCEEEecccCcccccccccCcc---cCCCccccccccc
Q 001516 706 RSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAK---ESTGPWYCELCEE 753 (1062)
Q Consensus 706 ~~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CYGi~~---ip~g~WlCd~C~~ 753 (1062)
..|-+|..... ..+.++.|..|+...|.+|..+.. +..+-|-|..|..
T Consensus 19 ~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 19 LMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 45666665432 468899999999999999987431 1233499999863
No 61
>cd00093 HTH_XRE Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.
Probab=52.65 E-value=21 Score=27.84 Aligned_cols=48 Identities=21% Similarity=0.220 Sum_probs=36.2
Q ss_pred HHHHHhhhCCcchhhhhhhhcCChhhhhhcccc-ccccchhhHHHHHHh
Q 001516 224 ILKKLIDRGKVNVKDIASDIGISPDLLKTTLAD-GTFASDLQCKLVKWL 271 (1062)
Q Consensus 224 ~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~-~~~~~~~~~k~~~wl 271 (1062)
.++..+++-+.+..++|..+|+++.+|..-+.. ..+.++...+|...|
T Consensus 3 ~l~~~~~~~~~s~~~~a~~~~~~~~~v~~~~~g~~~~~~~~~~~i~~~~ 51 (58)
T cd00093 3 RLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKAL 51 (58)
T ss_pred HHHHHHHHcCCCHHHHHHHHCCCHHHHHHHHcCCCCCCHHHHHHHHHHh
Confidence 456667778899999999999999999877653 355556666666655
No 62
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=51.93 E-value=11 Score=33.24 Aligned_cols=33 Identities=24% Similarity=0.452 Sum_probs=30.0
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
+-|+.-|+..|.+++.|||.++||+..++...|
T Consensus 11 ~~vy~~Ll~~~~~t~~eIa~~l~i~~~~v~~~L 43 (68)
T PF01978_consen 11 AKVYLALLKNGPATAEEIAEELGISRSTVYRAL 43 (68)
T ss_dssp HHHHHHHHHHCHEEHHHHHHHHTSSHHHHHHHH
T ss_pred HHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHH
Confidence 567888999999999999999999999988776
No 63
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=51.09 E-value=12 Score=40.31 Aligned_cols=44 Identities=25% Similarity=0.703 Sum_probs=34.3
Q ss_pred CCCcCcccCCCCC----CCCCEEEecccCcccccccccCcccCCCcccccccccc
Q 001516 704 HPRSCDICRRSET----ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 754 (1062)
Q Consensus 704 ~~~~CsVC~~~E~----~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~ 754 (1062)
.+..|-+|.+.+. ..+..+.|..|+..+|+.||.- =-|.+|.-.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-------~~CpkC~R~ 198 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-------KSCPKCARR 198 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-------CCCCCcHhH
Confidence 3568999998763 2457899999999999999962 129999764
No 64
>KOG4236 consensus Serine/threonine protein kinase PKC mu/PKD and related proteins [Signal transduction mechanisms]
Probab=50.64 E-value=8.1 Score=47.22 Aligned_cols=34 Identities=29% Similarity=0.694 Sum_probs=26.4
Q ss_pred CCCCcCcccCCCCC-CCCCEEEecccCcccccccc
Q 001516 703 EHPRSCDICRRSET-ILNPILICSGCKVAVHLDCY 736 (1062)
Q Consensus 703 e~~~~CsVC~~~E~-~~N~IL~Cd~C~laVHq~CY 736 (1062)
.-..+|+-|++.=. .--+-+.|.+|++.+|+.|-
T Consensus 154 ~~PtFCD~CGEmL~GLvrQGlKC~gCglNyHKRCa 188 (888)
T KOG4236|consen 154 KAPTFCDFCGEMLFGLVRQGLKCEGCGLNYHKRCA 188 (888)
T ss_pred cCchHHHHHHHHHHHHHHccccccCCCCcHhhhhh
Confidence 34579999996421 23567899999999999996
No 65
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=49.48 E-value=10 Score=33.79 Aligned_cols=21 Identities=38% Similarity=0.789 Sum_probs=19.2
Q ss_pred hCCcchhhhhhhhcCChhhhh
Q 001516 231 RGKVNVKDIASDIGISPDLLK 251 (1062)
Q Consensus 231 ~gkv~~~~~a~~~g~s~~~~~ 251 (1062)
.|++..+|||.++|+|+.+|.
T Consensus 20 ~g~i~lkdIA~~Lgvs~~tIr 40 (60)
T PF10668_consen 20 NGKIKLKDIAEKLGVSESTIR 40 (60)
T ss_pred CCCccHHHHHHHHCCCHHHHH
Confidence 689999999999999998775
No 66
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=48.95 E-value=6.4 Score=46.66 Aligned_cols=154 Identities=19% Similarity=0.429 Sum_probs=84.2
Q ss_pred cCcccCCCCCCCCCEEEecccCccccccccc----------Cc-ccCCCccccccccccccCCCCCCCCCCccCCCCccc
Q 001516 707 SCDICRRSETILNPILICSGCKVAVHLDCYR----------NA-KESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVA 775 (1062)
Q Consensus 707 ~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYG----------i~-~ip~g~WlCd~C~~~~~~~~s~~s~vn~~~~p~~~~ 775 (1062)
.|.-|...-. .+-.-|.-=+..+|..|+- .. ..-++.-+|+.|-... .-
T Consensus 276 iC~~C~K~V~--g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~t------------------le 335 (468)
T KOG1701|consen 276 ICAFCHKTVS--GQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDT------------------LE 335 (468)
T ss_pred hhhhcCCccc--CcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHH------------------HH
Confidence 6888876321 2222333334455665552 11 1236677888886541 45
Q ss_pred ccccCCCCC-CCcee-----cCCCchhhhhcccccccceeecCccccccCccccCCC-CcccccccCc--------CCee
Q 001516 776 ECSLCGGTT-GAFRK-----SANGQWVHAFCAEWVFESTFRRGQVNPVAGMEAFPKG-IDVCCICRHK--------HGIC 840 (1062)
Q Consensus 776 ~C~LCp~~g-GALK~-----T~~g~WVHV~CALW~PEv~f~n~~lepV~gie~I~k~-r~~C~iC~~k--------~GA~ 840 (1062)
+|..|...- ..+.+ .--+-|+=|+|+--+.++-|.-+.-+.|.=+...-+. --+|.+|+.. .-.-
T Consensus 336 kC~~Cg~~I~d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etvR 415 (468)
T KOG1701|consen 336 KCNKCGEPIMDRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETVR 415 (468)
T ss_pred HHhhhhhHHHHHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcceEE
Confidence 788886521 01111 1123455566666667777764433444444444333 5889999974 1233
Q ss_pred eecCCcCcccccchhhhhhcCcEEEEe-eCCCc----ccceeccCccch
Q 001516 841 IKCNYGNCQTTFHPTCARSAGFYLNVK-STGGN----FQHKAYCEKHSL 884 (1062)
Q Consensus 841 IqC~~~~C~~~FH~tCA~~aG~~~~~~-~~~g~----i~~~iyC~kHs~ 884 (1062)
|-|- .+.||+.|=+-..+-|.+. ..++. +...+||+.-..
T Consensus 416 vvam----dr~fHv~CY~CEDCg~~LS~e~e~qgCyPld~HllCk~Ch~ 460 (468)
T KOG1701|consen 416 VVAM----DRDFHVNCYKCEDCGLLLSSEEEGQGCYPLDGHLLCKTCHL 460 (468)
T ss_pred EEEc----cccccccceehhhcCccccccCCCCcceeccCceeechhhh
Confidence 4444 4689999998887776654 22221 355789976543
No 67
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=48.64 E-value=29 Score=28.53 Aligned_cols=36 Identities=8% Similarity=0.169 Sum_probs=31.7
Q ss_pred chHHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 220 NFTLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 220 ~~~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
.|+..|+++.++-..+..++|..+|+|+.+|..-..
T Consensus 2 ~~~~~l~~~r~~~gltq~~lA~~~gvs~~~vs~~e~ 37 (58)
T TIGR03070 2 QIGMLVRARRKALGLTQADLADLAGVGLRFIRDVEN 37 (58)
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHC
Confidence 367789999999999999999999999998887765
No 68
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=46.40 E-value=17 Score=30.04 Aligned_cols=31 Identities=29% Similarity=0.460 Sum_probs=25.8
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
+.|++.|.+. .++++||.+.|+|.++|..-+
T Consensus 18 ~~i~~~~~~~--~s~~~vA~~~~vs~~TV~ri~ 48 (52)
T PF13542_consen 18 QYILKLLRES--RSFKDVARELGVSWSTVRRIF 48 (52)
T ss_pred HHHHHHHhhc--CCHHHHHHHHCCCHHHHHHHH
Confidence 5677777754 899999999999999997654
No 69
>PHA02591 hypothetical protein; Provisional
Probab=46.18 E-value=21 Score=33.40 Aligned_cols=37 Identities=24% Similarity=0.371 Sum_probs=31.4
Q ss_pred CCcchHHHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 217 DALNFTLILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 217 ~~~~~~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
+-.|+--+-++|.++| .++.+||..+|++-+++..-|
T Consensus 44 ~~dd~~~vA~eL~eqG-lSqeqIA~~LGVsqetVrKYL 80 (83)
T PHA02591 44 SEDDLISVTHELARKG-FTVEKIASLLGVSVRKVRRYL 80 (83)
T ss_pred ccchHHHHHHHHHHcC-CCHHHHHHHhCCCHHHHHHHH
Confidence 4467788889999999 599999999999999887655
No 70
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=45.87 E-value=17 Score=32.59 Aligned_cols=34 Identities=21% Similarity=0.334 Sum_probs=30.0
Q ss_pred HHHHHHHhhhCC--cchhhhhhhhcCChhhhhhccc
Q 001516 222 TLILKKLIDRGK--VNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 222 ~~~~~kli~~gk--v~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
.-||.-|-++|. +++++||.++||+..++...|.
T Consensus 9 ~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~ 44 (68)
T smart00550 9 EKILEFLENSGDETSTALQLAKNLGLPKKEVNRVLY 44 (68)
T ss_pred HHHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHH
Confidence 568888888988 9999999999999999887773
No 71
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=45.87 E-value=15 Score=44.11 Aligned_cols=47 Identities=28% Similarity=0.558 Sum_probs=32.5
Q ss_pred cCcccCCCCCCCC--CEEEecccCcccccccc--------cCc-c----cCCCccccccccc
Q 001516 707 SCDICRRSETILN--PILICSGCKVAVHLDCY--------RNA-K----ESTGPWYCELCEE 753 (1062)
Q Consensus 707 ~CsVC~~~E~~~N--~IL~Cd~C~laVHq~CY--------Gi~-~----ip~g~WlCd~C~~ 753 (1062)
.|.||...+.+.| .-|.|+-|+-..|..|- |+. . ..+..|+|..|-.
T Consensus 130 ~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~ 191 (446)
T PF07227_consen 130 MCCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGK 191 (446)
T ss_pred CccccCCcccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCC
Confidence 4778877765445 47799999999999995 111 0 1245688888854
No 72
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=44.64 E-value=32 Score=24.29 Aligned_cols=30 Identities=27% Similarity=0.434 Sum_probs=23.1
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhh
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKT 252 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a 252 (1062)
-..+.++++.|. ++++||.++|+|.-++-.
T Consensus 11 ~~~i~~~~~~~~-s~~~ia~~~~is~~tv~~ 40 (42)
T cd00569 11 IEEARRLLAAGE-SVAEIARRLGVSRSTLYR 40 (42)
T ss_pred HHHHHHHHHcCC-CHHHHHHHHCCCHHHHHH
Confidence 345556677776 999999999999887643
No 73
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=43.75 E-value=15 Score=30.19 Aligned_cols=30 Identities=23% Similarity=0.552 Sum_probs=20.5
Q ss_pred HHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 224 ILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 224 ~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
.+..|.++| .|+.+||..+|.|+.+|-..|
T Consensus 12 ~I~~l~~~G-~s~~~IA~~lg~s~sTV~rel 41 (44)
T PF13936_consen 12 QIEALLEQG-MSIREIAKRLGRSRSTVSREL 41 (44)
T ss_dssp HHHHHHCS----HHHHHHHTT--HHHHHHHH
T ss_pred HHHHHHHcC-CCHHHHHHHHCcCcHHHHHHH
Confidence 456788888 899999999999999886544
No 74
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=43.18 E-value=36 Score=43.33 Aligned_cols=49 Identities=22% Similarity=0.497 Sum_probs=34.3
Q ss_pred CcccccccCc--CCeeeecCCcCcccc-cchhhhhhcCcEEEEeeCCCcccceeccCccchh
Q 001516 827 IDVCCICRHK--HGICIKCNYGNCQTT-FHPTCARSAGFYLNVKSTGGNFQHKAYCEKHSLE 885 (1062)
Q Consensus 827 r~~C~iC~~k--~GA~IqC~~~~C~~~-FH~tCA~~aG~~~~~~~~~g~i~~~iyC~kHs~~ 885 (1062)
.-.|.||... .-++|.|. .|... ||..|.-..-+.+- -+.| ||..-...
T Consensus 215 ~~~C~IC~~~DpEdVLLLCD--sCN~~~YH~YCLDPdl~eiP----~~eW----YC~NC~dL 266 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCD--SCNKVYYHVYCLDPDLSESP----VNEW----YCTNCSLL 266 (1134)
T ss_pred cccceeeccCChHHhheeec--ccccceeeccccCccccccc----ccce----ecCcchhh
Confidence 4789999985 56788999 99998 99999744322221 1223 89877654
No 75
>PRK09492 treR trehalose repressor; Provisional
Probab=42.79 E-value=21 Score=39.42 Aligned_cols=52 Identities=15% Similarity=0.283 Sum_probs=45.4
Q ss_pred hCCcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhhhccccccccc
Q 001516 231 RGKVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLSNHAYLGGLLK 282 (1062)
Q Consensus 231 ~gkv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~~~~~~~~~~~ 282 (1062)
+.|++++|||.+.|+|.-+|--+|+ ....++..+.||.+-.+.--|.+....
T Consensus 2 ~~~~ti~dIA~~agVS~~TVSrvLn~~~~vs~~tr~rV~~~a~elgY~pn~~a 54 (315)
T PRK09492 2 QNKLTIKDIARLSGVGKSTVSRVLNNESGVSEETRERVEAVINQHGFSPSKSA 54 (315)
T ss_pred CCCCcHHHHHHHhCCCHHHHhHHhCCCCCCCHHHHHHHHHHHHHHCCCcCHHH
Confidence 3589999999999999999999998 567899999999999988888775543
No 76
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=42.75 E-value=72 Score=29.16 Aligned_cols=59 Identities=32% Similarity=0.250 Sum_probs=45.7
Q ss_pred chhhHHHHHHHHH--hhhhhhhhhhhHHHHHHHHHHhhHHHHhhhhcchhhHHHHHHHHHHHHHHHcc
Q 001516 545 EVEGEIIYFQHRL--LGNAFSRKRLADNLVCKAVKTLNQEIDVARGRRWDAVLVNQYLCELREAKKQG 610 (1062)
Q Consensus 545 e~e~E~~~~q~~l--l~~~~~~~~~~~~l~~~v~~~l~~e~~~~~~r~~d~~~~nq~L~~~reakkq~ 610 (1062)
.+|.|+..||.+| +..-.+ .-....+.|..|-+.+-.+--+...-+.-|++..++.++.
T Consensus 2 ~Lea~~~~Lr~rLd~~~rk~~-------~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~e 62 (69)
T PF14197_consen 2 KLEAEIATLRNRLDSLTRKNS-------VHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKE 62 (69)
T ss_pred hHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999998 333322 1224558889999999988878888999999999998776
No 77
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=41.49 E-value=23 Score=28.53 Aligned_cols=32 Identities=34% Similarity=0.554 Sum_probs=28.1
Q ss_pred HHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 223 LILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 223 ~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
.+++.|.+.|.+++.++|..+|+|+.++...|
T Consensus 4 ~il~~l~~~~~~s~~~l~~~l~~s~~tv~~~l 35 (53)
T smart00420 4 QILELLAQQGKVSVEELAELLGVSEMTIRRDL 35 (53)
T ss_pred HHHHHHHHcCCcCHHHHHHHHCCCHHHHHHHH
Confidence 46778888889999999999999999987766
No 78
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.10 E-value=12 Score=38.20 Aligned_cols=50 Identities=22% Similarity=0.502 Sum_probs=35.9
Q ss_pred CCCcCcccCCCCCCCCCEEEecccCcccccccccCcccC--CCccccccccc
Q 001516 704 HPRSCDICRRSETILNPILICSGCKVAVHLDCYRNAKES--TGPWYCELCEE 753 (1062)
Q Consensus 704 ~~~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYGi~~ip--~g~WlCd~C~~ 753 (1062)
++..|.||......++---.|.-|.+.+-..|-|-.... ...|.|.+|.-
T Consensus 64 ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 64 DDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred cCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 356799999865444445578888888888887755544 34599999964
No 79
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=41.02 E-value=23 Score=39.64 Aligned_cols=52 Identities=13% Similarity=0.261 Sum_probs=45.6
Q ss_pred hCCcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhhhccccccccc
Q 001516 231 RGKVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLSNHAYLGGLLK 282 (1062)
Q Consensus 231 ~gkv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~~~~~~~~~~~ 282 (1062)
..||+++|||.+.|+|.-+|-.+|. ....++..+.||.+-.+..-|.+....
T Consensus 4 ~~~~Ti~dIA~~agVS~~TVSr~Ln~~~~vs~~tr~~V~~~a~elgY~p~~~a 56 (342)
T PRK10014 4 AKKITIHDVALAAGVSVSTVSLVLSGKGRISTATGERVNQAIEELGFVRNRQA 56 (342)
T ss_pred CCCCcHHHHHHHhCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHhCCCcCHHH
Confidence 3579999999999999999999999 567899999999999999988775544
No 80
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=40.88 E-value=13 Score=41.63 Aligned_cols=46 Identities=30% Similarity=0.878 Sum_probs=32.9
Q ss_pred CCcccccccC-cCCeeeecCCcCccc-ccchhhhhhcCcEEEEeeCCCcccceeccCc
Q 001516 826 GIDVCCICRH-KHGICIKCNYGNCQT-TFHPTCARSAGFYLNVKSTGGNFQHKAYCEK 881 (1062)
Q Consensus 826 ~r~~C~iC~~-k~GA~IqC~~~~C~~-~FH~tCA~~aG~~~~~~~~~g~i~~~iyC~k 881 (1062)
+...-+||++ ..|-+|.|...+|.. |||..|. |+.- .+.|.| ||+.
T Consensus 219 ~e~lYCfCqqvSyGqMVaCDn~nCkrEWFH~~CV---GLk~---pPKG~W----YC~e 266 (271)
T COG5034 219 GEELYCFCQQVSYGQMVACDNANCKREWFHLECV---GLKE---PPKGKW----YCPE 266 (271)
T ss_pred CceeEEEecccccccceecCCCCCchhheecccc---ccCC---CCCCcE----eCHH
Confidence 3444556776 599999999999987 9999996 2221 344666 8864
No 81
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=39.98 E-value=23 Score=39.59 Aligned_cols=52 Identities=15% Similarity=0.256 Sum_probs=46.0
Q ss_pred hCCcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhhhccccccccc
Q 001516 231 RGKVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLSNHAYLGGLLK 282 (1062)
Q Consensus 231 ~gkv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~~~~~~~~~~~ 282 (1062)
+++++.+|||.+.|+|.-+|--+|+ ....++..+.||.+-.+..=|.+....
T Consensus 3 ~~~~ti~dIA~~agVS~~TVSrvLn~~~~vs~~tr~rV~~~a~elgY~pn~~a 55 (331)
T PRK14987 3 KKRPVLQDVADRVGVTKMTVSRFLRNPEQVSVALRGKIAAALDELGYIPNRAP 55 (331)
T ss_pred CCCCcHHHHHHHhCCCHHHhhhhhCCCCCCCHHHHHHHHHHHHHhCCCccHHH
Confidence 6889999999999999999999998 446899999999999999888775544
No 82
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=39.65 E-value=18 Score=27.31 Aligned_cols=27 Identities=26% Similarity=0.717 Sum_probs=12.2
Q ss_pred ccccccCcCC--eeeecCCcCcccccchhhh
Q 001516 829 VCCICRHKHG--ICIKCNYGNCQTTFHPTCA 857 (1062)
Q Consensus 829 ~C~iC~~k~G--A~IqC~~~~C~~~FH~tCA 857 (1062)
.|..|+...+ ..-.|. .|...+|..||
T Consensus 2 ~C~~C~~~~~~~~~Y~C~--~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCS--ECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-T--TT-----HHHH
T ss_pred cCCcCCCcCCCCceEECc--cCCCccChhcC
Confidence 5889998744 466798 99999999997
No 83
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=39.02 E-value=23 Score=33.08 Aligned_cols=34 Identities=24% Similarity=0.389 Sum_probs=26.6
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
-++||-|.+=+-|++.++|.+.|.+-|.|+++|+
T Consensus 27 r~LLr~LA~G~PVt~~~LA~a~g~~~e~v~~~L~ 60 (77)
T PF12324_consen 27 RPLLRLLAKGQPVTVEQLAAALGWPVEEVRAALA 60 (77)
T ss_dssp HHHHHHHTTTS-B-HHHHHHHHT--HHHHHHHHH
T ss_pred HHHHHHHHcCCCcCHHHHHHHHCCCHHHHHHHHH
Confidence 5677788877779999999999999999999996
No 84
>PF13518 HTH_28: Helix-turn-helix domain
Probab=38.56 E-value=22 Score=29.05 Aligned_cols=27 Identities=30% Similarity=0.570 Sum_probs=20.8
Q ss_pred HHHHHhhhCCcchhhhhhhhcCChhhhhh
Q 001516 224 ILKKLIDRGKVNVKDIASDIGISPDLLKT 252 (1062)
Q Consensus 224 ~~~kli~~gkv~~~~~a~~~g~s~~~~~a 252 (1062)
+++... +|+ ++.++|.++|||+.+|..
T Consensus 5 iv~~~~-~g~-s~~~~a~~~gis~~tv~~ 31 (52)
T PF13518_consen 5 IVELYL-EGE-SVREIAREFGISRSTVYR 31 (52)
T ss_pred HHHHHH-cCC-CHHHHHHHHCCCHhHHHH
Confidence 344444 787 999999999999987743
No 85
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=38.05 E-value=32 Score=30.74 Aligned_cols=47 Identities=19% Similarity=0.338 Sum_probs=40.3
Q ss_pred cchhhhhhhhcCChhhhhhcccc-ccccchhhHHHHHHhhhccccccc
Q 001516 234 VNVKDIASDIGISPDLLKTTLAD-GTFASDLQCKLVKWLSNHAYLGGL 280 (1062)
Q Consensus 234 v~~~~~a~~~g~s~~~~~a~l~~-~~~~~~~~~k~~~wl~~~~~~~~~ 280 (1062)
++..|||...|+|..+|--.|.+ ...+|....+|.+-++..-|.+..
T Consensus 1 ~t~~~iA~~~gvS~~TVSr~ln~~~~v~~~t~~~i~~~~~~~gy~~~~ 48 (70)
T smart00354 1 ATIKDVARLAGVSKATVSRVLNGNGRVSEETREKVLAAMEELGYIPNR 48 (70)
T ss_pred CCHHHHHHHHCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHhCCCCCH
Confidence 46789999999999999999984 456889999999999999886553
No 86
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=36.66 E-value=20 Score=31.08 Aligned_cols=22 Identities=23% Similarity=0.604 Sum_probs=19.4
Q ss_pred CcchhhhhhhhcCChhhhhhcc
Q 001516 233 KVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 233 kv~~~~~a~~~g~s~~~~~a~l 254 (1062)
+++++|||.++|||+-++.--|
T Consensus 23 ~~tl~elA~~lgis~st~~~~L 44 (53)
T PF04967_consen 23 RITLEELAEELGISKSTVSEHL 44 (53)
T ss_pred cCCHHHHHHHhCCCHHHHHHHH
Confidence 7999999999999998886655
No 87
>PF12844 HTH_19: Helix-turn-helix domain; PDB: 3LIS_B 3LFP_A 2XIU_B 2GZU_B 2XJ3_A 1UTX_A 2XI8_B 3F6W_C 3EUS_B.
Probab=36.52 E-value=43 Score=28.73 Aligned_cols=49 Identities=22% Similarity=0.241 Sum_probs=32.4
Q ss_pred HHHHHhhhCCcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhh
Q 001516 224 ILKKLIDRGKVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLS 272 (1062)
Q Consensus 224 ~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~ 272 (1062)
-||+|.+.-..+..++|..+|++.-.|..-.. ...++++.-.+|.+-|.
T Consensus 3 ~lk~~r~~~~lt~~~~a~~~~i~~~~i~~~e~g~~~~~~~~l~~i~~~~~ 52 (64)
T PF12844_consen 3 RLKELREEKGLTQKDLAEKLGISRSTISKIENGKRKPSVSTLKKIAEALG 52 (64)
T ss_dssp HHHHHHHHCT--HHHHHHHHTS-HHHHHHHHTTSS--BHHHHHHHHHHHT
T ss_pred HHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHCCCcCCCHHHHHHHHHHhC
Confidence 47889999999999999999999888777665 33455555555555443
No 88
>PHA01976 helix-turn-helix protein
Probab=35.86 E-value=62 Score=28.01 Aligned_cols=52 Identities=17% Similarity=0.164 Sum_probs=37.2
Q ss_pred chHHHHHHHhhhCCcchhhhhhhhcCChhhhhhcccc-ccccchhhHHHHHHh
Q 001516 220 NFTLILKKLIDRGKVNVKDIASDIGISPDLLKTTLAD-GTFASDLQCKLVKWL 271 (1062)
Q Consensus 220 ~~~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~-~~~~~~~~~k~~~wl 271 (1062)
+|+--||+|-++...+..++|..+|+|+.+|-.-... .....+.-.||.+.|
T Consensus 2 ~~~~rl~~~R~~~glt~~~lA~~~gvs~~~v~~~e~g~~~p~~~~l~~ia~~l 54 (67)
T PHA01976 2 SFAIQLIKARNARAWSAPELSRRAGVRHSLIYDFEADKRLPNLKTLLRLADAL 54 (67)
T ss_pred cHHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 4677789999999999999999999999888775542 222333344555444
No 89
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=35.69 E-value=39 Score=29.67 Aligned_cols=38 Identities=26% Similarity=0.542 Sum_probs=32.5
Q ss_pred CcccccccCc---CCeeeecCCcCcccccchhhhhhcCcEEEE
Q 001516 827 IDVCCICRHK---HGICIKCNYGNCQTTFHPTCARSAGFYLNV 866 (1062)
Q Consensus 827 r~~C~iC~~k---~GA~IqC~~~~C~~~FH~tCA~~aG~~~~~ 866 (1062)
..+|.+|+.+ .+..|.|. .|.+.||-.|.-..|-.+.+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp--~CgapyHR~C~~~~g~C~~~ 45 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCP--ECGAPYHRDCWEKAGGCINY 45 (54)
T ss_pred CccChhhCCcccCCCCEEECC--CCCCcccHHHHhhCCceEec
Confidence 3689999985 68899999 99999999999888877643
No 90
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=35.34 E-value=24 Score=33.08 Aligned_cols=27 Identities=19% Similarity=0.422 Sum_probs=25.2
Q ss_pred HhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 228 LIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 228 li~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
|-++|.++.++||..++++++.|+|-|
T Consensus 11 l~~~gr~s~~~Ls~~~~~p~~~VeaML 37 (78)
T PRK15431 11 LALRGRMEAAQISQTLNTPQPMINAML 37 (78)
T ss_pred HHHcCcccHHHHHHHHCcCHHHHHHHH
Confidence 456999999999999999999999998
No 91
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=34.74 E-value=32 Score=28.82 Aligned_cols=32 Identities=25% Similarity=0.554 Sum_probs=25.4
Q ss_pred HHHHHHhhhC-CcchhhhhhhhcCChhhhhhcc
Q 001516 223 LILKKLIDRG-KVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 223 ~~~~kli~~g-kv~~~~~a~~~g~s~~~~~a~l 254 (1062)
-||+-|...+ .++.+++|.++|+|.-++.-.|
T Consensus 4 ~il~~L~~~~~~it~~eLa~~l~vS~rTi~~~i 36 (55)
T PF08279_consen 4 QILKLLLESKEPITAKELAEELGVSRRTIRRDI 36 (55)
T ss_dssp HHHHHHHHTTTSBEHHHHHHHCTS-HHHHHHHH
T ss_pred HHHHHHHHcCCCcCHHHHHHHhCCCHHHHHHHH
Confidence 4677775554 4999999999999999998776
No 92
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=34.67 E-value=30 Score=38.41 Aligned_cols=34 Identities=26% Similarity=0.395 Sum_probs=31.0
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
..|+..|-..|+|+|+|+|..+|+|++++..=|.
T Consensus 10 ~~I~~~l~~~~~v~v~eLa~~~~VS~~TIRRDL~ 43 (252)
T PRK10681 10 GQLLQALKRSDKLHLKDAAALLGVSEMTIRRDLN 43 (252)
T ss_pred HHHHHHHHHcCCCcHHHHHHHhCCCHHHHHHHHH
Confidence 5688888899999999999999999999998874
No 93
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=33.86 E-value=27 Score=39.43 Aligned_cols=49 Identities=24% Similarity=0.575 Sum_probs=37.7
Q ss_pred CcCcccCCCC--C----CCCCEEEecccCcccccccccCc-----ccCCCcccccccccc
Q 001516 706 RSCDICRRSE--T----ILNPILICSGCKVAVHLDCYRNA-----KESTGPWYCELCEEL 754 (1062)
Q Consensus 706 ~~CsVC~~~E--~----~~N~IL~Cd~C~laVHq~CYGi~-----~ip~g~WlCd~C~~~ 754 (1062)
-+|+.|+... + ....+|.|+.|+.+-|.+|.-.. .+....|-|.-|++-
T Consensus 225 ~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~c 284 (336)
T KOG1244|consen 225 PYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYC 284 (336)
T ss_pred cccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeeccee
Confidence 5799999632 2 23579999999999999998643 234678999999863
No 94
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=33.84 E-value=31 Score=28.43 Aligned_cols=31 Identities=32% Similarity=0.572 Sum_probs=25.1
Q ss_pred HHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 223 LILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 223 ~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
-||+.|.+ |..++.|||.++|+|.-++---|
T Consensus 6 ~Il~~L~~-~~~~~~el~~~l~~s~~~vs~hL 36 (47)
T PF01022_consen 6 RILKLLSE-GPLTVSELAEELGLSQSTVSHHL 36 (47)
T ss_dssp HHHHHHTT-SSEEHHHHHHHHTS-HHHHHHHH
T ss_pred HHHHHHHh-CCCchhhHHHhccccchHHHHHH
Confidence 46777776 99999999999999998876544
No 95
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=33.64 E-value=26 Score=29.02 Aligned_cols=30 Identities=20% Similarity=0.639 Sum_probs=16.3
Q ss_pred cccccCcCCeeeecCCcCcccccchhhhhh
Q 001516 830 CCICRHKHGICIKCNYGNCQTTFHPTCARS 859 (1062)
Q Consensus 830 C~iC~~k~GA~IqC~~~~C~~~FH~tCA~~ 859 (1062)
|.+|+.-.-.-+.|...+|...+|..|+..
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~ 30 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKK 30 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHH
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHH
Confidence 667887544456799999999999999854
No 96
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=33.32 E-value=35 Score=37.91 Aligned_cols=50 Identities=14% Similarity=0.262 Sum_probs=43.6
Q ss_pred CcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhhhccccccccc
Q 001516 233 KVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLSNHAYLGGLLK 282 (1062)
Q Consensus 233 kv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~~~~~~~~~~~ 282 (1062)
|++++|||.+.|+|.-++--+|+ ....++..+.||.+-.+..-|.+....
T Consensus 1 ~~ti~dIA~~agVS~sTVSr~Ln~~~~vs~~tr~rV~~~a~~lgY~pn~~a 51 (311)
T TIGR02405 1 KLTIKDIARLAGVGKSTVSRVLNNEPKVSIETRERVEQVIQQSGFVPSKSA 51 (311)
T ss_pred CCcHHHHHHHhCCCHHHHHHHhCCCCCCCHHHHHHHHHHHHHHCCCcCHHH
Confidence 78999999999999999999998 456889999999999998888775543
No 97
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=33.29 E-value=20 Score=32.39 Aligned_cols=32 Identities=28% Similarity=0.593 Sum_probs=12.5
Q ss_pred CcCcccCCCCC--CCCCEEEec--ccCccccccccc
Q 001516 706 RSCDICRRSET--ILNPILICS--GCKVAVHLDCYR 737 (1062)
Q Consensus 706 ~~CsVC~~~E~--~~N~IL~Cd--~C~laVHq~CYG 737 (1062)
..|.||..... ..-+.+.|. .|+..+|..|..
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~ 38 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLS 38 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGH
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHH
Confidence 56999998643 223568998 899999999984
No 98
>PRK09726 antitoxin HipB; Provisional
Probab=33.19 E-value=64 Score=30.04 Aligned_cols=59 Identities=12% Similarity=0.106 Sum_probs=44.1
Q ss_pred CcchHHHHHHHhhhCCcchhhhhhhhcCChhhhhhcccc-ccccchhhHHHHHHhhhccc
Q 001516 218 ALNFTLILKKLIDRGKVNVKDIASDIGISPDLLKTTLAD-GTFASDLQCKLVKWLSNHAY 276 (1062)
Q Consensus 218 ~~~~~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~-~~~~~~~~~k~~~wl~~~~~ 276 (1062)
...++--||+|..+..++..++|..+|||+.+|-.-... .....+.-.+|.+.|.=.+.
T Consensus 10 ~~~l~~~lk~~R~~~gltq~elA~~~gvs~~tis~~e~g~~~ps~~~l~~ia~~lgv~~~ 69 (88)
T PRK09726 10 PTQLANAMKLVRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLELSMT 69 (88)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHCCCCCCCHHHHHHHHHHcCCCcc
Confidence 346777899999999999999999999999999876653 23445555666666654443
No 99
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=32.36 E-value=16 Score=34.28 Aligned_cols=32 Identities=41% Similarity=0.997 Sum_probs=26.3
Q ss_pred ccccccccc-cCceeeCCC------------CCCCcccchhhhhh
Q 001516 57 LVCNICRVK-CGACVRCSH------------GTCRTSFHPICARE 88 (1062)
Q Consensus 57 LkC~iC~~k-~GAcIqCs~------------~~C~~~FHvtCA~~ 88 (1062)
-.|.||+.. .|.|++|.. |.|.-+||.-|-..
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~r 65 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYR 65 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHH
Confidence 479999865 799999987 46889999999743
No 100
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=31.82 E-value=30 Score=26.31 Aligned_cols=27 Identities=41% Similarity=0.968 Sum_probs=21.3
Q ss_pred ccccccCc-CCe-eeecCCcCcccccchhhh
Q 001516 829 VCCICRHK-HGI-CIKCNYGNCQTTFHPTCA 857 (1062)
Q Consensus 829 ~C~iC~~k-~GA-~IqC~~~~C~~~FH~tCA 857 (1062)
.|.+|++. .|- .-.|. .|...+|+.||
T Consensus 2 ~C~~C~~~~~~~~~Y~C~--~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCS--ECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeC--CCCCeEcCccC
Confidence 58899886 455 56796 78899999997
No 101
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=31.66 E-value=11 Score=35.20 Aligned_cols=50 Identities=24% Similarity=0.551 Sum_probs=23.9
Q ss_pred CCCcCcccCCCC--C-CCCCEEEecccCcccccccccCcccCCCcccccccccc
Q 001516 704 HPRSCDICRRSE--T-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 754 (1062)
Q Consensus 704 ~~~~CsVC~~~E--~-~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~ 754 (1062)
+...|.||.+.- + .++.++-|..|+..|-..||--. ..+|.-.|..|...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYE-rkeg~q~CpqCkt~ 60 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYE-RKEGNQVCPQCKTR 60 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHH-HHTS-SB-TTT--B
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHH-hhcCcccccccCCC
Confidence 346899999842 2 47789999999999999999532 34677889999754
No 102
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=30.86 E-value=20 Score=33.77 Aligned_cols=33 Identities=42% Similarity=1.092 Sum_probs=26.4
Q ss_pred cccccccCc-CCeeeecCC------------cCcccccchhhhhhc
Q 001516 828 DVCCICRHK-HGICIKCNY------------GNCQTTFHPTCARSA 860 (1062)
Q Consensus 828 ~~C~iC~~k-~GA~IqC~~------------~~C~~~FH~tCA~~a 860 (1062)
..|.||+.. .|.|++|.. +.|..+||..|-.+-
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rW 66 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRW 66 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHH
Confidence 578888874 788888876 468889999998653
No 103
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=30.76 E-value=47 Score=29.20 Aligned_cols=25 Identities=40% Similarity=0.682 Sum_probs=22.0
Q ss_pred hhCCcchhhhhhhhcCChhhhhhcc
Q 001516 230 DRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 230 ~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
+.+.|+.+|||..+|+||-|+...|
T Consensus 19 ~~~~v~~~~iA~~L~vs~~tvt~ml 43 (60)
T PF01325_consen 19 EGGPVRTKDIAERLGVSPPTVTEML 43 (60)
T ss_dssp CTSSBBHHHHHHHHTS-HHHHHHHH
T ss_pred CCCCccHHHHHHHHCCChHHHHHHH
Confidence 6889999999999999999998776
No 104
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=30.53 E-value=20 Score=44.50 Aligned_cols=30 Identities=30% Similarity=0.765 Sum_probs=25.4
Q ss_pred cccccccccccCce---eeCCCCCCCcccchhhhhh
Q 001516 56 KLVCNICRVKCGAC---VRCSHGTCRTSFHPICARE 88 (1062)
Q Consensus 56 ~LkC~iC~~k~GAc---IqCs~~~C~~~FHvtCA~~ 88 (1062)
...|+.|+++ |.. |+|. .|.++||.+|--.
T Consensus 253 ~~fCsaCn~~-~~F~~~i~CD--~Cp~sFH~~CLeP 285 (613)
T KOG4299|consen 253 EDFCSACNGS-GLFNDIICCD--GCPRSFHQTCLEP 285 (613)
T ss_pred HHHHHHhCCc-cccccceeec--CCchHHHHhhcCC
Confidence 4589999975 888 9998 5999999999754
No 105
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=30.33 E-value=47 Score=27.41 Aligned_cols=21 Identities=19% Similarity=0.544 Sum_probs=19.3
Q ss_pred chhhhhhhhcCChhhhhhccc
Q 001516 235 NVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 235 ~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
++.++|..+|+|..++..+|.
T Consensus 22 s~~~la~~~~vs~~tv~~~l~ 42 (60)
T smart00345 22 SERELAAQLGVSRTTVREALS 42 (60)
T ss_pred CHHHHHHHHCCCHHHHHHHHH
Confidence 899999999999999998873
No 106
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=30.07 E-value=39 Score=37.69 Aligned_cols=34 Identities=32% Similarity=0.513 Sum_probs=30.6
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
..||+-|..+|+|+|+|+|..+|+|++++.-=|.
T Consensus 8 ~~Il~~l~~~g~v~v~eLa~~~~VS~~TIRRDL~ 41 (253)
T COG1349 8 QKILELLKEKGKVSVEELAELFGVSEMTIRRDLN 41 (253)
T ss_pred HHHHHHHHHcCcEEHHHHHHHhCCCHHHHHHhHH
Confidence 5688888899999999999999999999998663
No 107
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=30.02 E-value=40 Score=35.96 Aligned_cols=35 Identities=31% Similarity=0.435 Sum_probs=31.5
Q ss_pred hHHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 221 FTLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 221 ~~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
--.||.-|+.+|-++..|+|.++||+...|.-.|.
T Consensus 24 ~~~Vl~~L~~~g~~tdeeLA~~Lgi~~~~VRk~L~ 58 (178)
T PRK06266 24 GFEVLKALIKKGEVTDEEIAEQTGIKLNTVRKILY 58 (178)
T ss_pred HhHHHHHHHHcCCcCHHHHHHHHCCCHHHHHHHHH
Confidence 36788899999999999999999999999988873
No 108
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=29.87 E-value=27 Score=27.90 Aligned_cols=25 Identities=28% Similarity=0.541 Sum_probs=17.4
Q ss_pred hCCcchhhhhhhhcCChhhhhhccc
Q 001516 231 RGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 231 ~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
+-+.+|+|||..+|+|+..+.....
T Consensus 6 ~~~~~l~~iA~~~g~S~~~f~r~Fk 30 (42)
T PF00165_consen 6 QQKLTLEDIAEQAGFSPSYFSRLFK 30 (42)
T ss_dssp -SS--HHHHHHHHTS-HHHHHHHHH
T ss_pred cCCCCHHHHHHHHCCCHHHHHHHHH
Confidence 4468999999999999888876654
No 109
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=29.86 E-value=44 Score=37.39 Aligned_cols=49 Identities=18% Similarity=0.287 Sum_probs=43.7
Q ss_pred CcchhhhhhhhcCChhhhhhccccc---cccchhhHHHHHHhhhcccccccc
Q 001516 233 KVNVKDIASDIGISPDLLKTTLADG---TFASDLQCKLVKWLSNHAYLGGLL 281 (1062)
Q Consensus 233 kv~~~~~a~~~g~s~~~~~a~l~~~---~~~~~~~~k~~~wl~~~~~~~~~~ 281 (1062)
+++++|||...|+|.-++--+|+.- ..++..+.||.+-.+..-|.+...
T Consensus 1 ~~ti~dIA~~agVS~~TVSrvln~~~~~~vs~~tr~rV~~~a~~lgY~pn~~ 52 (327)
T PRK10339 1 MATLKDIAIEAGVSLATVSRVLNDDPTLNVKEETKHRILEIAEKLEYKTSSA 52 (327)
T ss_pred CCCHHHHHHHhCCCHHhhhhhhcCCCCCCcCHHHHHHHHHHHHHhCCCCchh
Confidence 4799999999999999999999844 389999999999999999987753
No 110
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=29.20 E-value=31 Score=41.81 Aligned_cols=46 Identities=20% Similarity=0.432 Sum_probs=36.9
Q ss_pred cccCCCCCCCCCEEEecccCcccccccccCcccCC-Ccccccccccc
Q 001516 709 DICRRSETILNPILICSGCKVAVHLDCYRNAKEST-GPWYCELCEEL 754 (1062)
Q Consensus 709 sVC~~~E~~~N~IL~Cd~C~laVHq~CYGi~~ip~-g~WlCd~C~~~ 754 (1062)
++|...+...+.++.|+.|..--|..|+|+..... ..+.|..|...
T Consensus 89 c~c~~~~~~~g~~i~c~~c~~Wqh~~C~g~~~~~~p~~y~c~~c~~~ 135 (508)
T KOG1844|consen 89 CDCGLEDDMEGLMIQCDWCGRWQHKICCGSFKSTKPDKYVCEICTPR 135 (508)
T ss_pred cccccccCCCceeeCCcccCcccCceeeeecCCCCchhceeeeeccc
Confidence 46776544368899999999999999999876554 67999999765
No 111
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=29.00 E-value=19 Score=30.47 Aligned_cols=31 Identities=29% Similarity=0.685 Sum_probs=19.9
Q ss_pred cCcccCCCCCCCCCEE-Eec--ccCccccccccc
Q 001516 707 SCDICRRSETILNPIL-ICS--GCKVAVHLDCYR 737 (1062)
Q Consensus 707 ~CsVC~~~E~~~N~IL-~Cd--~C~laVHq~CYG 737 (1062)
+|-||++.+...+.++ -|. +--..||+.|.-
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~ 34 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLE 34 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHH
Confidence 4899998444455554 333 333679999973
No 112
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=28.13 E-value=42 Score=42.69 Aligned_cols=30 Identities=30% Similarity=0.893 Sum_probs=22.6
Q ss_pred cccccccCcCCeeeecCCcCcccccchhhhhhc
Q 001516 828 DVCCICRHKHGICIKCNYGNCQTTFHPTCARSA 860 (1062)
Q Consensus 828 ~~C~iC~~k~GA~IqC~~~~C~~~FH~tCA~~a 860 (1062)
..|.+|... |-.+-|. .|..+||..|...-
T Consensus 48 e~c~ic~~~-g~~l~c~--tC~~s~h~~cl~~p 77 (696)
T KOG0383|consen 48 EACRICADG-GELLWCD--TCPASFHASCLGPP 77 (696)
T ss_pred hhhhhhcCC-CcEEEec--cccHHHHHHccCCC
Confidence 568888874 7777788 88888888887443
No 113
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=27.98 E-value=45 Score=29.48 Aligned_cols=35 Identities=26% Similarity=0.558 Sum_probs=29.2
Q ss_pred hHHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 221 FTLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 221 ~~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
++-|..-|+.+|..++.+|....++++..+..+|+
T Consensus 15 ~~~V~~~Ll~~G~ltl~~i~~~t~l~~~~Vk~~L~ 49 (62)
T PF08221_consen 15 VAKVGEVLLSRGRLTLREIVRRTGLSPKQVKKALV 49 (62)
T ss_dssp HHHHHHHHHHC-SEEHHHHHHHHT--HHHHHHHHH
T ss_pred HHHHHHHHHHcCCcCHHHHHHHhCCCHHHHHHHHH
Confidence 37788889999999999999999999999999985
No 114
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=27.58 E-value=45 Score=34.82 Aligned_cols=34 Identities=24% Similarity=0.373 Sum_probs=31.4
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
-.|+..|+..|.++..|||.++||+.-.|...|.
T Consensus 17 v~Vl~aL~~~~~~tdEeLa~~Lgi~~~~VRk~L~ 50 (158)
T TIGR00373 17 GLVLFSLGIKGEFTDEEISLELGIKLNEVRKALY 50 (158)
T ss_pred HHHHHHHhccCCCCHHHHHHHHCCCHHHHHHHHH
Confidence 6789999999999999999999999999998874
No 115
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=27.41 E-value=51 Score=36.96 Aligned_cols=51 Identities=14% Similarity=0.204 Sum_probs=44.9
Q ss_pred CcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhhhcccccccccc
Q 001516 233 KVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLSNHAYLGGLLKN 283 (1062)
Q Consensus 233 kv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~~~~~~~~~~~~ 283 (1062)
+++++|||.+.|+|.-++--+|. ....++..+.||.+-.+..=|.+.....
T Consensus 1 ~~Ti~dIA~~agVS~~TVSrvLn~~~~vs~~tr~~V~~~a~elgY~pn~~a~ 52 (341)
T PRK10703 1 MATIKDVAKRAGVSTTTVSHVINKTRFVAEETRNAVWAAIKELHYSPSAVAR 52 (341)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHHCCCcCHHHH
Confidence 47899999999999999999998 4568999999999999999998865543
No 116
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=27.37 E-value=20 Score=45.26 Aligned_cols=67 Identities=24% Similarity=0.350 Sum_probs=54.5
Q ss_pred CCCCCcHhhhhhcccCceeeccCccccccccccCchhhhccccccccccccCceeeCCCCCCCcccchhhhhh
Q 001516 16 GGSMEFAHLFCSLLMPEVYIEDTMKVEPLMNVGGIKETRMKLVCNICRVKCGACVRCSHGTCRTSFHPICARE 88 (1062)
Q Consensus 16 ~G~~~WvHv~CALw~PEv~f~~~~~~epV~~V~~I~~~R~~LkC~iC~~k~GAcIqCs~~~C~~~FHvtCA~~ 88 (1062)
+++..-+|+.|.+|.+.++-...+. +....+.+.+...|.+|+.+ |+=.+|-.+.|...||++||+.
T Consensus 328 ~~~~~~~~v~~~~d~~~v~d~cs~~-----~~~~~l~r~~~~~~~~c~l~-~~h~~~~~~s~~~~~~~~~a~~ 394 (684)
T KOG4362|consen 328 NGNVRKPSVAVSDDDEQVLDECSTS-----GKECELGRSFPITCEDCKLK-GAHLGCLEKSCGSSEHVKCARG 394 (684)
T ss_pred CccccccccccccchHHHHHhcccc-----ccccccccCCcceeeecccc-chhhhhhhcccccceeeeeccc
Confidence 4456789999999999887654333 23356778888999999976 9999999999999999999954
No 117
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=27.14 E-value=28 Score=29.52 Aligned_cols=23 Identities=22% Similarity=0.521 Sum_probs=19.5
Q ss_pred CCcchhhhhhhhcCChhhhhhcc
Q 001516 232 GKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 232 gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
.+++|.|+|.++|+++..|-..|
T Consensus 2 ~~i~V~elAk~l~v~~~~ii~~l 24 (54)
T PF04760_consen 2 EKIRVSELAKELGVPSKEIIKKL 24 (54)
T ss_dssp -EE-TTHHHHHHSSSHHHHHHHH
T ss_pred CceEHHHHHHHHCcCHHHHHHHH
Confidence 46899999999999999998887
No 118
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=26.72 E-value=39 Score=27.92 Aligned_cols=30 Identities=27% Similarity=0.709 Sum_probs=16.7
Q ss_pred ccccccccCceeeCCCCCCCcccchhhhhh
Q 001516 59 CNICRVKCGACVRCSHGTCRTSFHPICARE 88 (1062)
Q Consensus 59 C~iC~~k~GAcIqCs~~~C~~~FHvtCA~~ 88 (1062)
|.+|+.-.-.-+.|....|...+|..|+..
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~ 30 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKK 30 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHH
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHH
Confidence 677876555567999999999999999954
No 119
>COG2522 Predicted transcriptional regulator [General function prediction only]
Probab=26.57 E-value=55 Score=32.96 Aligned_cols=33 Identities=24% Similarity=0.395 Sum_probs=29.2
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
+++-+.||++ ..|..+||..+|||+-+|-.-|-
T Consensus 12 a~lA~~L~ee-G~Sq~~iA~LLGltqaAVS~Yls 44 (119)
T COG2522 12 ALLAKELIEE-GLSQYRIAKLLGLTQAAVSQYLS 44 (119)
T ss_pred HHHHHHHHHc-CCcHHHHHHHhCCCHHHHHHHHc
Confidence 6778899999 79999999999999999877664
No 120
>PF13764 E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4
Probab=26.01 E-value=1.9e+02 Score=37.89 Aligned_cols=30 Identities=20% Similarity=0.358 Sum_probs=21.2
Q ss_pred CCCCCCCcCcccCCCCC-C----CCCEEEecccCc
Q 001516 700 FSKEHPRSCDICRRSET-I----LNPILICSGCKV 729 (1062)
Q Consensus 700 ~~ke~~~~CsVC~~~E~-~----~N~IL~Cd~C~l 729 (1062)
...+....|+||+++-. . .+...|+.+|.+
T Consensus 463 l~ee~gl~C~ICrEGy~~~p~~~lGiY~f~kr~~l 497 (802)
T PF13764_consen 463 LEEEDGLTCCICREGYKFRPDEVLGIYAFSKRVNL 497 (802)
T ss_pred ccccCCCeEEEcCCccccCCccceeeEEEeecccc
Confidence 33467789999998642 2 344568888988
No 121
>PRK05472 redox-sensing transcriptional repressor Rex; Provisional
Probab=25.74 E-value=45 Score=35.92 Aligned_cols=34 Identities=26% Similarity=0.534 Sum_probs=30.6
Q ss_pred HHHHHHHhhhC--CcchhhhhhhhcCChhhhhhccc
Q 001516 222 TLILKKLIDRG--KVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 222 ~~~~~kli~~g--kv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
..+|+.|..+| .|+++++|...|+|+.++..=|.
T Consensus 19 ~~il~~l~~~~~~~vs~~~L~~~~~v~~~tirrDl~ 54 (213)
T PRK05472 19 YRYLKELKEEGVERVSSKELAEALGVDSAQIRKDLS 54 (213)
T ss_pred HHHHHHHHHcCCcEEeHHHHHHHhCcCHHHHHHHHH
Confidence 56899999999 99999999999999988887664
No 122
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=25.22 E-value=58 Score=36.72 Aligned_cols=50 Identities=18% Similarity=0.280 Sum_probs=43.7
Q ss_pred CcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhhhccccccccc
Q 001516 233 KVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLSNHAYLGGLLK 282 (1062)
Q Consensus 233 kv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~~~~~~~~~~~ 282 (1062)
+++++|||.+.|+|.-+|--+|+ ....++..+-||.+=.+..=|.+....
T Consensus 1 ~~ti~dIA~~aGVS~~TVSrvLn~~~~Vs~~tr~kV~~~a~elgY~pn~~a 51 (346)
T PRK10401 1 MITIRDVARQAGVSVATVSRVLNNSALVSADTREAVMKAVSELGYRPNANA 51 (346)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCHHH
Confidence 47899999999999999999998 456899999999999999888765543
No 123
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=25.19 E-value=59 Score=36.63 Aligned_cols=51 Identities=12% Similarity=0.122 Sum_probs=45.1
Q ss_pred CcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhhhcccccccccc
Q 001516 233 KVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLSNHAYLGGLLKN 283 (1062)
Q Consensus 233 kv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~~~~~~~~~~~~ 283 (1062)
+++++|||.+.|+|.-+|--+|+ ....++....||.+-.+..=|.+.....
T Consensus 1 ~~ti~dIA~~aGVS~~TVSrvLn~~~~Vs~~tr~rV~~~a~elgY~pn~~ar 52 (343)
T PRK10727 1 MATIKDVARLAGVSVATVSRVINNSPKASEASRLAVHSAMESLSYHPNANAR 52 (343)
T ss_pred CCCHHHHHHHhCCCHHHHHHHhCCCCCCCHHHHHHHHHHHHHHCCCCCHHHH
Confidence 47899999999999999999998 5679999999999999999998766543
No 124
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=25.09 E-value=1.2e+02 Score=29.51 Aligned_cols=53 Identities=13% Similarity=0.142 Sum_probs=39.7
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhccccccccchhhHHHHHHhhhc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLADGTFASDLQCKLVKWLSNH 274 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~~~~~~~~~~k~~~wl~~~ 274 (1062)
..-||.+..+-..+-.++|..+|+|+.+|..-.......+.-..+|+++|..+
T Consensus 67 ~~~i~~~r~~~gltq~~lA~~lg~~~~tis~~e~g~~~p~~~~~~l~~~l~~~ 119 (127)
T TIGR03830 67 PPEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSKALDKLLRLLDKH 119 (127)
T ss_pred HHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHC
Confidence 44578888888999999999999999999777654443334456677776655
No 125
>PRK09526 lacI lac repressor; Reviewed
Probab=25.07 E-value=62 Score=36.26 Aligned_cols=53 Identities=15% Similarity=0.201 Sum_probs=45.8
Q ss_pred hCCcchhhhhhhhcCChhhhhhccc-cccccchhhHHHHHHhhhcccccccccc
Q 001516 231 RGKVNVKDIASDIGISPDLLKTTLA-DGTFASDLQCKLVKWLSNHAYLGGLLKN 283 (1062)
Q Consensus 231 ~gkv~~~~~a~~~g~s~~~~~a~l~-~~~~~~~~~~k~~~wl~~~~~~~~~~~~ 283 (1062)
.++|+++|||.+.|+|.-+|--+|+ ....++..+.||.+=.+..=|.+.....
T Consensus 3 ~~~~ti~dIA~~aGVS~~TVSrvLn~~~~vs~~tr~rV~~~a~elgY~pn~~a~ 56 (342)
T PRK09526 3 SKPVTLYDVARYAGVSYQTVSRVLNQASHVSAKTREKVEAAMAELNYVPNRVAQ 56 (342)
T ss_pred CCCCcHHHHHHHhCCCHHHHHHHhcCCCCCCHHHHHHHHHHHHHHCCCcCHHHH
Confidence 3679999999999999999999998 4558899999999999998887765543
No 126
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=24.53 E-value=50 Score=34.27 Aligned_cols=33 Identities=21% Similarity=0.433 Sum_probs=29.5
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
--||..|.+-|.++..+||.++|+|+-++..-+
T Consensus 17 ~~IL~~Lq~d~R~s~~eiA~~lglS~~tv~~Ri 49 (164)
T PRK11169 17 RNILNELQKDGRISNVELSKRVGLSPTPCLERV 49 (164)
T ss_pred HHHHHHhccCCCCCHHHHHHHHCcCHHHHHHHH
Confidence 567889999999999999999999999887665
No 127
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=24.22 E-value=57 Score=31.08 Aligned_cols=29 Identities=28% Similarity=0.515 Sum_probs=24.4
Q ss_pred HHHHHHhhhCCcchhhhhhhhcCChhhhhh
Q 001516 223 LILKKLIDRGKVNVKDIASDIGISPDLLKT 252 (1062)
Q Consensus 223 ~~~~kli~~gkv~~~~~a~~~g~s~~~~~a 252 (1062)
.-+.+|+++|+ +.++||..+|||.-++.-
T Consensus 41 ~~I~~ll~~G~-S~~eIA~~LgISrsTIyR 69 (88)
T TIGR02531 41 LQVAKMLKQGK-TYSDIEAETGASTATISR 69 (88)
T ss_pred HHHHHHHHCCC-CHHHHHHHHCcCHHHHHH
Confidence 44566788886 999999999999998865
No 128
>KOG0696 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=24.11 E-value=31 Score=41.33 Aligned_cols=33 Identities=24% Similarity=0.491 Sum_probs=27.3
Q ss_pred CCcCcccCCCC-CCCCCEEEecccCccccccccc
Q 001516 705 PRSCDICRRSE-TILNPILICSGCKVAVHLDCYR 737 (1062)
Q Consensus 705 ~~~CsVC~~~E-~~~N~IL~Cd~C~laVHq~CYG 737 (1062)
..+|+-|.+.- .-+-+-++|.-|...||+.|.-
T Consensus 56 PTfCsHCkDFiwGfgKQGfQCqvC~fvvHkrChe 89 (683)
T KOG0696|consen 56 PTFCSHCKDFIWGFGKQGFQCQVCCFVVHKRCHE 89 (683)
T ss_pred CchhhhhhhheeccccCceeeeEEeehhhhhhcc
Confidence 36899999864 2367889999999999999983
No 129
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=24.04 E-value=48 Score=40.02 Aligned_cols=20 Identities=25% Similarity=0.783 Sum_probs=14.8
Q ss_pred CcCcccCCCCCCCCCEEEecccCccc
Q 001516 706 RSCDICRRSETILNPILICSGCKVAV 731 (1062)
Q Consensus 706 ~~CsVC~~~E~~~N~IL~Cd~C~laV 731 (1062)
-.|.||-...+ ||..|-..+
T Consensus 114 c~C~iC~~~~g------FC~~C~C~i 133 (446)
T PF07227_consen 114 CDCKICCSEPG------FCRRCMCCI 133 (446)
T ss_pred cCcchhcCCCC------ccccCCccc
Confidence 56999987554 898886655
No 130
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=24.02 E-value=62 Score=31.77 Aligned_cols=62 Identities=24% Similarity=0.595 Sum_probs=40.7
Q ss_pred CCCCCcCcccCCCCCCCCCEEEe------cccCcccccccccCc---------c-cCCCccccccccccccCCCCCCCCC
Q 001516 702 KEHPRSCDICRRSETILNPILIC------SGCKVAVHLDCYRNA---------K-ESTGPWYCELCEELLSSRSSGAPSV 765 (1062)
Q Consensus 702 ke~~~~CsVC~~~E~~~N~IL~C------d~C~laVHq~CYGi~---------~-ip~g~WlCd~C~~~~~~~~s~~s~v 765 (1062)
......|-.|+.... +..+.| ..|...-=+.||+-. + ..+..|.|..|...
T Consensus 4 ~~~g~~CHqCrqKt~--~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi----------- 70 (105)
T PF10497_consen 4 SVNGKTCHQCRQKTL--DFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI----------- 70 (105)
T ss_pred CCCCCCchhhcCCCC--CCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCe-----------
Confidence 345678999998553 555678 778333335666531 1 23678999999864
Q ss_pred CccCCCCcccccccCCCCCC
Q 001516 766 NFWEKPYFVAECSLCGGTTG 785 (1062)
Q Consensus 766 n~~~~p~~~~~C~LCp~~gG 785 (1062)
-.|.+|.+..|
T Consensus 71 ---------CnCs~Crrk~g 81 (105)
T PF10497_consen 71 ---------CNCSFCRRKRG 81 (105)
T ss_pred ---------eCCHhhhccCC
Confidence 57888877654
No 131
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=23.85 E-value=36 Score=40.91 Aligned_cols=46 Identities=17% Similarity=0.408 Sum_probs=29.0
Q ss_pred CcCcccCCC-CCCCCCEEEecccCcccccccccCcccCCCcccccccccccc
Q 001516 706 RSCDICRRS-ETILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEELLS 756 (1062)
Q Consensus 706 ~~CsVC~~~-E~~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~~~ 756 (1062)
..|.||+.. +.. -..|.=--|+-++|-.|.-.- +.--|+.|.+...
T Consensus 176 PTCpVCLERMD~s-~~gi~t~~c~Hsfh~~cl~~w----~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 176 PTCPVCLERMDSS-TTGILTILCNHSFHCSCLMKW----WDSSCPVCRYCQS 222 (493)
T ss_pred CCcchhHhhcCcc-ccceeeeecccccchHHHhhc----ccCcChhhhhhcC
Confidence 469999963 332 233445679999999996321 2234777776644
No 132
>TIGR00180 parB_part ParB-like partition proteins. This model represents the most well-conserved core of a set of chromosomal and plasmid partition proteins related to ParB, including Spo0J, RepB, and SopB. Spo0J has been shown to bind a specific DNA sequence that, when introduced into a plasmid, can serve as partition site. Study of RepB, which has nicking-closing activity, suggests that it forms a transient protein-DNA covalent intermediate during the strand transfer reaction.
Probab=23.71 E-value=67 Score=34.02 Aligned_cols=52 Identities=19% Similarity=0.273 Sum_probs=42.0
Q ss_pred CCcchHHHHHHHhhhCCcchhhhhhhhcCChhhhhhccccccccchhhHHHH
Q 001516 217 DALNFTLILKKLIDRGKVNVKDIASDIGISPDLLKTTLADGTFASDLQCKLV 268 (1062)
Q Consensus 217 ~~~~~~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~~~~~~~~~~k~~ 268 (1062)
...+.+...++|++.+..+.++||..+|+|...|...|.=..+.+.++-.+-
T Consensus 104 t~~e~a~~~~~l~~~~g~s~~~iA~~lg~s~~~V~r~l~l~~lp~~v~~~~~ 155 (187)
T TIGR00180 104 SPIEEAQAYKRLLEKFSMTQEDLAKKIGKSRAHITNLLRLLKLPSEIQSAIP 155 (187)
T ss_pred CHHHHHHHHHHHHHHhCCCHHHHHHHHCcCHHHHHHHHHHHcCCHHHHHHHH
Confidence 4456788999999887889999999999999999999875556666665543
No 133
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=23.38 E-value=50 Score=43.79 Aligned_cols=50 Identities=26% Similarity=0.584 Sum_probs=39.3
Q ss_pred CCCcCcccCCCC--C-CCCCEEEecccCcccccccccCcccCCCcccccccccc
Q 001516 704 HPRSCDICRRSE--T-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 754 (1062)
Q Consensus 704 ~~~~CsVC~~~E--~-~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~ 754 (1062)
+...|.||++.- + .++..|-|.-|+..|-..||- .+..+|.=.|..|+.-
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~eG~q~CPqCktr 68 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERKDGNQSCPQCKTK 68 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhhcCCccCCccCCc
Confidence 346899999852 2 467899999999999999992 3345788899999654
No 134
>PLN02400 cellulose synthase
Probab=22.86 E-value=61 Score=43.10 Aligned_cols=49 Identities=24% Similarity=0.599 Sum_probs=38.9
Q ss_pred CCcCcccCCCC--C-CCCCEEEecccCcccccccccCcccCCCcccccccccc
Q 001516 705 PRSCDICRRSE--T-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 754 (1062)
Q Consensus 705 ~~~CsVC~~~E--~-~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~ 754 (1062)
...|.||++.- + +++..|-|..|...|-.-||- .+..+|.=.|..|+..
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-YERkeGnq~CPQCkTr 87 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-YERKDGTQCCPQCKTR 87 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhh-eecccCCccCcccCCc
Confidence 45899999852 2 467899999999999999993 3345788899999654
No 135
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=22.83 E-value=33 Score=27.70 Aligned_cols=30 Identities=20% Similarity=0.458 Sum_probs=22.9
Q ss_pred cCcccCCCCCCCCCEEEecccCccccccccc
Q 001516 707 SCDICRRSETILNPILICSGCKVAVHLDCYR 737 (1062)
Q Consensus 707 ~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYG 737 (1062)
.|.||++.-...+.++... |+=.+|..|..
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~ 31 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIK 31 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHH
Confidence 5999998543356666666 99999999974
No 136
>PF05043 Mga: Mga helix-turn-helix domain; InterPro: IPR007737 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions []. The family also contains VirR like proteins which match only at the C terminus of the alignment.; PDB: 3SQN_A.
Probab=22.68 E-value=79 Score=29.01 Aligned_cols=43 Identities=28% Similarity=0.387 Sum_probs=33.3
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhccccccccchhhHHHHHHhhhc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLADGTFASDLQCKLVKWLSNH 274 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~~~~~~~~~~k~~~wl~~~ 274 (1062)
-.+++-|+.++.+++.++|.+++||.-++..-+ .+|-+||+..
T Consensus 19 ~~ll~~ll~~~~~s~~~la~~~~iS~sti~~~i----------~~l~~~l~~~ 61 (87)
T PF05043_consen 19 YQLLKLLLNNEYVSIEDLAEELFISRSTIYRDI----------KKLNKYLKKY 61 (87)
T ss_dssp HHHHHHHHH-SEEEHHHHHHHHT--HHHHHHHH----------HHHHHHHHCC
T ss_pred HHHHHHHHcCCCcCHHHHHHHHCCCHHHHHHHH----------HHHHHHHHHc
Confidence 457788889999999999999999999998877 4667777743
No 137
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=22.55 E-value=64 Score=27.95 Aligned_cols=42 Identities=21% Similarity=0.351 Sum_probs=0.0
Q ss_pred CcchhhhhhhhcCChhhhhhccc---cccccchhh----HHHHHHhhhc
Q 001516 233 KVNVKDIASDIGISPDLLKTTLA---DGTFASDLQ----CKLVKWLSNH 274 (1062)
Q Consensus 233 kv~~~~~a~~~g~s~~~~~a~l~---~~~~~~~~~----~k~~~wl~~~ 274 (1062)
++++++||.++|+|+..|...+. ..++..-++ .+++.||.++
T Consensus 1 ~~~~~~la~~~~~s~~~l~~~f~~~~~~s~~~~~~~~r~~~a~~~l~~~ 49 (84)
T smart00342 1 PLTLEDLAEALGMSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDT 49 (84)
T ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHcC
No 138
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=22.44 E-value=78 Score=27.50 Aligned_cols=33 Identities=21% Similarity=0.407 Sum_probs=28.6
Q ss_pred HHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 223 LILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 223 ~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
.+|.-|++.+..+++++|..+|+|.-+|..-+.
T Consensus 9 ~Ll~~L~~~~~~~~~ela~~l~~S~rti~~~i~ 41 (59)
T PF08280_consen 9 KLLELLLKNKWITLKELAKKLNISERTIKNDIN 41 (59)
T ss_dssp HHHHHHHHHTSBBHHHHHHHCTS-HHHHHHHHH
T ss_pred HHHHHHHcCCCCcHHHHHHHHCCCHHHHHHHHH
Confidence 467889999999999999999999999988764
No 139
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=22.37 E-value=68 Score=30.39 Aligned_cols=32 Identities=22% Similarity=0.560 Sum_probs=28.7
Q ss_pred HHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 223 LILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 223 ~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
-||+.|-+.|.++..+||.++|+|+.++...|
T Consensus 7 ~il~~L~~~~~~~~~~la~~l~~s~~tv~~~l 38 (108)
T smart00344 7 KILEELQKDARISLAELAKKVGLSPSTVHNRV 38 (108)
T ss_pred HHHHHHHHhCCCCHHHHHHHHCcCHHHHHHHH
Confidence 57788888899999999999999999998776
No 140
>KOG0695 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=22.33 E-value=33 Score=40.10 Aligned_cols=35 Identities=26% Similarity=0.471 Sum_probs=28.6
Q ss_pred CCcCcccCCCC-CCCCCEEEecccCcccccccccCc
Q 001516 705 PRSCDICRRSE-TILNPILICSGCKVAVHLDCYRNA 739 (1062)
Q Consensus 705 ~~~CsVC~~~E-~~~N~IL~Cd~C~laVHq~CYGi~ 739 (1062)
...|.||.+.- ..+-+-..|-+|.+.||..|.+..
T Consensus 141 r~~c~ic~d~iwglgrqgyrcinckl~vhkkch~~v 176 (593)
T KOG0695|consen 141 RAYCGICSDRIWGLGRQGYRCINCKLLVHKKCHGLV 176 (593)
T ss_pred ceeeeechhhhhhcccccceeecceeehhhhhcccc
Confidence 46799999753 246678899999999999999754
No 141
>PRK10072 putative transcriptional regulator; Provisional
Probab=21.90 E-value=1.1e+02 Score=29.57 Aligned_cols=52 Identities=17% Similarity=0.256 Sum_probs=40.6
Q ss_pred HHHHHhhhCCcchhhhhhhhcCChhhhhhccccccccchhhHHHHHHhhhcc
Q 001516 224 ILKKLIDRGKVNVKDIASDIGISPDLLKTTLADGTFASDLQCKLVKWLSNHA 275 (1062)
Q Consensus 224 ~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~~~~~~~~~~~k~~~wl~~~~ 275 (1062)
=+|.|..+-+.+-+++|..+|||.-+|..-.........-.+.++++|+.+.
T Consensus 37 eik~LR~~~glTQ~elA~~lGvS~~TVs~WE~G~r~P~~~~l~Ll~~L~~~P 88 (96)
T PRK10072 37 EFEQLRKGTGLKIDDFARVLGVSVAMVKEWESRRVKPSSAELKLMRLIQANP 88 (96)
T ss_pred HHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHcCCCCCCHHHHHHHHHHhhCH
Confidence 3788888899999999999999998887777644444444467888887764
No 142
>PHA02862 5L protein; Provisional
Probab=21.85 E-value=33 Score=35.67 Aligned_cols=33 Identities=24% Similarity=0.400 Sum_probs=25.4
Q ss_pred CCcCcccCCCCCCCCCEEEecccCccccccccc
Q 001516 705 PRSCDICRRSETILNPILICSGCKVAVHLDCYR 737 (1062)
Q Consensus 705 ~~~CsVC~~~E~~~N~IL~Cd~C~laVHq~CYG 737 (1062)
+..|=||++.+.+...-=.|.|-..-|||.|..
T Consensus 2 ~diCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~ 34 (156)
T PHA02862 2 SDICWICNDVCDERNNFCGCNEEYKVVHIKCMQ 34 (156)
T ss_pred CCEEEEecCcCCCCcccccccCcchhHHHHHHH
Confidence 357999998765444455788899999999974
No 143
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=21.72 E-value=66 Score=35.87 Aligned_cols=34 Identities=24% Similarity=0.393 Sum_probs=29.8
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
..||..|-.+|+|+++|+|..+|+|++++..-|.
T Consensus 8 ~~Il~~L~~~~~v~v~eLa~~l~VS~~TIRRDL~ 41 (256)
T PRK10434 8 AAILEYLQKQGKTSVEELAQYFDTTGTTIRKDLV 41 (256)
T ss_pred HHHHHHHHHcCCEEHHHHHHHHCCCHHHHHHHHH
Confidence 4677777789999999999999999999988763
No 144
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=21.52 E-value=71 Score=31.91 Aligned_cols=33 Identities=21% Similarity=0.246 Sum_probs=27.7
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
--||+.|.+.|.++|.+||.++|+++-++-.-|
T Consensus 19 l~IL~~L~~~~~~~v~ela~~l~lsqstvS~HL 51 (117)
T PRK10141 19 LGIVLLLRESGELCVCDLCTALDQSQPKISRHL 51 (117)
T ss_pred HHHHHHHHHcCCcCHHHHHHHHCcCHHHHHHHH
Confidence 357888888899999999999999999875443
No 145
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=21.23 E-value=59 Score=31.26 Aligned_cols=25 Identities=32% Similarity=0.590 Sum_probs=22.6
Q ss_pred hCCcchhhhhhhhcCChhhhhhccc
Q 001516 231 RGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 231 ~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
+=-++..+||.++|+|++-|+..|.
T Consensus 21 ~~~ls~~~ia~dL~~s~~~le~vL~ 45 (89)
T PF10078_consen 21 LSGLSLEQIAADLGTSPEHLEQVLN 45 (89)
T ss_pred HcCCCHHHHHHHhCCCHHHHHHHHc
Confidence 4458999999999999999999997
No 146
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=21.13 E-value=71 Score=32.71 Aligned_cols=33 Identities=21% Similarity=0.483 Sum_probs=29.2
Q ss_pred HHHHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 222 TLILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 222 ~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
-.||..|-.-|..+..+||.++|+|+.++..-+
T Consensus 12 ~~Il~~Lq~d~R~s~~eiA~~lglS~~tV~~Ri 44 (153)
T PRK11179 12 RGILEALMENARTPYAELAKQFGVSPGTIHVRV 44 (153)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHCcCHHHHHHHH
Confidence 457788888999999999999999999987765
No 147
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=21.10 E-value=74 Score=33.88 Aligned_cols=35 Identities=9% Similarity=0.159 Sum_probs=31.7
Q ss_pred hHHHHHHHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 221 FTLILKKLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 221 ~~~~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
...||..|-.+|.++++|+|..+|+|.+++.--|.
T Consensus 9 ~~~Il~~l~~~~~~~~~~La~~~~vS~~TiRRDl~ 43 (185)
T PRK04424 9 QKALQELIEENPFITDEELAEKFGVSIQTIRLDRM 43 (185)
T ss_pred HHHHHHHHHHCCCEEHHHHHHHHCcCHHHHHHHHH
Confidence 46788889999999999999999999999998774
No 148
>PF13551 HTH_29: Winged helix-turn helix
Probab=21.08 E-value=1.1e+02 Score=28.66 Aligned_cols=50 Identities=20% Similarity=0.331 Sum_probs=37.4
Q ss_pred HhhhCCcchhhhhhhhcCChhhhhhccc-----------c--------cc-ccchhhHHHHHHhhhcccc
Q 001516 228 LIDRGKVNVKDIASDIGISPDLLKTTLA-----------D--------GT-FASDLQCKLVKWLSNHAYL 277 (1062)
Q Consensus 228 li~~gkv~~~~~a~~~g~s~~~~~a~l~-----------~--------~~-~~~~~~~k~~~wl~~~~~~ 277 (1062)
|+.+|.-++.+||..+|+|+.++..-+. + .. +.+.....|+.|+..+...
T Consensus 7 l~~~g~~~~~~ia~~lg~s~~Tv~r~~~~~~~~G~~~l~~~~~~~g~~~~~l~~~~~~~l~~~~~~~p~~ 76 (112)
T PF13551_consen 7 LLAEGVSTIAEIARRLGISRRTVYRWLKRYREGGIEGLLPRKPRGGRPRKRLSEEQRAQLIELLRENPPE 76 (112)
T ss_pred HHHcCCCcHHHHHHHHCcCHHHHHHHHHHHHcccHHHHHhccccCCCCCCCCCHHHHHHHHHHHHHCCCC
Confidence 4556766899999999999999865544 1 12 6677778888888887654
No 149
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=20.87 E-value=69 Score=25.85 Aligned_cols=28 Identities=39% Similarity=0.656 Sum_probs=23.2
Q ss_pred HHhhhCCcchhhhhhhhcCChhhhhhccc
Q 001516 227 KLIDRGKVNVKDIASDIGISPDLLKTTLA 255 (1062)
Q Consensus 227 kli~~gkv~~~~~a~~~g~s~~~~~a~l~ 255 (1062)
.++.+| .+.++||..+|+|..++..-+.
T Consensus 13 ~~~~~g-~s~~eia~~l~is~~tv~~~~~ 40 (58)
T smart00421 13 RLLAEG-LTNKEIAERLGISEKTVKTHLS 40 (58)
T ss_pred HHHHcC-CCHHHHHHHHCCCHHHHHHHHH
Confidence 345677 5999999999999999988763
No 150
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=20.71 E-value=40 Score=31.67 Aligned_cols=30 Identities=17% Similarity=0.448 Sum_probs=0.0
Q ss_pred ccccccCcCCeeeecCCcCcccccchhhhhh
Q 001516 829 VCCICRHKHGICIKCNYGNCQTTFHPTCARS 859 (1062)
Q Consensus 829 ~C~iC~~k~GA~IqC~~~~C~~~FH~tCA~~ 859 (1062)
.|.+|+++-|...---+++. ..||..|+.+
T Consensus 80 ~C~vC~k~l~~~~f~~~p~~-~v~H~~C~~r 109 (109)
T PF10367_consen 80 KCSVCGKPLGNSVFVVFPCG-HVVHYSCIKR 109 (109)
T ss_pred CccCcCCcCCCceEEEeCCC-eEEecccccC
No 151
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=20.67 E-value=77 Score=25.99 Aligned_cols=30 Identities=33% Similarity=0.491 Sum_probs=24.8
Q ss_pred HHHHHhhhCCcchhhhhhhhcCChhhhhhcc
Q 001516 224 ILKKLIDRGKVNVKDIASDIGISPDLLKTTL 254 (1062)
Q Consensus 224 ~~~kli~~gkv~~~~~a~~~g~s~~~~~a~l 254 (1062)
|++-|. .+.++..+|+.++|+|+-++...|
T Consensus 2 il~~l~-~~~~~~~~i~~~l~is~~~v~~~l 31 (66)
T smart00418 2 ILKLLA-EGELCVCELAEILGLSQSTVSHHL 31 (66)
T ss_pred HHHHhh-cCCccHHHHHHHHCCCHHHHHHHH
Confidence 344555 788999999999999998888776
No 152
>PLN02436 cellulose synthase A
Probab=20.40 E-value=66 Score=42.74 Aligned_cols=49 Identities=27% Similarity=0.626 Sum_probs=38.4
Q ss_pred CCcCcccCCCC--C-CCCCEEEecccCcccccccccCcccCCCcccccccccc
Q 001516 705 PRSCDICRRSE--T-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 754 (1062)
Q Consensus 705 ~~~CsVC~~~E--~-~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~ 754 (1062)
...|.||++.- + +++..|-|.-|+..|-..||- .+..+|.=.|..|+..
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cye-yer~eg~~~Cpqckt~ 87 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYE-YERREGNQACPQCKTR 87 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhh-hhhhcCCccCcccCCc
Confidence 35899999852 2 467789999999999999993 3345788899999653
No 153
>PLN02195 cellulose synthase A
Probab=20.19 E-value=68 Score=42.26 Aligned_cols=49 Identities=16% Similarity=0.384 Sum_probs=38.7
Q ss_pred CCcCcccCCCC--C-CCCCEEEecccCcccccccccCcccCCCcccccccccc
Q 001516 705 PRSCDICRRSE--T-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 754 (1062)
Q Consensus 705 ~~~CsVC~~~E--~-~~N~IL~Cd~C~laVHq~CYGi~~ip~g~WlCd~C~~~ 754 (1062)
...|.||++.- + .++..|-|.-|+..|-+.||- .+..+|.=-|..|..-
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCye-yer~eg~q~CpqCkt~ 57 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLE-YEIKEGRKVCLRCGGP 57 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhh-hhhhcCCccCCccCCc
Confidence 35799999842 2 467899999999999999993 3345788889999654
Done!