Query psy16979
Match_columns 114
No_of_seqs 189 out of 1388
Neff 8.9
Searched_HMMs 46136
Date Fri Aug 16 18:35:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16979.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16979hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628|consensus 99.8 1.2E-20 2.6E-25 136.1 4.0 65 50-114 204-271 (348)
2 PF13639 zf-RING_2: Ring finge 99.7 1E-18 2.2E-23 92.2 1.9 41 74-114 1-41 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 9.1E-15 2E-19 84.9 3.6 42 73-114 19-70 (73)
4 COG5540 RING-finger-containing 99.5 1.8E-14 3.9E-19 101.9 2.2 42 73-114 323-365 (374)
5 PHA02929 N1R/p28-like protein; 99.5 5.5E-14 1.2E-18 97.7 3.9 65 50-114 147-220 (238)
6 COG5243 HRD1 HRD ubiquitin lig 99.4 3.9E-14 8.5E-19 102.6 2.6 61 54-114 268-338 (491)
7 PF13923 zf-C3HC4_2: Zinc fing 99.3 1E-12 2.2E-17 67.4 2.9 37 76-114 1-37 (39)
8 KOG0802|consensus 99.2 4.9E-12 1.1E-16 97.4 2.0 42 73-114 291-334 (543)
9 cd00162 RING RING-finger (Real 99.2 2.4E-11 5.1E-16 63.2 3.2 38 75-114 1-39 (45)
10 smart00184 RING Ring finger. E 99.1 5.2E-11 1.1E-15 59.9 3.4 36 76-114 1-37 (39)
11 PF15227 zf-C3HC4_4: zinc fing 99.1 3.9E-11 8.4E-16 62.4 2.6 36 76-114 1-40 (42)
12 PF00097 zf-C3HC4: Zinc finger 99.1 3.3E-11 7.2E-16 62.2 2.1 37 76-114 1-39 (41)
13 PF13445 zf-RING_UBOX: RING-ty 99.1 7.8E-11 1.7E-15 61.4 2.4 38 76-114 1-43 (43)
14 PLN03208 E3 ubiquitin-protein 99.0 4.5E-10 9.7E-15 75.7 4.3 33 73-108 18-50 (193)
15 KOG0317|consensus 99.0 5.2E-10 1.1E-14 78.9 4.1 39 73-114 239-277 (293)
16 PF13920 zf-C3HC4_3: Zinc fing 99.0 5.7E-10 1.2E-14 60.0 3.0 39 73-114 2-41 (50)
17 PF12861 zf-Apc11: Anaphase-pr 99.0 6.9E-10 1.5E-14 65.5 3.3 42 73-114 21-75 (85)
18 PF14634 zf-RING_5: zinc-RING 98.9 9.7E-10 2.1E-14 57.6 3.1 40 75-114 1-40 (44)
19 PHA02926 zinc finger-like prot 98.9 8.8E-10 1.9E-14 75.4 3.0 42 73-114 170-223 (242)
20 smart00504 Ubox Modified RING 98.9 2.9E-09 6.4E-14 59.6 3.9 38 74-114 2-39 (63)
21 COG5194 APC11 Component of SCF 98.9 1.9E-09 4.2E-14 62.4 3.1 39 76-114 34-74 (88)
22 smart00744 RINGv The RING-vari 98.8 5.1E-09 1.1E-13 56.1 3.1 39 75-114 1-46 (49)
23 KOG0320|consensus 98.8 2.4E-09 5.2E-14 70.9 2.2 41 73-114 131-171 (187)
24 KOG0823|consensus 98.7 5.4E-09 1.2E-13 71.8 2.7 39 73-114 47-88 (230)
25 TIGR00599 rad18 DNA repair pro 98.7 2E-08 4.4E-13 74.6 4.0 39 73-114 26-64 (397)
26 KOG2930|consensus 98.7 1.1E-08 2.3E-13 62.0 2.0 42 73-114 46-101 (114)
27 KOG1734|consensus 98.6 2.3E-08 5E-13 70.2 2.7 42 73-114 224-274 (328)
28 KOG1493|consensus 98.5 3E-08 6.5E-13 57.0 0.2 42 73-114 20-74 (84)
29 KOG0828|consensus 98.3 1.7E-07 3.8E-12 70.6 1.1 42 73-114 571-627 (636)
30 PF04564 U-box: U-box domain; 98.3 5.4E-07 1.2E-11 52.1 2.4 39 73-114 4-43 (73)
31 KOG0804|consensus 98.3 3.7E-07 7.9E-12 68.1 2.0 40 73-114 175-215 (493)
32 KOG2177|consensus 98.2 6.1E-07 1.3E-11 63.0 1.2 39 73-114 13-51 (386)
33 PF11793 FANCL_C: FANCL C-term 98.2 7.1E-07 1.5E-11 51.2 1.2 37 73-109 2-43 (70)
34 TIGR00570 cdk7 CDK-activating 98.1 2.2E-06 4.8E-11 61.8 3.5 42 73-114 3-47 (309)
35 KOG1645|consensus 98.1 1.4E-06 3.1E-11 64.4 2.6 42 73-114 4-49 (463)
36 KOG0827|consensus 98.1 1.1E-06 2.5E-11 64.6 2.0 40 74-114 5-49 (465)
37 COG5219 Uncharacterized conser 98.1 4.6E-07 9.9E-12 72.9 -0.8 42 73-114 1469-1516(1525)
38 KOG0287|consensus 98.1 1.2E-06 2.6E-11 63.6 1.3 39 73-114 23-61 (442)
39 COG5574 PEX10 RING-finger-cont 98.1 2.4E-06 5.2E-11 60.0 2.4 39 73-114 215-255 (271)
40 PF05883 Baculo_RING: Baculovi 98.0 1.8E-06 3.9E-11 55.1 1.1 34 73-106 26-65 (134)
41 KOG0801|consensus 98.0 1.3E-06 2.9E-11 57.3 0.3 28 73-100 177-204 (205)
42 KOG1039|consensus 97.9 4.5E-06 9.8E-11 61.2 1.6 42 73-114 161-214 (344)
43 KOG2164|consensus 97.9 9.5E-06 2.1E-10 61.6 3.0 35 73-110 186-220 (513)
44 COG5432 RAD18 RING-finger-cont 97.9 8.1E-06 1.8E-10 58.3 2.2 39 73-114 25-63 (391)
45 PF11789 zf-Nse: Zinc-finger o 97.8 2.4E-05 5.3E-10 43.1 3.0 40 73-114 11-52 (57)
46 KOG0825|consensus 97.7 4.4E-06 9.5E-11 66.3 -0.8 42 73-114 123-164 (1134)
47 PF10367 Vps39_2: Vacuolar sor 97.6 2.1E-05 4.6E-10 48.1 1.3 31 73-104 78-108 (109)
48 KOG1941|consensus 97.5 3.7E-05 8.1E-10 56.9 1.1 42 73-114 365-409 (518)
49 KOG1814|consensus 97.4 9.3E-05 2E-09 55.1 1.9 37 73-109 184-220 (445)
50 PF12906 RINGv: RING-variant d 97.3 0.00012 2.5E-09 38.8 1.6 38 76-114 1-45 (47)
51 KOG4445|consensus 97.3 0.00014 3E-09 52.3 2.0 36 73-108 115-150 (368)
52 KOG0311|consensus 97.3 2.6E-05 5.6E-10 56.9 -1.9 39 73-114 43-83 (381)
53 PF14835 zf-RING_6: zf-RING of 97.2 7.1E-05 1.5E-09 41.9 -0.1 37 74-114 8-44 (65)
54 KOG0297|consensus 97.1 0.00023 5.1E-09 53.3 1.8 40 73-114 21-60 (391)
55 PF14446 Prok-RING_1: Prokaryo 97.1 0.00074 1.6E-08 36.6 2.9 33 73-105 5-38 (54)
56 KOG0978|consensus 97.0 0.0002 4.3E-09 56.7 0.1 38 74-114 644-682 (698)
57 KOG4265|consensus 96.9 0.0008 1.7E-08 49.3 3.0 39 73-114 290-329 (349)
58 COG5152 Uncharacterized conser 96.9 0.0005 1.1E-08 46.8 1.6 38 73-113 196-233 (259)
59 KOG0824|consensus 96.7 0.0008 1.7E-08 48.4 1.6 39 73-114 7-46 (324)
60 KOG4159|consensus 96.6 0.0011 2.5E-08 49.7 2.0 39 73-114 84-122 (398)
61 KOG2879|consensus 96.6 0.0026 5.7E-08 45.3 3.5 40 73-114 239-280 (298)
62 KOG1952|consensus 96.6 0.00097 2.1E-08 53.7 1.4 37 73-109 191-228 (950)
63 PHA03096 p28-like protein; Pro 96.6 0.0011 2.3E-08 47.8 1.5 36 74-109 179-219 (284)
64 KOG0826|consensus 96.6 0.0074 1.6E-07 44.0 5.6 40 73-114 300-339 (357)
65 PHA02862 5L protein; Provision 96.4 0.0026 5.7E-08 41.2 2.4 38 73-114 2-46 (156)
66 KOG2660|consensus 96.4 0.00075 1.6E-08 49.0 -0.4 40 73-114 15-54 (331)
67 PHA02825 LAP/PHD finger-like p 96.3 0.004 8.7E-08 41.0 2.9 38 73-114 8-52 (162)
68 KOG2034|consensus 96.3 0.0017 3.7E-08 52.5 1.4 34 73-107 817-850 (911)
69 PF08746 zf-RING-like: RING-li 96.3 0.0018 3.8E-08 33.6 1.0 39 76-114 1-41 (43)
70 KOG3039|consensus 96.2 0.005 1.1E-07 43.3 2.8 42 73-114 221-263 (303)
71 KOG1428|consensus 96.1 0.0041 8.9E-08 53.3 2.4 37 73-109 3486-3522(3738)
72 KOG3970|consensus 96.0 0.0041 8.9E-08 43.2 1.9 36 73-109 50-85 (299)
73 KOG0309|consensus 96.0 0.0037 7.9E-08 50.2 1.7 27 88-114 1042-1068(1081)
74 KOG1785|consensus 95.9 0.004 8.6E-08 46.7 1.3 39 73-114 369-409 (563)
75 KOG4692|consensus 95.8 0.0065 1.4E-07 44.9 2.3 38 73-113 422-459 (489)
76 KOG1940|consensus 95.4 0.0076 1.6E-07 43.2 1.4 42 73-114 158-200 (276)
77 KOG0827|consensus 95.4 0.00055 1.2E-08 50.8 -4.5 42 73-114 196-238 (465)
78 KOG1813|consensus 95.3 0.0072 1.6E-07 43.5 0.9 38 73-113 241-278 (313)
79 KOG1002|consensus 95.2 0.01 2.2E-07 46.0 1.6 39 73-114 536-579 (791)
80 PF14570 zf-RING_4: RING/Ubox 95.0 0.025 5.4E-07 29.9 2.2 39 76-114 1-41 (48)
81 KOG3268|consensus 94.8 0.015 3.3E-07 39.1 1.4 36 74-109 166-205 (234)
82 PF04641 Rtf2: Rtf2 RING-finge 94.2 0.058 1.3E-06 38.3 3.4 41 73-114 113-154 (260)
83 COG5220 TFB3 Cdk activating ki 94.2 0.027 5.8E-07 39.7 1.5 42 73-114 10-55 (314)
84 KOG1812|consensus 94.1 0.018 3.8E-07 43.2 0.5 37 73-109 146-183 (384)
85 KOG4185|consensus 93.7 0.053 1.2E-06 38.9 2.4 36 74-109 4-42 (296)
86 KOG4172|consensus 93.5 0.028 6.1E-07 30.5 0.5 39 73-114 7-47 (62)
87 KOG2114|consensus 92.5 0.078 1.7E-06 43.3 1.9 37 73-114 840-876 (933)
88 KOG0298|consensus 92.5 0.029 6.3E-07 47.4 -0.5 40 73-114 1153-1192(1394)
89 smart00249 PHD PHD zinc finger 92.5 0.096 2.1E-06 26.4 1.6 31 75-105 1-31 (47)
90 KOG1609|consensus 91.8 0.098 2.1E-06 37.6 1.6 38 73-110 78-121 (323)
91 KOG2932|consensus 91.2 0.091 2E-06 38.3 0.9 36 75-114 92-127 (389)
92 PF14447 Prok-RING_4: Prokaryo 90.8 0.093 2E-06 28.5 0.5 36 74-114 8-43 (55)
93 PF10571 UPF0547: Uncharacteri 90.8 0.14 2.9E-06 23.6 1.0 23 75-99 2-25 (26)
94 KOG4367|consensus 90.8 0.15 3.3E-06 38.9 1.8 34 73-109 4-37 (699)
95 PF00628 PHD: PHD-finger; Int 90.7 0.15 3.3E-06 26.7 1.2 31 75-105 1-31 (51)
96 COG5222 Uncharacterized conser 90.5 0.25 5.5E-06 36.0 2.6 39 73-114 274-314 (427)
97 KOG3800|consensus 90.5 0.31 6.8E-06 35.2 3.0 40 75-114 2-44 (300)
98 KOG3161|consensus 90.4 0.063 1.4E-06 42.7 -0.6 39 74-114 12-51 (861)
99 KOG1815|consensus 90.2 0.18 3.8E-06 38.6 1.7 35 73-109 70-104 (444)
100 KOG0802|consensus 89.9 0.098 2.1E-06 40.9 0.1 35 73-114 479-513 (543)
101 KOG2066|consensus 88.8 0.17 3.8E-06 41.0 0.8 38 73-110 784-825 (846)
102 PF06844 DUF1244: Protein of u 88.0 0.33 7.2E-06 27.3 1.3 12 97-108 11-22 (68)
103 KOG3053|consensus 87.3 0.31 6.7E-06 34.7 1.2 37 73-109 20-62 (293)
104 KOG0269|consensus 87.2 0.52 1.1E-05 38.3 2.5 40 73-114 779-819 (839)
105 KOG1001|consensus 87.0 0.46 9.9E-06 38.3 2.1 32 74-109 455-486 (674)
106 PF13719 zinc_ribbon_5: zinc-r 86.8 0.39 8.4E-06 23.8 1.1 25 75-99 4-36 (37)
107 KOG1812|consensus 86.1 0.37 8.1E-06 36.3 1.1 41 73-113 306-348 (384)
108 KOG1829|consensus 85.2 0.34 7.5E-06 38.2 0.6 39 73-114 511-554 (580)
109 PF13901 DUF4206: Domain of un 85.0 0.83 1.8E-05 31.3 2.4 36 73-114 152-193 (202)
110 KOG1729|consensus 85.0 0.11 2.4E-06 37.5 -2.0 38 73-110 214-251 (288)
111 KOG1571|consensus 84.3 1.2 2.5E-05 33.2 3.0 36 73-114 305-340 (355)
112 KOG2817|consensus 84.2 1.1 2.4E-05 33.7 2.9 39 73-111 334-372 (394)
113 PF07649 C1_3: C1-like domain; 82.0 1.1 2.4E-05 20.9 1.5 29 75-103 2-30 (30)
114 PF07282 OrfB_Zn_ribbon: Putat 81.8 3.4 7.3E-05 23.0 3.7 40 63-103 19-61 (69)
115 COG5236 Uncharacterized conser 81.5 2.6 5.7E-05 31.5 3.8 39 73-114 61-101 (493)
116 KOG0825|consensus 81.0 1.2 2.6E-05 36.6 2.1 37 73-109 96-136 (1134)
117 KOG4739|consensus 80.6 1.1 2.4E-05 31.5 1.6 30 75-105 5-34 (233)
118 KOG4275|consensus 80.1 0.69 1.5E-05 33.6 0.5 28 73-103 300-328 (350)
119 COG5183 SSM4 Protein involved 79.9 1.6 3.4E-05 36.1 2.4 37 73-110 12-53 (1175)
120 PF13832 zf-HC5HC2H_2: PHD-zin 79.7 1.2 2.7E-05 27.1 1.5 31 73-105 55-87 (110)
121 smart00132 LIM Zinc-binding do 78.3 2.2 4.7E-05 20.3 1.9 28 75-103 1-28 (39)
122 KOG4718|consensus 77.4 1.3 2.8E-05 30.8 1.1 40 73-114 181-220 (235)
123 KOG2071|consensus 76.6 1.7 3.7E-05 34.3 1.8 33 73-105 513-555 (579)
124 PF01363 FYVE: FYVE zinc finge 76.5 1.4 3E-05 24.5 1.0 34 73-106 9-43 (69)
125 PF13717 zinc_ribbon_4: zinc-r 74.5 1.7 3.6E-05 21.4 0.8 25 75-99 4-36 (36)
126 cd00065 FYVE FYVE domain; Zinc 74.3 2.6 5.6E-05 22.4 1.7 34 74-107 3-37 (57)
127 PF07975 C1_4: TFIIH C1-like d 74.2 2.5 5.3E-05 22.6 1.5 27 76-102 2-35 (51)
128 COG4847 Uncharacterized protei 74.1 3.1 6.8E-05 25.2 2.0 34 73-107 6-39 (103)
129 PRK11088 rrmA 23S rRNA methylt 73.4 2.7 5.7E-05 29.8 2.0 26 74-99 3-28 (272)
130 COG3492 Uncharacterized protei 72.7 2 4.3E-05 25.8 1.0 13 97-109 42-54 (104)
131 COG5175 MOT2 Transcriptional r 71.6 4.3 9.3E-05 30.3 2.7 42 73-114 14-57 (480)
132 KOG3579|consensus 71.4 2.2 4.8E-05 31.0 1.2 37 73-110 268-306 (352)
133 smart00647 IBR In Between Ring 68.6 1.4 3.1E-05 23.8 -0.2 22 86-107 37-59 (64)
134 KOG1100|consensus 68.4 4 8.7E-05 28.2 1.9 26 76-104 161-187 (207)
135 PF13771 zf-HC5HC2H: PHD-like 68.2 3.8 8.2E-05 23.9 1.6 31 73-105 36-68 (90)
136 KOG1815|consensus 67.8 1.7 3.7E-05 33.3 -0.0 37 73-109 226-267 (444)
137 smart00064 FYVE Protein presen 64.4 8 0.00017 21.3 2.4 36 73-108 10-46 (68)
138 KOG3039|consensus 64.4 4.6 0.0001 28.8 1.6 34 73-109 43-76 (303)
139 KOG3005|consensus 64.1 3.1 6.7E-05 29.9 0.7 35 73-107 182-220 (276)
140 PF10272 Tmpp129: Putative tra 63.4 13 0.00029 27.9 3.9 54 56-109 254-326 (358)
141 PF03107 C1_2: C1 domain; Int 57.9 7.8 0.00017 18.0 1.3 29 75-103 2-30 (30)
142 TIGR00622 ssl1 transcription f 54.9 21 0.00046 22.3 3.2 42 73-114 55-107 (112)
143 TIGR00686 phnA alkylphosphonat 54.4 7.8 0.00017 24.0 1.2 27 74-100 3-31 (109)
144 PF09943 DUF2175: Uncharacteri 53.6 14 0.0003 22.7 2.2 32 75-107 4-35 (101)
145 PRK10220 hypothetical protein; 52.5 12 0.00025 23.3 1.7 26 74-99 4-31 (111)
146 PF06937 EURL: EURL protein; 52.2 13 0.00028 26.8 2.1 42 73-114 30-74 (285)
147 KOG4362|consensus 51.7 3.7 8E-05 33.2 -0.6 36 73-111 21-56 (684)
148 PF00130 C1_1: Phorbol esters/ 50.6 11 0.00024 19.5 1.3 33 73-105 11-45 (53)
149 PF15446 zf-PHD-like: PHD/FYVE 50.6 9.6 0.00021 25.6 1.3 30 76-105 2-34 (175)
150 PF02318 FYVE_2: FYVE-type zin 50.2 11 0.00025 23.4 1.5 31 73-103 54-86 (118)
151 KOG0956|consensus 49.0 9.2 0.0002 31.3 1.1 33 73-105 117-156 (900)
152 KOG2979|consensus 48.9 11 0.00024 27.0 1.4 40 73-114 176-217 (262)
153 cd00729 rubredoxin_SM Rubredox 48.4 8.9 0.00019 18.5 0.6 8 76-83 5-12 (34)
154 COG0675 Transposase and inacti 48.4 24 0.00053 25.1 3.2 26 73-101 309-335 (364)
155 KOG2807|consensus 48.3 19 0.00042 26.8 2.6 32 73-104 330-361 (378)
156 PF00412 LIM: LIM domain; Int 47.9 11 0.00023 19.8 1.0 27 76-103 1-27 (58)
157 PF12088 DUF3565: Protein of u 46.7 16 0.00035 20.2 1.5 16 85-100 8-23 (61)
158 KOG4323|consensus 45.9 14 0.00031 28.7 1.7 33 73-105 168-202 (464)
159 PF07800 DUF1644: Protein of u 44.9 9.3 0.0002 25.4 0.5 33 73-108 2-47 (162)
160 KOG3002|consensus 43.0 22 0.00048 26.0 2.3 37 73-114 48-84 (299)
161 KOG1512|consensus 42.5 11 0.00025 27.5 0.7 32 73-104 314-345 (381)
162 COG4647 AcxC Acetone carboxyla 41.9 17 0.00038 23.4 1.4 24 75-101 59-82 (165)
163 PF08274 PhnA_Zn_Ribbon: PhnA 41.8 8.6 0.00019 18.1 0.0 25 74-98 3-29 (30)
164 COG1996 RPC10 DNA-directed RNA 41.5 16 0.00034 19.4 1.0 25 73-97 6-33 (49)
165 PF15353 HECA: Headcase protei 40.9 19 0.00041 22.3 1.4 15 93-107 39-53 (107)
166 COG2824 PhnA Uncharacterized Z 40.6 16 0.00036 22.6 1.1 24 74-97 4-29 (112)
167 KOG3352|consensus 40.4 57 0.0012 21.5 3.6 24 74-99 112-144 (153)
168 COG0353 RecR Recombinational D 40.0 48 0.001 22.9 3.3 32 57-88 50-81 (198)
169 smart00109 C1 Protein kinase C 39.3 25 0.00053 17.4 1.6 33 73-105 11-44 (49)
170 KOG3799|consensus 37.9 13 0.00029 24.1 0.4 31 73-103 65-96 (169)
171 cd00029 C1 Protein kinase C co 37.0 22 0.00048 17.8 1.1 33 73-105 11-45 (50)
172 PF02148 zf-UBP: Zn-finger in 36.8 22 0.00048 19.4 1.2 24 76-101 1-24 (63)
173 PF09356 Phage_BR0599: Phage c 36.5 47 0.001 19.2 2.6 23 83-106 41-64 (80)
174 PF14311 DUF4379: Domain of un 36.3 25 0.00054 18.6 1.3 20 94-114 34-53 (55)
175 COG5627 MMS21 DNA repair prote 36.2 18 0.00039 25.7 0.9 40 73-114 189-230 (275)
176 KOG3842|consensus 35.5 38 0.00082 25.3 2.4 37 73-109 341-393 (429)
177 PF09607 BrkDBD: Brinker DNA-b 33.7 31 0.00067 18.9 1.4 12 98-109 37-48 (58)
178 PF06718 DUF1203: Protein of u 33.7 30 0.00066 21.7 1.5 20 74-93 2-21 (117)
179 PF00645 zf-PARP: Poly(ADP-rib 33.5 43 0.00092 19.1 2.1 37 73-109 7-52 (82)
180 smart00734 ZnF_Rad18 Rad18-lik 33.4 20 0.00043 16.1 0.5 10 75-84 3-12 (26)
181 KOG0230|consensus 32.8 18 0.00038 32.2 0.5 18 90-107 877-894 (1598)
182 PF03966 Trm112p: Trm112p-like 32.8 33 0.00072 19.0 1.5 9 90-98 54-63 (68)
183 cd00350 rubredoxin_like Rubred 31.6 26 0.00057 16.5 0.8 9 73-81 17-25 (33)
184 PF09889 DUF2116: Uncharacteri 31.5 26 0.00056 19.3 0.8 28 74-110 4-32 (59)
185 COG5216 Uncharacterized conser 31.4 22 0.00047 19.6 0.5 20 77-96 32-52 (67)
186 TIGR02098 MJ0042_CXXC MJ0042 f 30.4 53 0.0011 15.7 1.9 25 75-99 4-36 (38)
187 PF12677 DUF3797: Domain of un 29.8 26 0.00056 18.5 0.6 30 73-102 13-42 (49)
188 PF14353 CpXC: CpXC protein 29.4 49 0.0011 20.6 2.0 9 75-83 3-11 (128)
189 PF06906 DUF1272: Protein of u 29.4 1E+02 0.0023 16.8 3.2 39 74-114 6-45 (57)
190 KOG4021|consensus 29.0 25 0.00054 24.3 0.6 12 73-84 108-119 (239)
191 PHA02942 putative transposase; 28.8 1.2E+02 0.0026 22.9 4.3 30 73-102 325-356 (383)
192 PF05191 ADK_lid: Adenylate ki 28.4 28 0.00061 17.0 0.6 7 94-100 7-13 (36)
193 KOG1356|consensus 28.2 34 0.00075 28.6 1.4 33 73-107 229-262 (889)
194 PF14169 YdjO: Cold-inducible 27.6 45 0.00098 18.3 1.4 15 73-87 39-53 (59)
195 smart00659 RPOLCX RNA polymera 27.3 48 0.001 16.9 1.4 23 75-97 4-28 (44)
196 COG5109 Uncharacterized conser 27.2 59 0.0013 24.3 2.3 36 73-108 336-371 (396)
197 PRK00076 recR recombination pr 27.0 1.1E+02 0.0024 21.1 3.5 28 60-87 52-79 (196)
198 PF01485 IBR: IBR domain; Int 26.5 6 0.00013 21.1 -2.3 32 75-106 20-58 (64)
199 PRK13844 recombination protein 25.9 1.2E+02 0.0026 21.0 3.5 25 63-87 59-83 (200)
200 TIGR00615 recR recombination p 25.2 1.3E+02 0.0027 20.7 3.5 27 61-87 53-79 (195)
201 PF02891 zf-MIZ: MIZ/SP-RING z 24.7 18 0.0004 18.9 -0.5 32 75-109 4-35 (50)
202 COG1645 Uncharacterized Zn-fin 24.2 50 0.0011 21.2 1.3 24 73-96 28-52 (131)
203 PF12907 zf-met2: Zinc-binding 23.2 16 0.00035 18.4 -0.8 11 74-84 2-12 (40)
204 PF05353 Atracotoxin: Delta At 22.8 2.8 6.1E-05 21.1 -3.6 13 101-113 19-31 (42)
205 PF07227 DUF1423: Protein of u 22.7 71 0.0015 24.8 2.1 32 73-105 128-163 (446)
206 PF10071 DUF2310: Zn-ribbon-co 21.8 43 0.00093 24.1 0.7 25 73-102 220-244 (258)
207 PRK00420 hypothetical protein; 21.5 85 0.0018 19.6 1.9 12 73-84 23-34 (112)
208 PF02132 RecR: RecR protein; 21.1 25 0.00054 17.5 -0.4 10 73-82 29-38 (41)
209 PF08882 Acetone_carb_G: Aceto 20.9 58 0.0013 20.3 1.1 14 88-101 23-36 (112)
210 smart00290 ZnF_UBP Ubiquitin C 20.8 1E+02 0.0022 15.5 1.9 22 76-100 2-23 (50)
211 PF03854 zf-P11: P-11 zinc fin 20.4 39 0.00085 17.8 0.2 23 92-114 16-39 (50)
No 1
>KOG4628|consensus
Probab=99.81 E-value=1.2e-20 Score=136.10 Aligned_cols=65 Identities=32% Similarity=0.887 Sum_probs=58.3
Q ss_pred CCCCCHHHhcCCCceeeCCCCCC--CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCC-CC
Q psy16979 50 RAPFSTRRFGQIPSIAFPADEAP--DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQH-CP 114 (114)
Q Consensus 50 ~~~~~~~~i~~l~~~~~~~~~~~--~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~-CP 114 (114)
...+.++.++++|...+...... .+.|+||||+|++|++++.|||+|.||..||++||.+.++ ||
T Consensus 204 ~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CP 271 (348)
T KOG4628|consen 204 RNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCP 271 (348)
T ss_pred hhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCC
Confidence 56788999999999999877653 2389999999999999999999999999999999988755 98
No 2
>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=99.73 E-value=1e-18 Score=92.15 Aligned_cols=41 Identities=44% Similarity=1.118 Sum_probs=37.7
Q ss_pred CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
++|+||+++|..++.++.|+|+|.||.+||.+|++.+.+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP 41 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCP 41 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-T
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCC
Confidence 47999999999999999999999999999999999999998
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.52 E-value=9.1e-15 Score=84.87 Aligned_cols=42 Identities=33% Similarity=0.857 Sum_probs=33.9
Q ss_pred CCcccccCCcCCC----------CCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQP----------GEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~----------~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
++.|+||++.|.+ +-.+...+|+|.||..||.+||+.+++||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP 70 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCP 70 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-T
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCC
Confidence 5679999999942 22456668999999999999999999999
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=1.8e-14 Score=101.90 Aligned_cols=42 Identities=33% Similarity=0.991 Sum_probs=39.2
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR-ERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~-~~~~CP 114 (114)
.-+|+|||++|..+++++.|||+|.||..||++|+. .++.||
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CP 365 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCP 365 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCC
Confidence 678999999999999999999999999999999998 567787
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.45 E-value=5.5e-14 Score=97.68 Aligned_cols=65 Identities=28% Similarity=0.628 Sum_probs=48.8
Q ss_pred CCCCCHHHhcCCCceeeCCCC----CCCCcccccCCcCCCCCc----eEEe-CCCCcccHHhHHHHHhCCCCCC
Q psy16979 50 RAPFSTRRFGQIPSIAFPADE----APDAQCVICLAPFQPGEE----VKEL-LCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 50 ~~~~~~~~i~~l~~~~~~~~~----~~~~~C~ICl~~~~~~~~----~~~l-pC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
..+.++..++.+|.....-.. ..+.+|+||++.+.+... +.++ +|+|.||..||.+|++.+.+||
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCP 220 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCP 220 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCC
Confidence 345578888888877544221 226899999999876531 2344 6999999999999999999999
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.44 E-value=3.9e-14 Score=102.63 Aligned_cols=61 Identities=31% Similarity=0.676 Sum_probs=45.9
Q ss_pred CHHHhcCCCceeeCCCCCCCCcccccCCc-CCCC---------CceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 54 STRRFGQIPSIAFPADEAPDAQCVICLAP-FQPG---------EEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 54 ~~~~i~~l~~~~~~~~~~~~~~C~ICl~~-~~~~---------~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
.++.-+-+|..+..+...++..|.||||+ |..+ .+-++|||||+||..|++.|++++++||
T Consensus 268 ~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCP 338 (491)
T COG5243 268 TKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCP 338 (491)
T ss_pred hhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCC
Confidence 34444445544444444448899999999 5554 2358999999999999999999999998
No 7
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.33 E-value=1e-12 Score=67.38 Aligned_cols=37 Identities=38% Similarity=0.894 Sum_probs=31.8
Q ss_pred ccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
|+||++.+.+ .++.++|||.|+..||.+|++.+..||
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP 37 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCP 37 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-T
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCc
Confidence 8999999775 667889999999999999999988898
No 8
>KOG0802|consensus
Probab=99.20 E-value=4.9e-12 Score=97.40 Aligned_cols=42 Identities=43% Similarity=1.076 Sum_probs=39.3
Q ss_pred CCcccccCCcCCCCCc--eEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEE--VKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~--~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
++.|+||+|++..+.. ..+|||+|+||..|+.+||+++++||
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP 334 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCP 334 (543)
T ss_pred CCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCC
Confidence 7899999999998765 79999999999999999999999998
No 9
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.18 E-value=2.4e-11 Score=63.16 Aligned_cols=38 Identities=42% Similarity=1.051 Sum_probs=31.7
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP 114 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP 114 (114)
.|+||++.+ .+.+..++|+|.||..|+..|++. +..||
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp 39 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCP 39 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCC
Confidence 499999998 344555669999999999999987 66787
No 10
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.14 E-value=5.2e-11 Score=59.85 Aligned_cols=36 Identities=36% Similarity=0.929 Sum_probs=30.8
Q ss_pred ccccCCcCCCCCceEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLR-ERQHCP 114 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~-~~~~CP 114 (114)
|+||++. ......++|+|.||..|+..|++ .+..||
T Consensus 1 C~iC~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP 37 (39)
T smart00184 1 CPICLEE---LKDPVVLPCGHTFCRSCIRKWLKSGNNTCP 37 (39)
T ss_pred CCcCccC---CCCcEEecCCChHHHHHHHHHHHhCcCCCC
Confidence 8899988 34568889999999999999998 566687
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.13 E-value=3.9e-11 Score=62.40 Aligned_cols=36 Identities=42% Similarity=0.864 Sum_probs=27.8
Q ss_pred ccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC----CCCC
Q psy16979 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER----QHCP 114 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~----~~CP 114 (114)
|+||++.|.+. +.|+|||.|...||.+|.+.. ..||
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP 40 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCP 40 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---S
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCc
Confidence 89999999855 889999999999999999764 2476
No 12
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 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. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.12 E-value=3.3e-11 Score=62.18 Aligned_cols=37 Identities=46% Similarity=1.070 Sum_probs=31.3
Q ss_pred ccccCCcCCCCCceEEeCCCCcccHHhHHHHHh--CCCCCC
Q psy16979 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLR--ERQHCP 114 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~--~~~~CP 114 (114)
|+||++.+... +..++|+|.|+..||.+|++ ....||
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP 39 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCP 39 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCC
Confidence 89999998754 36889999999999999999 345687
No 13
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.08 E-value=7.8e-11 Score=61.44 Aligned_cols=38 Identities=34% Similarity=0.761 Sum_probs=22.9
Q ss_pred ccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCC----CCCC
Q psy16979 76 CVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRER----QHCP 114 (114)
Q Consensus 76 C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~----~~CP 114 (114)
|+||+| |...+ .-+.|+|||+|..+||.++++.+ -.||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 75544 56889999999999999999853 2587
No 14
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.00 E-value=4.5e-10 Score=75.68 Aligned_cols=33 Identities=33% Similarity=0.718 Sum_probs=28.9
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR 108 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~ 108 (114)
+..|+||++.+++. ++++|+|.||..||..|+.
T Consensus 18 ~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~ 50 (193)
T PLN03208 18 DFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTY 50 (193)
T ss_pred ccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHH
Confidence 67899999998644 6678999999999999986
No 15
>KOG0317|consensus
Probab=98.98 E-value=5.2e-10 Score=78.91 Aligned_cols=39 Identities=28% Similarity=0.731 Sum_probs=35.2
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|++|||..... ..+||||+|+..||..|...+..||
T Consensus 239 ~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCP 277 (293)
T KOG0317|consen 239 TRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECP 277 (293)
T ss_pred CCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCC
Confidence 57899999997655 6789999999999999999999998
No 16
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.96 E-value=5.7e-10 Score=60.03 Aligned_cols=39 Identities=38% Similarity=0.859 Sum_probs=33.6
Q ss_pred CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~CP 114 (114)
+..|.||++... .+..+||+|. |+..|+.+|++.+..||
T Consensus 2 ~~~C~iC~~~~~---~~~~~pCgH~~~C~~C~~~~~~~~~~CP 41 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLPCGHLCFCEECAERLLKRKKKCP 41 (50)
T ss_dssp HSB-TTTSSSBS---SEEEETTCEEEEEHHHHHHHHHTTSBBT
T ss_pred cCCCccCCccCC---ceEEeCCCChHHHHHHhHHhcccCCCCC
Confidence 468999999865 3688899999 99999999999988898
No 17
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.95 E-value=6.9e-10 Score=65.48 Aligned_cols=42 Identities=40% Similarity=0.998 Sum_probs=32.8
Q ss_pred CCcccccCCcCC--------CCC--ceEEeCCCCcccHHhHHHHHhC---CCCCC
Q psy16979 73 DAQCVICLAPFQ--------PGE--EVKELLCHHKFHSECLEPWLRE---RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~--------~~~--~~~~lpC~H~FH~~Ci~~Wl~~---~~~CP 114 (114)
++.|.||...|. +|+ .+..-.|+|.||..||.+||.. +..||
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CP 75 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCP 75 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCC
Confidence 678999999987 233 3333359999999999999986 35688
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.93 E-value=9.7e-10 Score=57.63 Aligned_cols=40 Identities=25% Similarity=0.663 Sum_probs=34.4
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
.|+||++.|.+......++|+|+|+..||..+......||
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP 40 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCP 40 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCc
Confidence 4999999996666788889999999999999985566787
No 19
>PHA02926 zinc finger-like protein; Provisional
Probab=98.91 E-value=8.8e-10 Score=75.44 Aligned_cols=42 Identities=31% Similarity=0.774 Sum_probs=32.0
Q ss_pred CCcccccCCcCCCC----C-ceEEe-CCCCcccHHhHHHHHhCC------CCCC
Q psy16979 73 DAQCVICLAPFQPG----E-EVKEL-LCHHKFHSECLEPWLRER------QHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~----~-~~~~l-pC~H~FH~~Ci~~Wl~~~------~~CP 114 (114)
+.+|+||||..-+. + .-..| +|+|.||..||..|.+.+ ++||
T Consensus 170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCP 223 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCP 223 (242)
T ss_pred CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCC
Confidence 78999999986322 1 23455 599999999999999753 4598
No 20
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.87 E-value=2.9e-09 Score=59.57 Aligned_cols=38 Identities=21% Similarity=0.370 Sum_probs=33.8
Q ss_pred CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
..|+||++.+.+. +.++|||+|.+.||.+|++.+.+||
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP 39 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDP 39 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCC
Confidence 3699999998864 6679999999999999999888898
No 21
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.87 E-value=1.9e-09 Score=62.38 Aligned_cols=39 Identities=36% Similarity=0.905 Sum_probs=28.0
Q ss_pred ccccCCcCCCCCce-EEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979 76 CVICLAPFQPGEEV-KELL-CHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 76 C~ICl~~~~~~~~~-~~lp-C~H~FH~~Ci~~Wl~~~~~CP 114 (114)
|+-|......+++. .... |+|.||..||.+||..+..||
T Consensus 34 C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CP 74 (88)
T COG5194 34 CPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCP 74 (88)
T ss_pred CcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCC
Confidence 33333333455543 3333 999999999999999999998
No 22
>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=98.80 E-value=5.1e-09 Score=56.13 Aligned_cols=39 Identities=31% Similarity=0.694 Sum_probs=29.9
Q ss_pred cccccCCcCCCCCceEEeCCC-----CcccHHhHHHHHhCC--CCCC
Q psy16979 75 QCVICLAPFQPGEEVKELLCH-----HKFHSECLEPWLRER--QHCP 114 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~-----H~FH~~Ci~~Wl~~~--~~CP 114 (114)
.|.||++. ..++....+||. |.+|..|+.+|+..+ .+||
T Consensus 1 ~CrIC~~~-~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~ 46 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCE 46 (49)
T ss_pred CccCCCCC-CCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCC
Confidence 48999993 344455678975 899999999999654 4686
No 23
>KOG0320|consensus
Probab=98.80 E-value=2.4e-09 Score=70.91 Aligned_cols=41 Identities=29% Similarity=0.675 Sum_probs=35.2
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
-..|+|||+.+.+... .-..|||+|++.||+.-++....||
T Consensus 131 ~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP 171 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNKCP 171 (187)
T ss_pred ccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCCCC
Confidence 5679999999875533 4467999999999999999999998
No 24
>KOG0823|consensus
Probab=98.75 E-value=5.4e-09 Score=71.81 Aligned_cols=39 Identities=38% Similarity=0.755 Sum_probs=32.4
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC---CCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ---HCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~---~CP 114 (114)
..+|.|||+.-++. ++..|||.|+..||.+||..+. .||
T Consensus 47 ~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cP 88 (230)
T KOG0823|consen 47 FFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECP 88 (230)
T ss_pred ceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCC
Confidence 78999999986544 6678999999999999998743 466
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.67 E-value=2e-08 Score=74.57 Aligned_cols=39 Identities=31% Similarity=0.660 Sum_probs=34.5
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|+||++.|... +.++|+|.||..||..|+.....||
T Consensus 26 ~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP 64 (397)
T TIGR00599 26 SLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCP 64 (397)
T ss_pred ccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCC
Confidence 67899999998644 4689999999999999999888898
No 26
>KOG2930|consensus
Probab=98.67 E-value=1.1e-08 Score=62.04 Aligned_cols=42 Identities=33% Similarity=0.795 Sum_probs=32.2
Q ss_pred CCcccccCCcCC-------------CCCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQ-------------PGEEVKELL-CHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~-------------~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP 114 (114)
-+.|+||..-+- .++-++... |+|.||..||.+||+.++.||
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCP 101 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCP 101 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCC
Confidence 567999876431 222344444 999999999999999999999
No 27
>KOG1734|consensus
Probab=98.62 E-value=2.3e-08 Score=70.24 Aligned_cols=42 Identities=31% Similarity=0.815 Sum_probs=36.3
Q ss_pred CCcccccCCcCCCCC-------ceEEeCCCCcccHHhHHHHH--hCCCCCC
Q psy16979 73 DAQCVICLAPFQPGE-------EVKELLCHHKFHSECLEPWL--RERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~-------~~~~lpC~H~FH~~Ci~~Wl--~~~~~CP 114 (114)
+..|+||-..+.... +..+|.|+|+||..||+-|- .++++||
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCP 274 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCP 274 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCc
Confidence 779999999887655 67899999999999999997 4578898
No 28
>KOG1493|consensus
Probab=98.47 E-value=3e-08 Score=56.99 Aligned_cols=42 Identities=38% Similarity=0.957 Sum_probs=31.5
Q ss_pred CCcccccCCcCCC--------CCce-EEeC-CCCcccHHhHHHHHhCCC---CCC
Q psy16979 73 DAQCVICLAPFQP--------GEEV-KELL-CHHKFHSECLEPWLRERQ---HCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~--------~~~~-~~lp-C~H~FH~~Ci~~Wl~~~~---~CP 114 (114)
+++|.||.-.|.. |+.. .++- |.|.||..||.+|+..+. .||
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CP 74 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCP 74 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCC
Confidence 6689999999863 4422 2333 999999999999997643 477
No 29
>KOG0828|consensus
Probab=98.32 E-value=1.7e-07 Score=70.62 Aligned_cols=42 Identities=38% Similarity=0.972 Sum_probs=32.3
Q ss_pred CCcccccCCcCCC---CCc-----------eEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979 73 DAQCVICLAPFQP---GEE-----------VKELLCHHKFHSECLEPWLR-ERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~---~~~-----------~~~lpC~H~FH~~Ci~~Wl~-~~~~CP 114 (114)
...|+|||.++.. +.. ....||.|+||+.|+..|.. .+-.||
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CP 627 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICP 627 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCC
Confidence 5789999998753 111 34559999999999999998 455676
No 30
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.28 E-value=5.4e-07 Score=52.09 Aligned_cols=39 Identities=21% Similarity=0.361 Sum_probs=31.8
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP 114 (114)
...|+|+.+-+.+. +++|+||.|.+.||..||+. +.+||
T Consensus 4 ~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P 43 (73)
T PF04564_consen 4 EFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDP 43 (73)
T ss_dssp GGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-T
T ss_pred ccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCC
Confidence 45799999999855 77899999999999999998 77887
No 31
>KOG0804|consensus
Probab=98.28 E-value=3.7e-07 Score=68.12 Aligned_cols=40 Identities=33% Similarity=0.925 Sum_probs=32.6
Q ss_pred CCcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
-++|+||||.+.... .++...|.|.||..|+.+|- ..+||
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scp 215 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCP 215 (493)
T ss_pred CCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcCh
Confidence 578999999997665 45666799999999999994 34565
No 32
>KOG2177|consensus
Probab=98.17 E-value=6.1e-07 Score=63.02 Aligned_cols=39 Identities=33% Similarity=0.685 Sum_probs=33.2
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|+||++.|... +.|||+|.|+..||..++.....||
T Consensus 13 ~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp 51 (386)
T KOG2177|consen 13 ELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCP 51 (386)
T ss_pred cccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCc
Confidence 67899999999877 8899999999999999987334465
No 33
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.17 E-value=7.1e-07 Score=51.24 Aligned_cols=37 Identities=30% Similarity=0.573 Sum_probs=16.9
Q ss_pred CCcccccCCcCCCCCc--eEEe---CCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEE--VKEL---LCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~--~~~l---pC~H~FH~~Ci~~Wl~~ 109 (114)
+..|.||++.+.+++. .... .|++.||..||.+||..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~ 43 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLS 43 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHH
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHH
Confidence 3579999998763332 2333 39999999999999974
No 34
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.14 E-value=2.2e-06 Score=61.76 Aligned_cols=42 Identities=19% Similarity=0.483 Sum_probs=30.5
Q ss_pred CCcccccCCcCCCCCc--eEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979 73 DAQCVICLAPFQPGEE--VKELLCHHKFHSECLEPWLRE-RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~--~~~lpC~H~FH~~Ci~~Wl~~-~~~CP 114 (114)
+..||||+.+--.... ..+-+|||.||..||+..|.. ...||
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP 47 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCP 47 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCC
Confidence 4689999997333333 233379999999999996654 45798
No 35
>KOG1645|consensus
Probab=98.14 E-value=1.4e-06 Score=64.41 Aligned_cols=42 Identities=38% Similarity=1.017 Sum_probs=33.0
Q ss_pred CCcccccCCcCCC-CC-ceEEeCCCCcccHHhHHHHHhC--CCCCC
Q psy16979 73 DAQCVICLAPFQP-GE-EVKELLCHHKFHSECLEPWLRE--RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~-~~-~~~~lpC~H~FH~~Ci~~Wl~~--~~~CP 114 (114)
..+|+||++.|.. |+ .+..|.|+|.|..+||.+||-+ ...||
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp 49 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCP 49 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCc
Confidence 5689999999985 44 4566679999999999999953 23476
No 36
>KOG0827|consensus
Probab=98.14 E-value=1.1e-06 Score=64.59 Aligned_cols=40 Identities=38% Similarity=0.944 Sum_probs=30.3
Q ss_pred CcccccCCcCCCC-CceEEeC-CCCcccHHhHHHHHhC---CCCCC
Q psy16979 74 AQCVICLAPFQPG-EEVKELL-CHHKFHSECLEPWLRE---RQHCP 114 (114)
Q Consensus 74 ~~C~ICl~~~~~~-~~~~~lp-C~H~FH~~Ci~~Wl~~---~~~CP 114 (114)
..|.|| .++.+. ..+.-.. |||+||..|+..||+. ++.||
T Consensus 5 A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cp 49 (465)
T KOG0827|consen 5 AECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCP 49 (465)
T ss_pred ceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCC
Confidence 479999 555444 3555555 9999999999999987 24687
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.09 E-value=4.6e-07 Score=72.92 Aligned_cols=42 Identities=33% Similarity=0.891 Sum_probs=32.1
Q ss_pred CCcccccCCcCCCCC---ceEEeC-CCCcccHHhHHHHHhC--CCCCC
Q psy16979 73 DAQCVICLAPFQPGE---EVKELL-CHHKFHSECLEPWLRE--RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~---~~~~lp-C~H~FH~~Ci~~Wl~~--~~~CP 114 (114)
-++|+||+..+..-+ +-.+.| |+|.||..|+.+|++. +++||
T Consensus 1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CP 1516 (1525)
T COG5219 1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCP 1516 (1525)
T ss_pred cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCC
Confidence 678999998765211 224444 9999999999999987 45798
No 38
>KOG0287|consensus
Probab=98.09 E-value=1.2e-06 Score=63.61 Aligned_cols=39 Identities=31% Similarity=0.674 Sum_probs=35.1
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
--.|.||.|-|... ..+||+|.|+.-||+..|..+..||
T Consensus 23 lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP 61 (442)
T KOG0287|consen 23 LLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCP 61 (442)
T ss_pred HHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCC
Confidence 35799999999755 7789999999999999999999998
No 39
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=2.4e-06 Score=59.96 Aligned_cols=39 Identities=31% Similarity=0.740 Sum_probs=33.2
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHH-HHhCCCC-CC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEP-WLRERQH-CP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~-Wl~~~~~-CP 114 (114)
+..|+||++..+.. ..+||||+|+..||.. |=+++.- ||
T Consensus 215 d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~Cp 255 (271)
T COG5574 215 DYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCP 255 (271)
T ss_pred ccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCc
Confidence 67899999997644 7789999999999999 9877655 87
No 40
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=98.03 E-value=1.8e-06 Score=55.08 Aligned_cols=34 Identities=21% Similarity=0.559 Sum_probs=30.1
Q ss_pred CCcccccCCcCCCCCceEEeCCC------CcccHHhHHHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCH------HKFHSECLEPW 106 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~------H~FH~~Ci~~W 106 (114)
..+|.||++.+..++.++.++|+ |.||.+|+.+|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw 65 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRW 65 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHH
Confidence 45899999999986678888887 89999999999
No 41
>KOG0801|consensus
Probab=98.01 E-value=1.3e-06 Score=57.28 Aligned_cols=28 Identities=32% Similarity=0.854 Sum_probs=26.7
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccH
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHS 100 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~ 100 (114)
..+|.||||+++.|+.+.+|||-.+||+
T Consensus 177 kGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 177 KGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred CCcEEEEhhhccCCCceeccceEEEeec
Confidence 6789999999999999999999999996
No 42
>KOG1039|consensus
Probab=97.91 E-value=4.5e-06 Score=61.17 Aligned_cols=42 Identities=26% Similarity=0.795 Sum_probs=32.2
Q ss_pred CCcccccCCcCCCCC----ceEEeC-CCCcccHHhHHHHH--hC-----CCCCC
Q psy16979 73 DAQCVICLAPFQPGE----EVKELL-CHHKFHSECLEPWL--RE-----RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~----~~~~lp-C~H~FH~~Ci~~Wl--~~-----~~~CP 114 (114)
+.+|.||++...+.. .-..|| |.|.|+..||+.|- ++ .+.||
T Consensus 161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP 214 (344)
T KOG1039|consen 161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCP 214 (344)
T ss_pred cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCC
Confidence 789999999976543 124446 99999999999998 33 35687
No 43
>KOG2164|consensus
Probab=97.89 E-value=9.5e-06 Score=61.57 Aligned_cols=35 Identities=31% Similarity=0.597 Sum_probs=27.3
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER 110 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~ 110 (114)
+..|+|||+..... .++.|||+||..||...+...
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s 220 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYS 220 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhh
Confidence 56899999985533 334499999999999987653
No 44
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.87 E-value=8.1e-06 Score=58.29 Aligned_cols=39 Identities=31% Similarity=0.604 Sum_probs=34.6
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
-..|-||-+-|... ...+|||.|+.-||+..|..+..||
T Consensus 25 ~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP 63 (391)
T COG5432 25 MLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCP 63 (391)
T ss_pred HHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCc
Confidence 46799999998754 6678999999999999999999998
No 45
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.80 E-value=2.4e-05 Score=43.08 Aligned_cols=40 Identities=33% Similarity=0.806 Sum_probs=28.3
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC--CCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER--QHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~--~~CP 114 (114)
...|+|.+..|+ +.++...|+|+|-++.|..||+++ ..||
T Consensus 11 ~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CP 52 (57)
T PF11789_consen 11 SLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCP 52 (57)
T ss_dssp -SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-S
T ss_pred ccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCC
Confidence 678999999987 567777899999999999999543 3487
No 46
>KOG0825|consensus
Probab=97.75 E-value=4.4e-06 Score=66.29 Aligned_cols=42 Identities=36% Similarity=0.667 Sum_probs=36.0
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|+||+..+.++.....-+|+|.||..||..|-+..++||
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCP 164 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCP 164 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCc
Confidence 456888888877776667778999999999999999999998
No 47
>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=97.64 E-value=2.1e-05 Score=48.13 Aligned_cols=31 Identities=23% Similarity=0.639 Sum_probs=26.9
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLE 104 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~ 104 (114)
+..|+||-..+.. ......||+|+||..|++
T Consensus 78 ~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 5679999999876 467888999999999975
No 48
>KOG1941|consensus
Probab=97.50 E-value=3.7e-05 Score=56.95 Aligned_cols=42 Identities=29% Similarity=0.703 Sum_probs=36.0
Q ss_pred CCcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCC--CCCC
Q psy16979 73 DAQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRER--QHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~--~~CP 114 (114)
+--|..|-+.+...+ ....|||.|+||..|+...|+.+ ++||
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP 409 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCP 409 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCc
Confidence 567999999998655 67889999999999999999764 5798
No 49
>KOG1814|consensus
Probab=97.37 E-value=9.3e-05 Score=55.06 Aligned_cols=37 Identities=27% Similarity=0.507 Sum_probs=32.9
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
...|.||+++.........|||+|+|++.|+...+..
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~ 220 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTI 220 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHHH
Confidence 5789999999876678899999999999999999874
No 50
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.35 E-value=0.00012 Score=38.77 Aligned_cols=38 Identities=37% Similarity=0.781 Sum_probs=25.3
Q ss_pred ccccCCcCCCCCceEEeCCC--C---cccHHhHHHHHhC--CCCCC
Q psy16979 76 CVICLAPFQPGEEVKELLCH--H---KFHSECLEPWLRE--RQHCP 114 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~--H---~FH~~Ci~~Wl~~--~~~CP 114 (114)
|-||+++-..++ ..+.||+ = ..|.+|+..|+.. +.+|+
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~ 45 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCE 45 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-T
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCC
Confidence 779999977665 4556765 3 7899999999974 34464
No 51
>KOG4445|consensus
Probab=97.30 E-value=0.00014 Score=52.27 Aligned_cols=36 Identities=36% Similarity=0.759 Sum_probs=33.5
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR 108 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~ 108 (114)
...|.|||--|..++...+++|-|.||..|+.+.|.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~ 150 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLT 150 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHH
Confidence 668999999999999999999999999999998875
No 52
>KOG0311|consensus
Probab=97.27 E-value=2.6e-05 Score=56.92 Aligned_cols=39 Identities=31% Similarity=0.710 Sum_probs=32.2
Q ss_pred CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhC-CCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRE-RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~-~~~CP 114 (114)
+..|+|||+-++.. +..+ |.|.|+.+||..-|+. +++||
T Consensus 43 ~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecp 83 (381)
T KOG0311|consen 43 QVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECP 83 (381)
T ss_pred hhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCc
Confidence 67899999998643 4455 9999999999999987 56788
No 53
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.22 E-value=7.1e-05 Score=41.92 Aligned_cols=37 Identities=30% Similarity=0.669 Sum_probs=18.6
Q ss_pred CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
-.|++|.+-+... +..-.|.|+|++.||..-+.. .||
T Consensus 8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~~--~CP 44 (65)
T PF14835_consen 8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIGS--ECP 44 (65)
T ss_dssp TS-SSS-S--SS---B---SSS--B-TTTGGGGTTT--B-S
T ss_pred cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcCC--CCC
Confidence 4699999997643 445569999999999885443 376
No 54
>KOG0297|consensus
Probab=97.13 E-value=0.00023 Score=53.26 Aligned_cols=40 Identities=30% Similarity=0.718 Sum_probs=34.4
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
+..|+||...+.+.- ....|+|.|+..|+..|+..+..||
T Consensus 21 ~l~C~~C~~vl~~p~--~~~~cgh~fC~~C~~~~~~~~~~cp 60 (391)
T KOG0297|consen 21 NLLCPICMSVLRDPV--QTTTCGHRFCAGCLLESLSNHQKCP 60 (391)
T ss_pred cccCccccccccCCC--CCCCCCCcccccccchhhccCcCCc
Confidence 678999999987553 3368999999999999999988887
No 55
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=97.07 E-value=0.00074 Score=36.59 Aligned_cols=33 Identities=24% Similarity=0.733 Sum_probs=29.1
Q ss_pred CCcccccCCcCCCCCceEEeC-CCCcccHHhHHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~ 105 (114)
...|.+|-+.|.+++.+++.| |+-.+|++|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 457999999999888888898 999999999643
No 56
>KOG0978|consensus
Probab=96.96 E-value=0.0002 Score=56.71 Aligned_cols=38 Identities=24% Similarity=0.725 Sum_probs=30.5
Q ss_pred CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979 74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP 114 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP 114 (114)
-.|+.|-..++ .++...|+|+||..||.+-+.. ++.||
T Consensus 644 LkCs~Cn~R~K---d~vI~kC~H~FC~~Cvq~r~etRqRKCP 682 (698)
T KOG0978|consen 644 LKCSVCNTRWK---DAVITKCGHVFCEECVQTRYETRQRKCP 682 (698)
T ss_pred eeCCCccCchh---hHHHHhcchHHHHHHHHHHHHHhcCCCC
Confidence 46999996654 3355569999999999999964 67798
No 57
>KOG4265|consensus
Probab=96.93 E-value=0.0008 Score=49.31 Aligned_cols=39 Identities=31% Similarity=0.709 Sum_probs=31.8
Q ss_pred CCcccccCCcCCCCCceEEeCCCC-cccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHH-KFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H-~FH~~Ci~~Wl~~~~~CP 114 (114)
..+|.|||.+-. .+.+|||.| -.+..|.+.---+++.||
T Consensus 290 gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q~n~CP 329 (349)
T KOG4265|consen 290 GKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQTNNCP 329 (349)
T ss_pred CCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHhhcCCC
Confidence 678999998854 458999999 589999888555677888
No 58
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.90 E-value=0.0005 Score=46.80 Aligned_cols=38 Identities=24% Similarity=0.464 Sum_probs=31.0
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHC 113 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~C 113 (114)
...|.||.++|+.. ++..|||.|+..|...=.+....|
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C 233 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDEC 233 (259)
T ss_pred ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcc
Confidence 56899999999865 677899999999988766665554
No 59
>KOG0824|consensus
Probab=96.72 E-value=0.0008 Score=48.37 Aligned_cols=39 Identities=26% Similarity=0.650 Sum_probs=29.7
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-CCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~CP 114 (114)
..+|+||+.+-.-. ..|+|+|.|+.-||+-=.+. ..+||
T Consensus 7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~Ca 46 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCA 46 (324)
T ss_pred CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCc
Confidence 56899999885433 78999999999999875544 34464
No 60
>KOG4159|consensus
Probab=96.63 E-value=0.0011 Score=49.66 Aligned_cols=39 Identities=31% Similarity=0.749 Sum_probs=33.4
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
+..|.||+..+... +.+||||.|+..||.+-+.+...||
T Consensus 84 ef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp 122 (398)
T KOG4159|consen 84 EFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECP 122 (398)
T ss_pred hhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCc
Confidence 78999999887654 6669999999999999887777787
No 61
>KOG2879|consensus
Probab=96.60 E-value=0.0026 Score=45.26 Aligned_cols=40 Identities=25% Similarity=0.472 Sum_probs=31.7
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC--CCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE--RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~--~~~CP 114 (114)
+.+|++|-+. +-......+|+|+|+.-||..=+.- .-+||
T Consensus 239 ~~~C~~Cg~~--PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp 280 (298)
T KOG2879|consen 239 DTECPVCGEP--PTIPHVIGKCGHIYCYYCIATSRLWDASFTCP 280 (298)
T ss_pred CceeeccCCC--CCCCeeeccccceeehhhhhhhhcchhhcccC
Confidence 7899999987 4445677789999999999986653 34676
No 62
>KOG1952|consensus
Probab=96.59 E-value=0.00097 Score=53.70 Aligned_cols=37 Identities=30% Similarity=0.731 Sum_probs=29.4
Q ss_pred CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~ 109 (114)
..+|.||.+.+.....+=.. .|=|+||..||.+|-+.
T Consensus 191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs 228 (950)
T KOG1952|consen 191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARS 228 (950)
T ss_pred ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHH
Confidence 57899999999876643222 37799999999999864
No 63
>PHA03096 p28-like protein; Provisional
Probab=96.59 E-value=0.0011 Score=47.79 Aligned_cols=36 Identities=28% Similarity=0.595 Sum_probs=29.5
Q ss_pred CcccccCCcCCCC----CceEEeC-CCCcccHHhHHHHHhC
Q psy16979 74 AQCVICLAPFQPG----EEVKELL-CHHKFHSECLEPWLRE 109 (114)
Q Consensus 74 ~~C~ICl~~~~~~----~~~~~lp-C~H~FH~~Ci~~Wl~~ 109 (114)
..|.||++..... ..-..|+ |.|.|+..||..|-..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~ 219 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE 219 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence 5799999997643 2456777 9999999999999865
No 64
>KOG0826|consensus
Probab=96.56 E-value=0.0074 Score=44.02 Aligned_cols=40 Identities=23% Similarity=0.442 Sum_probs=32.4
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|+||+....... +.---|=+||..||.+.+..++.||
T Consensus 300 ~~~CpvClk~r~Npt--vl~vSGyVfCY~Ci~~Yv~~~~~CP 339 (357)
T KOG0826|consen 300 REVCPVCLKKRQNPT--VLEVSGYVFCYPCIFSYVVNYGHCP 339 (357)
T ss_pred cccChhHHhccCCCc--eEEecceEEeHHHHHHHHHhcCCCC
Confidence 678999998865442 2223688999999999999999998
No 65
>PHA02862 5L protein; Provisional
Probab=96.43 E-value=0.0026 Score=41.18 Aligned_cols=38 Identities=21% Similarity=0.625 Sum_probs=27.7
Q ss_pred CCcccccCCcCCCCCceEEeCCC-----CcccHHhHHHHHhCC--CCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCH-----HKFHSECLEPWLRER--QHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~-----H~FH~~Ci~~Wl~~~--~~CP 114 (114)
++.|-||+++-+++ .-||+ ..-|.+|+.+|++.+ .+||
T Consensus 2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~Ce 46 (156)
T PHA02862 2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECN 46 (156)
T ss_pred CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCcc
Confidence 46799999985332 34755 578999999999763 3575
No 66
>KOG2660|consensus
Probab=96.36 E-value=0.00075 Score=48.98 Aligned_cols=40 Identities=25% Similarity=0.611 Sum_probs=32.9
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
-.+|.+|-.-|.+.. .+.-|-|.|+++||.+.|...++||
T Consensus 15 ~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~~~CP 54 (331)
T KOG2660|consen 15 HITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEESKYCP 54 (331)
T ss_pred ceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHhccCC
Confidence 568999998876542 2334999999999999999999998
No 67
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.34 E-value=0.004 Score=40.97 Aligned_cols=38 Identities=32% Similarity=0.806 Sum_probs=27.2
Q ss_pred CCcccccCCcCCCCCceEEeCCC--C---cccHHhHHHHHhCC--CCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCH--H---KFHSECLEPWLRER--QHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~--H---~FH~~Ci~~Wl~~~--~~CP 114 (114)
+..|-||.++-. +. .-||. . .-|.+|+..|+..+ .+||
T Consensus 8 ~~~CRIC~~~~~--~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~Ce 52 (162)
T PHA02825 8 DKCCWICKDEYD--VV--TNYCNCKNENKIVHKECLEEWINTSKNKSCK 52 (162)
T ss_pred CCeeEecCCCCC--Cc--cCCcccCCCchHHHHHHHHHHHhcCCCCccc
Confidence 678999998843 22 24755 4 56999999999764 3464
No 68
>KOG2034|consensus
Probab=96.34 E-value=0.0017 Score=52.54 Aligned_cols=34 Identities=26% Similarity=0.540 Sum_probs=28.4
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWL 107 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl 107 (114)
++.|.+|.-.+... .-.+.||+|.||++||.+--
T Consensus 817 ~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 817 QDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred ccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 68999999887544 66788999999999998753
No 69
>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=96.34 E-value=0.0018 Score=33.57 Aligned_cols=39 Identities=26% Similarity=0.799 Sum_probs=22.8
Q ss_pred ccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC--CCC
Q psy16979 76 CVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ--HCP 114 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~--~CP 114 (114)
|.+|.+-...|.....-.|+=.+|..|+..+++.++ .||
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP 41 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCP 41 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-T
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCc
Confidence 778888888775444334999999999999998765 688
No 70
>KOG3039|consensus
Probab=96.17 E-value=0.005 Score=43.33 Aligned_cols=42 Identities=19% Similarity=0.289 Sum_probs=36.5
Q ss_pred CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|+||.+.+.....+..| ||||+|..+|+.+.++....||
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~p 263 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDP 263 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccccccc
Confidence 46799999999988888888 6999999999999887766665
No 71
>KOG1428|consensus
Probab=96.07 E-value=0.0041 Score=53.28 Aligned_cols=37 Identities=30% Similarity=0.634 Sum_probs=32.2
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
++.|.||..+--......+|.|+|+||..|.+.-|++
T Consensus 3486 DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~ 3522 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLEN 3522 (3738)
T ss_pred CceEEEEehhhhCCCcceecCCccchhHHHHHHHHHh
Confidence 7899999998777778899999999999999876654
No 72
>KOG3970|consensus
Probab=96.04 E-value=0.0041 Score=43.24 Aligned_cols=36 Identities=31% Similarity=0.809 Sum_probs=31.4
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
...|..|--.+..|+. .+|-|-|.||.+|+..|-..
T Consensus 50 ~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~ 85 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAAN 85 (299)
T ss_pred CCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhh
Confidence 6679999999998865 66899999999999999754
No 73
>KOG0309|consensus
Probab=95.99 E-value=0.0037 Score=50.16 Aligned_cols=27 Identities=30% Similarity=0.648 Sum_probs=23.5
Q ss_pred ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 88 EVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 88 ~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
......|+|+-|.+|...|++....||
T Consensus 1042 s~~Cg~C~Hv~H~sc~~eWf~~gd~Cp 1068 (1081)
T KOG0309|consen 1042 SNFCGTCGHVGHTSCMMEWFRTGDVCP 1068 (1081)
T ss_pred chhhccccccccHHHHHHHHhcCCcCC
Confidence 345567999999999999999999998
No 74
>KOG1785|consensus
Probab=95.87 E-value=0.004 Score=46.67 Aligned_cols=39 Identities=33% Similarity=0.727 Sum_probs=31.0
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC--CCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE--RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~--~~~CP 114 (114)
-+.|-||-|. +..|++-||||..+..|+..|=.. .++||
T Consensus 369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CP 409 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCP 409 (563)
T ss_pred HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCC
Confidence 4579999876 235677799999999999999743 56787
No 75
>KOG4692|consensus
Probab=95.83 E-value=0.0065 Score=44.89 Aligned_cols=38 Identities=26% Similarity=0.485 Sum_probs=30.5
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHC 113 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~C 113 (114)
+..|+||...= -..+..||+|.=+..||.+.|-..+.|
T Consensus 422 d~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~C 459 (489)
T KOG4692|consen 422 DNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRC 459 (489)
T ss_pred cccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCee
Confidence 78999998652 234666999999999999999876665
No 76
>KOG1940|consensus
Probab=95.45 E-value=0.0076 Score=43.16 Aligned_cols=42 Identities=31% Similarity=0.608 Sum_probs=35.1
Q ss_pred CCcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|+||.+.+..+. .+..++|+|.-|..|...-...+-+||
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP 200 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCP 200 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCC
Confidence 445999999988776 567889999999999988877777787
No 77
>KOG0827|consensus
Probab=95.40 E-value=0.00055 Score=50.80 Aligned_cols=42 Identities=21% Similarity=0.650 Sum_probs=35.3
Q ss_pred CCcccccCCcCCCC-CceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPG-EEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~-~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|+||.+.++.. +++..+-|+|.+|.+||.+||.....||
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~ 238 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLP 238 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhH
Confidence 56799999999876 6777888999999999999997655443
No 78
>KOG1813|consensus
Probab=95.27 E-value=0.0072 Score=43.48 Aligned_cols=38 Identities=24% Similarity=0.449 Sum_probs=32.3
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHC 113 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~C 113 (114)
...|-||...|... ++..|+|.|+..|-..-+++...|
T Consensus 241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c 278 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKC 278 (313)
T ss_pred Cccccccccccccc---hhhcCCceeehhhhccccccCCcc
Confidence 56799999999866 778899999999998888776655
No 79
>KOG1002|consensus
Probab=95.24 E-value=0.01 Score=46.04 Aligned_cols=39 Identities=31% Similarity=0.818 Sum_probs=30.3
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC-----CCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE-----RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-----~~~CP 114 (114)
...|.+|-+.-++ .....|.|.|++-||.++... +-+||
T Consensus 536 ~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP 579 (791)
T KOG1002|consen 536 EVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCP 579 (791)
T ss_pred ceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCc
Confidence 6789999987543 366679999999999888754 33577
No 80
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.95 E-value=0.025 Score=29.94 Aligned_cols=39 Identities=21% Similarity=0.527 Sum_probs=19.1
Q ss_pred ccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979 76 CVICLAPFQPGE-EVKELLCHHKFHSECLEPWLR-ERQHCP 114 (114)
Q Consensus 76 C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~-~~~~CP 114 (114)
|++|.+++...+ ...--+|++..+..|...-++ ....||
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CP 41 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCP 41 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-T
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCC
Confidence 789999994333 334345889999999888775 366687
No 81
>KOG3268|consensus
Probab=94.84 E-value=0.015 Score=39.10 Aligned_cols=36 Identities=36% Similarity=0.785 Sum_probs=24.1
Q ss_pred CcccccCCcCCCCC----ceEEeCCCCcccHHhHHHHHhC
Q psy16979 74 AQCVICLAPFQPGE----EVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 74 ~~C~ICl~~~~~~~----~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
..|.||+.---+|. ..--..|+..||.-|+..||+.
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRg 205 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRG 205 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHH
Confidence 45666664433332 2233469999999999999974
No 82
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.24 E-value=0.058 Score=38.33 Aligned_cols=41 Identities=20% Similarity=0.417 Sum_probs=31.5
Q ss_pred CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|||...+|......+.| ||||+|-..+|..- +....||
T Consensus 113 ~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp 154 (260)
T PF04641_consen 113 RFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCP 154 (260)
T ss_pred eeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-ccccccc
Confidence 67899999999655555444 89999999999885 3344576
No 83
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=94.23 E-value=0.027 Score=39.66 Aligned_cols=42 Identities=19% Similarity=0.543 Sum_probs=32.4
Q ss_pred CCcccccCCcCCCCC--ceEEeC-CCCcccHHhHHHHHhCC-CCCC
Q psy16979 73 DAQCVICLAPFQPGE--EVKELL-CHHKFHSECLEPWLRER-QHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~--~~~~lp-C~H~FH~~Ci~~Wl~~~-~~CP 114 (114)
+..||||..+.-..- ++.+-| |=|..+.+|+++-|.+. ..||
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP 55 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCP 55 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCC
Confidence 568999998854443 344447 99999999999999874 5687
No 84
>KOG1812|consensus
Probab=94.11 E-value=0.018 Score=43.24 Aligned_cols=37 Identities=22% Similarity=0.593 Sum_probs=28.7
Q ss_pred CCcccccCCcCCCC-CceEEeCCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPG-EEVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~-~~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
..+|.||..+.... .....+.|+|.|+.+|+.+.++.
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 67899999554444 44456679999999999988874
No 85
>KOG4185|consensus
Probab=93.74 E-value=0.053 Score=38.95 Aligned_cols=36 Identities=22% Similarity=0.550 Sum_probs=29.4
Q ss_pred CcccccCCcCCCCC---ceEEeCCCCcccHHhHHHHHhC
Q psy16979 74 AQCVICLAPFQPGE---EVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 74 ~~C~ICl~~~~~~~---~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
..|-||-++|..++ .-+.|.|||.|+..|+.+-+..
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~ 42 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN 42 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcC
Confidence 57999999999764 2366779999999999886654
No 86
>KOG4172|consensus
Probab=93.48 E-value=0.028 Score=30.51 Aligned_cols=39 Identities=21% Similarity=0.406 Sum_probs=27.1
Q ss_pred CCcccccCCcCCCCCceEEeCCCCc-ccHHhHHHHHh-CCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECLEPWLR-ERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~-~~~~CP 114 (114)
+++|.||+|.-.+. +...|||. .+.+|-.+-++ .+..||
T Consensus 7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CP 47 (62)
T KOG4172|consen 7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCP 47 (62)
T ss_pred ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCc
Confidence 57899999874322 33459995 67788766555 577787
No 87
>KOG2114|consensus
Probab=92.52 E-value=0.078 Score=43.25 Aligned_cols=37 Identities=30% Similarity=0.833 Sum_probs=27.5
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|..|--.+.. +.+-.-|+|.||..|+. .....||
T Consensus 840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP 876 (933)
T KOG2114|consen 840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCP 876 (933)
T ss_pred eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCC
Confidence 4589999888653 45667799999999987 2334576
No 88
>KOG0298|consensus
Probab=92.48 E-value=0.029 Score=47.41 Aligned_cols=40 Identities=30% Similarity=0.578 Sum_probs=33.7
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|.||++.+... ..+..|+|.++..|+..|+..+..||
T Consensus 1153 ~~~c~ic~dil~~~--~~I~~cgh~~c~~c~~~~l~~~s~~~ 1192 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQ--GGIAGCGHEPCCRCDELWLYASSRCP 1192 (1394)
T ss_pred ccchHHHHHHHHhc--CCeeeechhHhhhHHHHHHHHhccCc
Confidence 45899999998733 25567999999999999999999887
No 89
>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 KOG1609|consensus
Probab=91.81 E-value=0.098 Score=37.60 Aligned_cols=38 Identities=24% Similarity=0.526 Sum_probs=28.6
Q ss_pred CCcccccCCcCCCCCc-eEEeCCC-----CcccHHhHHHHHhCC
Q psy16979 73 DAQCVICLAPFQPGEE-VKELLCH-----HKFHSECLEPWLRER 110 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~-~~~lpC~-----H~FH~~Ci~~Wl~~~ 110 (114)
+..|-||.++...... ....||. +..|+.|+..|+..+
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~ 121 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIK 121 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccc
Confidence 4689999998765432 4556765 678999999999854
No 91
>KOG2932|consensus
Probab=91.22 E-value=0.091 Score=38.35 Aligned_cols=36 Identities=28% Similarity=0.578 Sum_probs=22.4
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
.|--|--.+. -..|.+||+|+|+.+|... ..-+.||
T Consensus 92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp 127 (389)
T KOG2932|consen 92 FCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICP 127 (389)
T ss_pred eecccCCcce--eeecccccchhhhhhhhhc--CccccCc
Confidence 4555543332 2336779999999999764 2234565
No 92
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=90.84 E-value=0.093 Score=28.51 Aligned_cols=36 Identities=28% Similarity=0.575 Sum_probs=24.4
Q ss_pred CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
..|..|... +.+-.++||+|.....|..-| +-+-||
T Consensus 8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCP 43 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCP 43 (55)
T ss_pred eeEEEcccc---ccccccccccceeeccccChh--hccCCC
Confidence 345555544 334578899999999997764 455676
No 93
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=90.80 E-value=0.14 Score=23.56 Aligned_cols=23 Identities=26% Similarity=0.395 Sum_probs=16.9
Q ss_pred cccccCCcCCCCCceEEeC-CCCccc
Q psy16979 75 QCVICLAPFQPGEEVKELL-CHHKFH 99 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lp-C~H~FH 99 (114)
.|+-|..++... .+.-| |||.|-
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCCc
Confidence 588888887544 46668 999983
No 94
>KOG4367|consensus
Probab=90.80 E-value=0.15 Score=38.91 Aligned_cols=34 Identities=21% Similarity=0.513 Sum_probs=28.8
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
+..|+||..-|++. ++|||+|..+..|...-+.+
T Consensus 4 elkc~vc~~f~~ep---iil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 4 ELKCPVCGSFYREP---IILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccCceehhhccCc---eEeecccHHHHHHHHhhccc
Confidence 45799999999866 89999999999998876543
No 95
>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=90.65 E-value=0.15 Score=26.72 Aligned_cols=31 Identities=26% Similarity=0.664 Sum_probs=21.8
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhHHH
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEP 105 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~ 105 (114)
.|.||...-..++.+.--.|+..||..|+..
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~ 31 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGP 31 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTS
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCC
Confidence 3889999544444444335999999999864
No 96
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.54 E-value=0.25 Score=36.00 Aligned_cols=39 Identities=28% Similarity=0.709 Sum_probs=28.7
Q ss_pred CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhC-CCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRE-RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~-~~~CP 114 (114)
...|+.|..-+.. .+++ | |+|.|+..||..-|.. ...||
T Consensus 274 ~LkCplc~~Llrn--p~kT-~cC~~~fc~eci~~al~dsDf~Cp 314 (427)
T COG5222 274 SLKCPLCHCLLRN--PMKT-PCCGHTFCDECIGTALLDSDFKCP 314 (427)
T ss_pred cccCcchhhhhhC--cccC-ccccchHHHHHHhhhhhhccccCC
Confidence 3569999877553 3344 6 9999999999988865 44576
No 97
>KOG3800|consensus
Probab=90.53 E-value=0.31 Score=35.16 Aligned_cols=40 Identities=18% Similarity=0.449 Sum_probs=29.3
Q ss_pred cccccCCcCCCCC--ceEEeCCCCcccHHhHHHHHhCCC-CCC
Q psy16979 75 QCVICLAPFQPGE--EVKELLCHHKFHSECLEPWLRERQ-HCP 114 (114)
Q Consensus 75 ~C~ICl~~~~~~~--~~~~lpC~H~FH~~Ci~~Wl~~~~-~CP 114 (114)
.|++|..+.-... ...+-||+|..+.+|++.-|.... .||
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~Cp 44 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCP 44 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCC
Confidence 5999998744333 233337999999999999887754 577
No 98
>KOG3161|consensus
Probab=90.39 E-value=0.063 Score=42.67 Aligned_cols=39 Identities=31% Similarity=0.629 Sum_probs=29.2
Q ss_pred CcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 74 AQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 74 ~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
..|.||+..|.... .-+-|.|+|..+..|+..- .+.+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC
Confidence 46999999987665 3355669999999999874 344555
No 99
>KOG1815|consensus
Probab=90.19 E-value=0.18 Score=38.59 Aligned_cols=35 Identities=34% Similarity=0.747 Sum_probs=30.7
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
...|-||.+.+.. .+..+.|+|.|+..|+...++.
T Consensus 70 ~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 70 DVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred cccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 6789999999876 6677889999999999998875
No 100
>KOG0802|consensus
Probab=89.88 E-value=0.098 Score=40.94 Aligned_cols=35 Identities=31% Similarity=0.864 Sum_probs=30.5
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
.+.|.||+++. ..+..+|. |..|+.+|+..+..||
T Consensus 479 ~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~p 513 (543)
T KOG0802|consen 479 NDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCP 513 (543)
T ss_pred cCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccC
Confidence 78899999998 44667788 9999999999998887
No 101
>KOG2066|consensus
Probab=88.85 E-value=0.17 Score=40.99 Aligned_cols=38 Identities=32% Similarity=0.693 Sum_probs=30.1
Q ss_pred CCcccccCCcCCC-C---CceEEeCCCCcccHHhHHHHHhCC
Q psy16979 73 DAQCVICLAPFQP-G---EEVKELLCHHKFHSECLEPWLRER 110 (114)
Q Consensus 73 ~~~C~ICl~~~~~-~---~~~~~lpC~H~FH~~Ci~~Wl~~~ 110 (114)
+..|.-|.+.... + +.+.++.|+|.||..|+..-..++
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~ 825 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN 825 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc
Confidence 5679999988663 2 467899999999999997766554
No 102
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=87.96 E-value=0.33 Score=27.31 Aligned_cols=12 Identities=42% Similarity=1.090 Sum_probs=8.9
Q ss_pred cccHHhHHHHHh
Q psy16979 97 KFHSECLEPWLR 108 (114)
Q Consensus 97 ~FH~~Ci~~Wl~ 108 (114)
.|++.||.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999986
No 103
>KOG3053|consensus
Probab=87.26 E-value=0.31 Score=34.70 Aligned_cols=37 Identities=27% Similarity=0.581 Sum_probs=26.9
Q ss_pred CCcccccCCcCCCCCce-EEeCCC-----CcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEEV-KELLCH-----HKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~-~~lpC~-----H~FH~~Ci~~Wl~~ 109 (114)
+..|-||+..=++.... =+-||. |-.|..||..|+..
T Consensus 20 eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDE 62 (293)
T KOG3053|consen 20 ERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDE 62 (293)
T ss_pred ceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhH
Confidence 67899999985544321 233654 88999999999965
No 104
>KOG0269|consensus
Probab=87.15 E-value=0.52 Score=38.26 Aligned_cols=40 Identities=25% Similarity=0.581 Sum_probs=28.8
Q ss_pred CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|.+|-..+. |.. .-.+ |+|.-|.+|+.+|+....-||
T Consensus 779 ~~~CtVC~~vi~-G~~-~~c~~C~H~gH~sh~~sw~~~~s~ca 819 (839)
T KOG0269|consen 779 SAKCTVCDLVIR-GVD-VWCQVCGHGGHDSHLKSWFFKASPCA 819 (839)
T ss_pred hcCceeecceee-eeE-eecccccccccHHHHHHHHhcCCCCc
Confidence 347888876653 211 2223 999999999999999877665
No 105
>KOG1001|consensus
Probab=87.03 E-value=0.46 Score=38.33 Aligned_cols=32 Identities=28% Similarity=0.547 Sum_probs=26.9
Q ss_pred CcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979 74 AQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
..|.||++ .+.....+|+|.|+..|+..-+..
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~ 486 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQ 486 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhcccc
Confidence 68999999 456678899999999999887654
No 106
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=86.80 E-value=0.39 Score=23.80 Aligned_cols=25 Identities=24% Similarity=0.563 Sum_probs=17.1
Q ss_pred cccccCCcCCCCCc-------eEEeC-CCCccc
Q psy16979 75 QCVICLAPFQPGEE-------VKELL-CHHKFH 99 (114)
Q Consensus 75 ~C~ICl~~~~~~~~-------~~~lp-C~H~FH 99 (114)
.|+-|-..|...+. ..+.| |+|+|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 58888888875442 34445 999986
No 107
>KOG1812|consensus
Probab=86.07 E-value=0.37 Score=36.25 Aligned_cols=41 Identities=24% Similarity=0.457 Sum_probs=30.1
Q ss_pred CCcccccCCcCCCCCce--EEeCCCCcccHHhHHHHHhCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEV--KELLCHHKFHSECLEPWLRERQHC 113 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~--~~lpC~H~FH~~Ci~~Wl~~~~~C 113 (114)
-..|++|.-.++..... .+..|+|.|+..|...|...+..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~ 348 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGEC 348 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccc
Confidence 45799998887765533 333499999999999997765543
No 108
>KOG1829|consensus
Probab=85.24 E-value=0.34 Score=38.25 Aligned_cols=39 Identities=26% Similarity=0.636 Sum_probs=23.8
Q ss_pred CCcccccCCc-----CCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAP-----FQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~-----~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|.||-.. |+.....+...|+++||..|+.. .+..||
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CP 554 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCP 554 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCC
Confidence 6778888433 33222234445999999999543 233377
No 109
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=85.03 E-value=0.83 Score=31.31 Aligned_cols=36 Identities=31% Similarity=0.742 Sum_probs=25.2
Q ss_pred CCcccccCCc-----CCCCCceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAP-----FQPGEEVKELL-CHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~-----~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP 114 (114)
+..|-||-++ |.. +.+.+.+ |+-+||+.|..+ ..||
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~Cp 193 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCP 193 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCC
Confidence 5788899864 223 2455555 999999999652 5687
No 110
>KOG1729|consensus
Probab=84.98 E-value=0.11 Score=37.54 Aligned_cols=38 Identities=24% Similarity=0.506 Sum_probs=31.3
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRER 110 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~ 110 (114)
...|.+|+++|..+.....+-|.-+||..|+..|++..
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ceecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 34899999999876666666666699999999999763
No 111
>KOG1571|consensus
Probab=84.29 E-value=1.2 Score=33.18 Aligned_cols=36 Identities=25% Similarity=0.524 Sum_probs=25.2
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
.+.|.||+++... ..-+||||.=+ |..-- +...+||
T Consensus 305 p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CP 340 (355)
T KOG1571|consen 305 PDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCP 340 (355)
T ss_pred CCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCc
Confidence 6789999999664 68889999855 54332 2233477
No 112
>KOG2817|consensus
Probab=84.21 E-value=1.1 Score=33.68 Aligned_cols=39 Identities=13% Similarity=0.198 Sum_probs=33.9
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ 111 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~ 111 (114)
...|||=.+.-.+.+.-..|.|||+.-++=|.+-.+...
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~ 372 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGS 372 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCC
Confidence 578999999998889999999999999999998666533
No 113
>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=82.03 E-value=1.1 Score=20.88 Aligned_cols=29 Identities=28% Similarity=0.580 Sum_probs=11.1
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhH
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECL 103 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci 103 (114)
.|.+|.+....+....-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 58889988766334455569999999986
No 114
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=81.85 E-value=3.4 Score=22.95 Aligned_cols=40 Identities=10% Similarity=0.159 Sum_probs=27.8
Q ss_pred ceeeCCCCCCCCcccccCCcCCC--CCceEEeC-CCCcccHHhH
Q psy16979 63 SIAFPADEAPDAQCVICLAPFQP--GEEVKELL-CHHKFHSECL 103 (114)
Q Consensus 63 ~~~~~~~~~~~~~C~ICl~~~~~--~~~~~~lp-C~H~FH~~Ci 103 (114)
...+.+... ...|+.|-...+. .......| ||+.+|++-.
T Consensus 19 v~~v~~~~T-Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~n 61 (69)
T PF07282_consen 19 VVEVDEAYT-SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVN 61 (69)
T ss_pred EEEECCCCC-ccCccCcccccccccccceEEcCCCCCEECcHHH
Confidence 334443332 5689999999887 44566667 9999998843
No 115
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=81.49 E-value=2.6 Score=31.52 Aligned_cols=39 Identities=23% Similarity=0.548 Sum_probs=28.8
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHH--HhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPW--LRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~W--l~~~~~CP 114 (114)
+..|-||-+.+. .+.++||+|..+--|-.+- |-.+..||
T Consensus 61 n~~C~ICA~~~T---Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~ 101 (493)
T COG5236 61 NMNCQICAGSTT---YSARYPCGHQICHACAVRLRALYMQKGCP 101 (493)
T ss_pred cceeEEecCCce---EEEeccCCchHHHHHHHHHHHHHhccCCC
Confidence 677999998764 5588999999999997652 23345564
No 116
>KOG0825|consensus
Probab=80.97 E-value=1.2 Score=36.64 Aligned_cols=37 Identities=11% Similarity=0.169 Sum_probs=28.9
Q ss_pred CCcccccCCcCCCCC-ceEEeC---CCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGE-EVKELL---CHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~-~~~~lp---C~H~FH~~Ci~~Wl~~ 109 (114)
...|.||.-++...+ ..-.+| |.|.|+..||..|+.+
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~Dq 136 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQ 136 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHH
Confidence 577888888887632 334455 9999999999999964
No 117
>KOG4739|consensus
Probab=80.58 E-value=1.1 Score=31.47 Aligned_cols=30 Identities=23% Similarity=0.505 Sum_probs=22.0
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhHHH
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEP 105 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~ 105 (114)
.|--|.--=. ++....+.|.|+|+..|..-
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~ 34 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKA 34 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhccc
Confidence 4666655433 66778888999999999754
No 118
>KOG4275|consensus
Probab=80.13 E-value=0.69 Score=33.63 Aligned_cols=28 Identities=25% Similarity=0.529 Sum_probs=20.8
Q ss_pred CCcccccCCcCCCCCceEEeCCCCc-ccHHhH
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHK-FHSECL 103 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~-FH~~Ci 103 (114)
...|.||++.-. ....|+|||. =+.+|-
T Consensus 300 ~~LC~ICmDaP~---DCvfLeCGHmVtCt~CG 328 (350)
T KOG4275|consen 300 RRLCAICMDAPR---DCVFLECGHMVTCTKCG 328 (350)
T ss_pred HHHHHHHhcCCc---ceEEeecCcEEeehhhc
Confidence 467999998743 4588999994 466664
No 119
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=79.94 E-value=1.6 Score=36.13 Aligned_cols=37 Identities=24% Similarity=0.505 Sum_probs=28.2
Q ss_pred CCcccccCCcCCCCCceEEeCCC-----CcccHHhHHHHHhCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCH-----HKFHSECLEPWLRER 110 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~-----H~FH~~Ci~~Wl~~~ 110 (114)
+..|-||..+=.+++. .--||+ ...|++|+.+|+.-.
T Consensus 12 ~~~CRICr~e~~~d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s 53 (1175)
T COG5183 12 KRSCRICRTEDIRDDP-LFHPCKCSGSIKYIHRECLMEWMECS 53 (1175)
T ss_pred chhceeecCCCCCCCc-CcccccccchhHHHHHHHHHHHHhcC
Confidence 5789999988666654 234766 468999999999753
No 120
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=79.66 E-value=1.2 Score=27.12 Aligned_cols=31 Identities=29% Similarity=0.621 Sum_probs=22.5
Q ss_pred CCcccccCCcCCCCCceEEeC--CCCcccHHhHHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELL--CHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp--C~H~FH~~Ci~~ 105 (114)
...|.||... .|..+.--. |...||..|...
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 5689999988 443333332 888999999865
No 121
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=78.33 E-value=2.2 Score=20.33 Aligned_cols=28 Identities=32% Similarity=0.653 Sum_probs=18.5
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhH
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECL 103 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci 103 (114)
.|..|.+.+..++.... .=+..||.+|.
T Consensus 1 ~C~~C~~~i~~~~~~~~-~~~~~~H~~Cf 28 (39)
T smart00132 1 KCAGCGKPIRGGELVLR-ALGKVWHPECF 28 (39)
T ss_pred CccccCCcccCCcEEEE-eCCccccccCC
Confidence 37888888876633222 23678888885
No 122
>KOG4718|consensus
Probab=77.39 E-value=1.3 Score=30.78 Aligned_cols=40 Identities=25% Similarity=0.683 Sum_probs=31.7
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
-..|.+|..-.-.|. +.=.|+-.+|..|+...|.+...||
T Consensus 181 lk~Cn~Ch~LvIqg~--rCg~c~i~~h~~c~qty~q~~~~cp 220 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGI--RCGSCNIQYHRGCIQTYLQRRDICP 220 (235)
T ss_pred HHHHhHhHHHhheee--ccCcccchhhhHHHHHHhcccCcCC
Confidence 457999998765442 2235889999999999999988887
No 123
>KOG2071|consensus
Probab=76.62 E-value=1.7 Score=34.35 Aligned_cols=33 Identities=33% Similarity=0.588 Sum_probs=23.3
Q ss_pred CCcccccCCcCCC------CC----ceEEeCCCCcccHHhHHH
Q psy16979 73 DAQCVICLAPFQP------GE----EVKELLCHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~~~------~~----~~~~lpC~H~FH~~Ci~~ 105 (114)
...|+||.|.|+. +. ..+.+.=|-+||..|+..
T Consensus 513 ~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e 555 (579)
T KOG2071|consen 513 QASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSE 555 (579)
T ss_pred ccCCcccccccceeecchhhheeecceeeeccCceeeccccch
Confidence 6789999999973 11 123333578999999865
No 124
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=76.53 E-value=1.4 Score=24.55 Aligned_cols=34 Identities=21% Similarity=0.371 Sum_probs=17.4
Q ss_pred CCcccccCCcCCCCCceEEe-CCCCcccHHhHHHH
Q psy16979 73 DAQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPW 106 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~W 106 (114)
...|.+|...|..-..-..- .||++|+.+|....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 56899999999765433333 39999999997543
No 125
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=74.46 E-value=1.7 Score=21.39 Aligned_cols=25 Identities=32% Similarity=0.659 Sum_probs=16.1
Q ss_pred cccccCCcCCCCCc--------eEEeCCCCccc
Q psy16979 75 QCVICLAPFQPGEE--------VKELLCHHKFH 99 (114)
Q Consensus 75 ~C~ICl~~~~~~~~--------~~~lpC~H~FH 99 (114)
+|+=|...|...+. ++--.|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 58888888875442 22223889885
No 126
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=74.28 E-value=2.6 Score=22.37 Aligned_cols=34 Identities=24% Similarity=0.498 Sum_probs=24.9
Q ss_pred CcccccCCcCCCCCceEEe-CCCCcccHHhHHHHH
Q psy16979 74 AQCVICLAPFQPGEEVKEL-LCHHKFHSECLEPWL 107 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~l-pC~H~FH~~Ci~~Wl 107 (114)
..|.+|-..|.....-... .||++|..+|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 5799999988765433333 499999999976544
No 127
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=74.18 E-value=2.5 Score=22.63 Aligned_cols=27 Identities=30% Similarity=0.754 Sum_probs=13.8
Q ss_pred ccccCCcCCCCC------ceEEeC-CCCcccHHh
Q psy16979 76 CVICLAPFQPGE------EVKELL-CHHKFHSEC 102 (114)
Q Consensus 76 C~ICl~~~~~~~------~~~~lp-C~H~FH~~C 102 (114)
|--|+..|..+. ...+-| |++.|+.+|
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC 35 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC 35 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc
Confidence 555666766542 345556 999999998
No 128
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=74.05 E-value=3.1 Score=25.17 Aligned_cols=34 Identities=21% Similarity=0.388 Sum_probs=28.5
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWL 107 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl 107 (114)
.-.|.||-+++..|++-.-.+ .-..|.+|+..=.
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~ 39 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESK 39 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHH
Confidence 457999999999999877777 7788999987644
No 129
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=73.44 E-value=2.7 Score=29.81 Aligned_cols=26 Identities=27% Similarity=0.464 Sum_probs=20.6
Q ss_pred CcccccCCcCCCCCceEEeCCCCccc
Q psy16979 74 AQCVICLAPFQPGEEVKELLCHHKFH 99 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~lpC~H~FH 99 (114)
..||||...+...+...+.+.+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCCc
Confidence 36999999998766666667889983
No 130
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.73 E-value=2 Score=25.81 Aligned_cols=13 Identities=46% Similarity=1.091 Sum_probs=11.1
Q ss_pred cccHHhHHHHHhC
Q psy16979 97 KFHSECLEPWLRE 109 (114)
Q Consensus 97 ~FH~~Ci~~Wl~~ 109 (114)
.|++.|+..|.+.
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 5999999999863
No 131
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=71.62 E-value=4.3 Score=30.34 Aligned_cols=42 Identities=17% Similarity=0.484 Sum_probs=26.9
Q ss_pred CCcccccCCcCCCCCc-eEEeCCCCcccHHhHHHHHh-CCCCCC
Q psy16979 73 DAQCVICLAPFQPGEE-VKELLCHHKFHSECLEPWLR-ERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~-~~~lpC~H~FH~~Ci~~Wl~-~~~~CP 114 (114)
++-|+.|+|++...++ ..-.|||-..+.-|...--+ -+..||
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcp 57 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCP 57 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCCh
Confidence 6679999999987664 44557886666666443211 134565
No 132
>KOG3579|consensus
Probab=71.44 E-value=2.2 Score=30.97 Aligned_cols=37 Identities=16% Similarity=0.364 Sum_probs=29.4
Q ss_pred CCcccccCCcCCCCCceEEeC--CCCcccHHhHHHHHhCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELL--CHHKFHSECLEPWLRER 110 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp--C~H~FH~~Ci~~Wl~~~ 110 (114)
...|.+|.|.+++. ..+..| =.|.|+.-|-++-+|++
T Consensus 268 pLcCTLC~ERLEDT-HFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDT-HFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccC-ceeecCCCcccceecccCHHHHHhh
Confidence 46799999998765 445555 45999999999999875
No 133
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=68.63 E-value=1.4 Score=23.75 Aligned_cols=22 Identities=27% Similarity=0.575 Sum_probs=16.6
Q ss_pred CCceEEe-CCCCcccHHhHHHHH
Q psy16979 86 GEEVKEL-LCHHKFHSECLEPWL 107 (114)
Q Consensus 86 ~~~~~~l-pC~H~FH~~Ci~~Wl 107 (114)
+...+.. .|+|.|+..|..+|-
T Consensus 37 ~~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 37 GCNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCeeECCCCCCeECCCCCCcCC
Confidence 3445666 499999999998883
No 134
>KOG1100|consensus
Probab=68.44 E-value=4 Score=28.17 Aligned_cols=26 Identities=31% Similarity=0.484 Sum_probs=19.1
Q ss_pred ccccCCcCCCCCceEEeCCCC-cccHHhHH
Q psy16979 76 CVICLAPFQPGEEVKELLCHH-KFHSECLE 104 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~H-~FH~~Ci~ 104 (114)
|-.|.+. +..|..|||.| .++..|=.
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~ 187 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDE 187 (207)
T ss_pred ceecCcC---CceEEeecccceEecccccc
Confidence 7777755 34688999997 67777854
No 135
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=68.16 E-value=3.8 Score=23.87 Aligned_cols=31 Identities=26% Similarity=0.605 Sum_probs=21.4
Q ss_pred CCcccccCCcCCCCCce--EEeCCCCcccHHhHHH
Q psy16979 73 DAQCVICLAPFQPGEEV--KELLCHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~--~~lpC~H~FH~~Ci~~ 105 (114)
...|.+|... .|..+ ..-.|.-.||..|...
T Consensus 36 ~~~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 4579999976 34322 2223889999999754
No 136
>KOG1815|consensus
Probab=67.81 E-value=1.7 Score=33.26 Aligned_cols=37 Identities=24% Similarity=0.538 Sum_probs=28.4
Q ss_pred CCcccccCCcCCCCCc-----eEEeCCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEE-----VKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~-----~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
...|+.|.-.++.+.. ....+|+|.|+..|+..|-..
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 4569999999987662 222359999999999998765
No 137
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG3039|consensus
Probab=64.41 E-value=4.6 Score=28.82 Aligned_cols=34 Identities=15% Similarity=0.139 Sum_probs=28.3
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
-+.|+.||..+.+. ++.|=||+|.+.||.+.+..
T Consensus 43 FdcCsLtLqPc~dP---vit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 43 FDCCSLTLQPCRDP---VITPDGYLFDREAILEYILA 76 (303)
T ss_pred cceeeeecccccCC---ccCCCCeeeeHHHHHHHHHH
Confidence 46799999998765 67788999999999988753
No 139
>KOG3005|consensus
Probab=64.07 E-value=3.1 Score=29.88 Aligned_cols=35 Identities=20% Similarity=0.367 Sum_probs=25.8
Q ss_pred CCcccccCCcCC-CCCceEEeC---CCCcccHHhHHHHH
Q psy16979 73 DAQCVICLAPFQ-PGEEVKELL---CHHKFHSECLEPWL 107 (114)
Q Consensus 73 ~~~C~ICl~~~~-~~~~~~~lp---C~H~FH~~Ci~~Wl 107 (114)
...|-+|.+++. .+......| |+-.+|..|+..-+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~ 220 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEEL 220 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHH
Confidence 368999999994 443333333 88999999999844
No 140
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=63.35 E-value=13 Score=27.90 Aligned_cols=54 Identities=17% Similarity=0.485 Sum_probs=31.7
Q ss_pred HHhcCCCceeeCCCCCCCCcccccCCcCCCCC-------------------ceEEeCCCCcccHHhHHHHHhC
Q psy16979 56 RRFGQIPSIAFPADEAPDAQCVICLAPFQPGE-------------------EVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 56 ~~i~~l~~~~~~~~~~~~~~C~ICl~~~~~~~-------------------~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
+.++.=|...+.....+.+.|.-|+..-..=. .+...-|.=.++.+|+.+||..
T Consensus 254 ~~V~~Np~y~~~~~~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFas 326 (358)
T PF10272_consen 254 EQVEQNPRYSYPESGQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFAS 326 (358)
T ss_pred HHHHhCCccccCCCccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhh
Confidence 44445566666634444788999998632100 1111224456789999999964
No 141
>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=57.95 E-value=7.8 Score=17.98 Aligned_cols=29 Identities=17% Similarity=0.290 Sum_probs=18.7
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhH
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECL 103 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci 103 (114)
.|.||.++........-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCCCeEcCccC
Confidence 58899777654422233457788888773
No 142
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=54.86 E-value=21 Score=22.28 Aligned_cols=42 Identities=21% Similarity=0.413 Sum_probs=29.6
Q ss_pred CCcccccCCcCCCCC----------ceEEeC-CCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGE----------EVKELL-CHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~----------~~~~lp-C~H~FH~~Ci~~Wl~~~~~CP 114 (114)
...|--|+..|.... ...+-+ |++.|+.+|=.-+-+.=.+||
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CP 107 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCP 107 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCc
Confidence 346999999886431 123344 999999999777766656676
No 143
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=54.43 E-value=7.8 Score=24.02 Aligned_cols=27 Identities=11% Similarity=0.292 Sum_probs=17.7
Q ss_pred CcccccCCcCCCCC-ceEEeC-CCCcccH
Q psy16979 74 AQCVICLAPFQPGE-EVKELL-CHHKFHS 100 (114)
Q Consensus 74 ~~C~ICl~~~~~~~-~~~~lp-C~H~FH~ 100 (114)
..|+-|-.+|.-.+ .....| |+|.+-.
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~EW~~ 31 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYEWNE 31 (109)
T ss_pred CcCCcCCCcceEecCCeeECccccccccc
Confidence 46999998875332 345556 8887643
No 144
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=53.65 E-value=14 Score=22.66 Aligned_cols=32 Identities=25% Similarity=0.436 Sum_probs=24.2
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhHHHHH
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWL 107 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl 107 (114)
.|.||-+++..|+.-.-+ =+-.-|..|+..=.
T Consensus 4 kC~iCg~~I~~gqlFTF~-~kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFT-KKGPVHYECFREKA 35 (101)
T ss_pred EEEecCCeeeecceEEEe-cCCcEeHHHHHHHH
Confidence 699999999998764443 34688999987643
No 145
>PRK10220 hypothetical protein; Provisional
Probab=52.55 E-value=12 Score=23.33 Aligned_cols=26 Identities=15% Similarity=0.475 Sum_probs=17.0
Q ss_pred CcccccCCcCCCCC-ceEEeC-CCCccc
Q psy16979 74 AQCVICLAPFQPGE-EVKELL-CHHKFH 99 (114)
Q Consensus 74 ~~C~ICl~~~~~~~-~~~~lp-C~H~FH 99 (114)
..|+-|-.+|.-.+ .....| |+|.|-
T Consensus 4 P~CP~C~seytY~d~~~~vCpeC~hEW~ 31 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGMYICPECAHEWN 31 (111)
T ss_pred CcCCCCCCcceEcCCCeEECCcccCcCC
Confidence 46888988875333 345556 888764
No 146
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=52.15 E-value=13 Score=26.84 Aligned_cols=42 Identities=29% Similarity=0.525 Sum_probs=26.5
Q ss_pred CCcccccCCcCCCCCceEEeC-CC-CcccHHhHHHHHhC-CCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELL-CH-HKFHSECLEPWLRE-RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp-C~-H~FH~~Ci~~Wl~~-~~~CP 114 (114)
-..|.||+|---+|-.-..|. -+ =.=|++|..+|-.. +..||
T Consensus 30 LsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 30 LSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred eeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 346777777765554333333 22 25799999999765 55676
No 147
>KOG4362|consensus
Probab=51.71 E-value=3.7 Score=33.24 Aligned_cols=36 Identities=28% Similarity=0.579 Sum_probs=28.9
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ 111 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~ 111 (114)
..+|+||+.-+... ..+.|.|.|...|+..=|...+
T Consensus 21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~ 56 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKK 56 (684)
T ss_pred hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccC
Confidence 56899999998866 5677999999999877665443
No 148
>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=50.60 E-value=11 Score=19.53 Aligned_cols=33 Identities=18% Similarity=0.348 Sum_probs=22.3
Q ss_pred CCcccccCCcC--CCCCceEEeCCCCcccHHhHHH
Q psy16979 73 DAQCVICLAPF--QPGEEVKELLCHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~--~~~~~~~~lpC~H~FH~~Ci~~ 105 (114)
...|.+|.+.+ ......+-.-|+=..|.+|+..
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 45799999998 2333444446999999999754
No 149
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=50.58 E-value=9.6 Score=25.58 Aligned_cols=30 Identities=30% Similarity=0.571 Sum_probs=21.5
Q ss_pred cccc---CCcCCCCCceEEeCCCCcccHHhHHH
Q psy16979 76 CVIC---LAPFQPGEEVKELLCHHKFHSECLEP 105 (114)
Q Consensus 76 C~IC---l~~~~~~~~~~~lpC~H~FH~~Ci~~ 105 (114)
|-.| -++...|..|.---|.-.||+.||-.
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~ 34 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGP 34 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCC
Confidence 6666 45666665555556999999999864
No 150
>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=50.17 E-value=11 Score=23.36 Aligned_cols=31 Identities=23% Similarity=0.518 Sum_probs=20.4
Q ss_pred CCcccccCCcCCC--CCceEEeCCCCcccHHhH
Q psy16979 73 DAQCVICLAPFQP--GEEVKELLCHHKFHSECL 103 (114)
Q Consensus 73 ~~~C~ICl~~~~~--~~~~~~lpC~H~FH~~Ci 103 (114)
+..|.+|...|.. +....-.-|+|.++..|-
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~ 86 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCG 86 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSE
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccC
Confidence 5689999998753 223344459999999884
No 151
>KOG0956|consensus
Probab=49.01 E-value=9.2 Score=31.26 Aligned_cols=33 Identities=24% Similarity=0.591 Sum_probs=22.7
Q ss_pred CCcccccCCcCCCCC--ceEEe-----CCCCcccHHhHHH
Q psy16979 73 DAQCVICLAPFQPGE--EVKEL-----LCHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~--~~~~l-----pC~H~FH~~Ci~~ 105 (114)
...|-||-|+=.+.+ ....+ .|+..||..|...
T Consensus 117 nKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~ 156 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQR 156 (900)
T ss_pred cceeeeecccCCccccccccceecccccchhhhhhhHhhh
Confidence 678999999844433 11222 3778999999764
No 152
>KOG2979|consensus
Probab=48.87 E-value=11 Score=26.96 Aligned_cols=40 Identities=20% Similarity=0.379 Sum_probs=30.6
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCC--CCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQ--HCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~--~CP 114 (114)
...|+|=+..+.. .++--.|+|+|-++=|..-+.... .||
T Consensus 176 s~rdPis~~~I~n--PviSkkC~HvydrDsI~~~l~~~~~i~CP 217 (262)
T KOG2979|consen 176 SNRDPISKKPIVN--PVISKKCGHVYDRDSIMQILCDEITIRCP 217 (262)
T ss_pred cccCchhhhhhhc--hhhhcCcCcchhhhhHHHHhccCceeecc
Confidence 5779998777663 355557999999999999887643 476
No 153
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=48.45 E-value=8.9 Score=18.48 Aligned_cols=8 Identities=25% Similarity=0.625 Sum_probs=3.5
Q ss_pred ccccCCcC
Q psy16979 76 CVICLAPF 83 (114)
Q Consensus 76 C~ICl~~~ 83 (114)
|.+|-..+
T Consensus 5 C~~CG~i~ 12 (34)
T cd00729 5 CPVCGYIH 12 (34)
T ss_pred CCCCCCEe
Confidence 44444443
No 154
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=48.36 E-value=24 Score=25.08 Aligned_cols=26 Identities=12% Similarity=0.309 Sum_probs=19.0
Q ss_pred CCcccccCCcCCCCCceEEeC-CCCcccHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELL-CHHKFHSE 101 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~ 101 (114)
...|++|-. + ....-..| ||+.+|++
T Consensus 309 S~~C~~cg~-~--~~r~~~C~~cg~~~~rD 335 (364)
T COG0675 309 SKTCPCCGH-L--SGRLFKCPRCGFVHDRD 335 (364)
T ss_pred cccccccCC-c--cceeEECCCCCCeehhh
Confidence 578999999 2 22334455 99999998
No 155
>KOG2807|consensus
Probab=48.34 E-value=19 Score=26.79 Aligned_cols=32 Identities=16% Similarity=0.376 Sum_probs=24.1
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLE 104 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~ 104 (114)
...|-.|.++...+...+.=.|.+.|+.+|=.
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv 361 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDV 361 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchH
Confidence 45599998887766555554599999999943
No 156
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=47.87 E-value=11 Score=19.77 Aligned_cols=27 Identities=30% Similarity=0.501 Sum_probs=16.5
Q ss_pred ccccCCcCCCCCceEEeCCCCcccHHhH
Q psy16979 76 CVICLAPFQPGEEVKELLCHHKFHSECL 103 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~H~FH~~Ci 103 (114)
|.-|-..+..++.+ ...-+..||..|.
T Consensus 1 C~~C~~~I~~~~~~-~~~~~~~~H~~Cf 27 (58)
T PF00412_consen 1 CARCGKPIYGTEIV-IKAMGKFWHPECF 27 (58)
T ss_dssp BTTTSSBESSSSEE-EEETTEEEETTTS
T ss_pred CCCCCCCccCcEEE-EEeCCcEEEcccc
Confidence 66677777655432 2246677887774
No 157
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=46.69 E-value=16 Score=20.17 Aligned_cols=16 Identities=44% Similarity=0.611 Sum_probs=12.8
Q ss_pred CCCceEEeCCCCcccH
Q psy16979 85 PGEEVKELLCHHKFHS 100 (114)
Q Consensus 85 ~~~~~~~lpC~H~FH~ 100 (114)
++.-|..|.|||.=|.
T Consensus 8 e~hWVA~L~CGH~QHv 23 (61)
T PF12088_consen 8 EGHWVAELSCGHTQHV 23 (61)
T ss_pred cCCEEEEecccccccc
Confidence 5667999999987664
No 158
>KOG4323|consensus
Probab=45.94 E-value=14 Score=28.69 Aligned_cols=33 Identities=24% Similarity=0.661 Sum_probs=22.6
Q ss_pred CCcccccCCcC-CCCCceEEeC-CCCcccHHhHHH
Q psy16979 73 DAQCVICLAPF-QPGEEVKELL-CHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~-~~~~~~~~lp-C~H~FH~~Ci~~ 105 (114)
+..|++|..-- ..++++...- |+--||..|-..
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp 202 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQP 202 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccC
Confidence 56699999553 3444444443 889999999654
No 159
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=44.94 E-value=9.3 Score=25.36 Aligned_cols=33 Identities=33% Similarity=0.740 Sum_probs=20.7
Q ss_pred CCcccccCCcCCCCCceEEeC------------CCCc-ccHHhHHHHHh
Q psy16979 73 DAQCVICLAPFQPGEEVKELL------------CHHK-FHSECLEPWLR 108 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp------------C~H~-FH~~Ci~~Wl~ 108 (114)
+..|+||||-=. +. +.|- |+-. =|..|+++.-+
T Consensus 2 d~~CpICme~PH--NA-VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPH--NA-VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCC--ce-EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 468999998732 22 2222 5543 47889998654
No 160
>KOG3002|consensus
Probab=42.96 E-value=22 Score=26.02 Aligned_cols=37 Identities=24% Similarity=0.570 Sum_probs=25.1
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
-.+|+||.+.+... +...+=||.-+..|=. +..+.||
T Consensus 48 lleCPvC~~~l~~P--i~QC~nGHlaCssC~~---~~~~~CP 84 (299)
T KOG3002|consen 48 LLDCPVCFNPLSPP--IFQCDNGHLACSSCRT---KVSNKCP 84 (299)
T ss_pred hccCchhhccCccc--ceecCCCcEehhhhhh---hhcccCC
Confidence 46799999998755 2333345888888854 3455566
No 161
>KOG1512|consensus
Probab=42.53 E-value=11 Score=27.51 Aligned_cols=32 Identities=28% Similarity=0.547 Sum_probs=24.1
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLE 104 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~ 104 (114)
-..|.||+..-.+.+.+-.=-|...||.-|+-
T Consensus 314 C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVG 345 (381)
T KOG1512|consen 314 CELCRICLGPVIESEHLFCDVCDRGPHTLCVG 345 (381)
T ss_pred cHhhhccCCcccchheeccccccCCCCccccc
Confidence 36799999987776654444499999998874
No 162
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=41.86 E-value=17 Score=23.36 Aligned_cols=24 Identities=25% Similarity=0.455 Sum_probs=16.1
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHH
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSE 101 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~ 101 (114)
.=-||... ..+|.+..|||.|+..
T Consensus 59 hlfi~qs~---~~rv~rcecghsf~d~ 82 (165)
T COG4647 59 HLFICQSA---QKRVIRCECGHSFGDY 82 (165)
T ss_pred cEEEEecc---cccEEEEeccccccCh
Confidence 34466543 2368888999999853
No 163
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=41.76 E-value=8.6 Score=18.14 Aligned_cols=25 Identities=20% Similarity=0.592 Sum_probs=9.9
Q ss_pred CcccccCCcCCCCC-ceEEeC-CCCcc
Q psy16979 74 AQCVICLAPFQPGE-EVKELL-CHHKF 98 (114)
Q Consensus 74 ~~C~ICl~~~~~~~-~~~~lp-C~H~F 98 (114)
..|+-|-.++.-.+ .+.+.| |+|.+
T Consensus 3 p~Cp~C~se~~y~D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELLVCPECGHEW 29 (30)
T ss_dssp ---TTT-----EE-SSSEEETTTTEEE
T ss_pred CCCCCCCCcceeccCCEEeCCcccccC
Confidence 35888888765322 445556 88864
No 164
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=41.46 E-value=16 Score=19.39 Aligned_cols=25 Identities=12% Similarity=0.304 Sum_probs=16.9
Q ss_pred CCcccccCCcCCCCC--ceEEeC-CCCc
Q psy16979 73 DAQCVICLAPFQPGE--EVKELL-CHHK 97 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~--~~~~lp-C~H~ 97 (114)
...|+.|-.+++..+ ...+.| |||.
T Consensus 6 ~Y~C~~Cg~~~~~~~~~~~irCp~Cg~r 33 (49)
T COG1996 6 EYKCARCGREVELDQETRGIRCPYCGSR 33 (49)
T ss_pred EEEhhhcCCeeehhhccCceeCCCCCcE
Confidence 356999999987332 345566 8884
No 165
>PF15353 HECA: Headcase protein family homologue
Probab=40.92 E-value=19 Score=22.27 Aligned_cols=15 Identities=33% Similarity=0.744 Sum_probs=12.7
Q ss_pred CCCCcccHHhHHHHH
Q psy16979 93 LCHHKFHSECLEPWL 107 (114)
Q Consensus 93 pC~H~FH~~Ci~~Wl 107 (114)
|.++..|++|.+.|=
T Consensus 39 p~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 39 PFGQYMHRECFEKWE 53 (107)
T ss_pred CCCCchHHHHHHHHH
Confidence 456899999999994
No 166
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=40.63 E-value=16 Score=22.58 Aligned_cols=24 Identities=17% Similarity=0.386 Sum_probs=14.0
Q ss_pred CcccccCCcCCCCCc-eEEeC-CCCc
Q psy16979 74 AQCVICLAPFQPGEE-VKELL-CHHK 97 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~-~~~lp-C~H~ 97 (114)
..|+.|-.+|.-.+. ...+| |.|.
T Consensus 4 p~cp~c~sEytYed~~~~~cpec~~e 29 (112)
T COG2824 4 PPCPKCNSEYTYEDGGQLICPECAHE 29 (112)
T ss_pred CCCCccCCceEEecCceEeCchhccc
Confidence 468999888764442 23334 5554
No 167
>KOG3352|consensus
Probab=40.37 E-value=57 Score=21.52 Aligned_cols=24 Identities=29% Similarity=0.581 Sum_probs=15.4
Q ss_pred CcccccCCcCC--------CCCceEEeC-CCCccc
Q psy16979 74 AQCVICLAPFQ--------PGEEVKELL-CHHKFH 99 (114)
Q Consensus 74 ~~C~ICl~~~~--------~~~~~~~lp-C~H~FH 99 (114)
..| ||.++=. .|+ ..+.| |+|.|-
T Consensus 112 VGC-~c~eD~~~V~Wmwl~Kge-~~rc~eCG~~fk 144 (153)
T KOG3352|consen 112 VGC-GCEEDSHAVVWMWLEKGE-TQRCPECGHYFK 144 (153)
T ss_pred Eee-cccCCCcceEEEEEEcCC-cccCCcccceEE
Confidence 458 8888733 343 34455 999985
No 168
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=40.01 E-value=48 Score=22.86 Aligned_cols=32 Identities=13% Similarity=0.171 Sum_probs=20.9
Q ss_pred HhcCCCceeeCCCCCCCCcccccCCcCCCCCc
Q psy16979 57 RFGQIPSIAFPADEAPDAQCVICLAPFQPGEE 88 (114)
Q Consensus 57 ~i~~l~~~~~~~~~~~~~~C~ICl~~~~~~~~ 88 (114)
+.+.+..-.......+.+.|.||.++..+...
T Consensus 50 a~~~i~~C~~C~~~te~d~C~ICsd~~Rd~~~ 81 (198)
T COG0353 50 AKENIKHCSVCGNLTESDPCDICSDESRDKSQ 81 (198)
T ss_pred HHhcCccccccCCcCCCCcCcCcCCcccCCce
Confidence 33444444445555557899999999877653
No 169
>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=39.27 E-value=25 Score=17.44 Aligned_cols=33 Identities=21% Similarity=0.501 Sum_probs=23.6
Q ss_pred CCcccccCCcCCCCC-ceEEeCCCCcccHHhHHH
Q psy16979 73 DAQCVICLAPFQPGE-EVKELLCHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~ 105 (114)
...|.+|.+.+.... ..+-..|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 457999999887532 233334888999999865
No 170
>KOG3799|consensus
Probab=37.92 E-value=13 Score=24.08 Aligned_cols=31 Identities=32% Similarity=0.652 Sum_probs=18.6
Q ss_pred CCcccccCCc-CCCCCceEEeCCCCcccHHhH
Q psy16979 73 DAQCVICLAP-FQPGEEVKELLCHHKFHSECL 103 (114)
Q Consensus 73 ~~~C~ICl~~-~~~~~~~~~lpC~H~FH~~Ci 103 (114)
+..|.||+.. |.+|-.....-|.-.|+..|-
T Consensus 65 datC~IC~KTKFADG~GH~C~YCq~r~CARCG 96 (169)
T KOG3799|consen 65 DATCGICHKTKFADGCGHNCSYCQTRFCARCG 96 (169)
T ss_pred CcchhhhhhcccccccCcccchhhhhHHHhcC
Confidence 7899999976 555533333335555666663
No 171
>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=36.97 E-value=22 Score=17.83 Aligned_cols=33 Identities=18% Similarity=0.429 Sum_probs=23.4
Q ss_pred CCcccccCCcCCCC--CceEEeCCCCcccHHhHHH
Q psy16979 73 DAQCVICLAPFQPG--EEVKELLCHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~~~~--~~~~~lpC~H~FH~~Ci~~ 105 (114)
...|.+|.+.+... ...+--.|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 45799999988642 2333334999999999754
No 172
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=36.76 E-value=22 Score=19.38 Aligned_cols=24 Identities=17% Similarity=0.210 Sum_probs=15.7
Q ss_pred ccccCCcCCCCCceEEeCCCCcccHH
Q psy16979 76 CVICLAPFQPGEEVKELLCHHKFHSE 101 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~H~FH~~ 101 (114)
|..|... .++...-|.|+++++..
T Consensus 1 C~~C~~~--~~~lw~CL~Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGST--NSNLWLCLTCGYVGCGR 24 (63)
T ss_dssp -SSSHTC--SSSEEEETTTS-EEETT
T ss_pred CCCCCCc--CCceEEeCCCCcccccC
Confidence 5667644 44567888899998864
No 173
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=36.45 E-value=47 Score=19.23 Aligned_cols=23 Identities=22% Similarity=0.587 Sum_probs=17.3
Q ss_pred CCCCCceEEeC-CCCcccHHhHHHH
Q psy16979 83 FQPGEEVKELL-CHHKFHSECLEPW 106 (114)
Q Consensus 83 ~~~~~~~~~lp-C~H~FH~~Ci~~W 106 (114)
+..|+.+.+.| |.|.| ..|..++
T Consensus 41 ~~~G~~v~l~~GCDkt~-~tC~~kF 64 (80)
T PF09356_consen 41 LAVGDTVTLYPGCDKTF-ATCRAKF 64 (80)
T ss_pred CCCCCEEEEEeCCCCCH-HHHHHHh
Confidence 34677888888 99988 7787664
No 174
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=36.32 E-value=25 Score=18.58 Aligned_cols=20 Identities=25% Similarity=0.753 Sum_probs=10.9
Q ss_pred CCCcccHHhHHHHHhCCCCCC
Q psy16979 94 CHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 94 C~H~FH~~Ci~~Wl~~~~~CP 114 (114)
|+|.|-.. |..-......||
T Consensus 34 Cgh~w~~~-v~~R~~~~~~CP 53 (55)
T PF14311_consen 34 CGHEWKAS-VNDRTRRGKGCP 53 (55)
T ss_pred CCCeeEcc-HhhhccCCCCCC
Confidence 66776655 333334455566
No 175
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=36.20 E-value=18 Score=25.68 Aligned_cols=40 Identities=25% Similarity=0.429 Sum_probs=29.7
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC--CCCCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE--RQHCP 114 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~--~~~CP 114 (114)
+..|+|=+..+.-. +.-..|+|.|-++=|.+.|.. ...||
T Consensus 189 ~nrCpitl~p~~~p--ils~kcnh~~e~D~I~~~lq~~~trvcp 230 (275)
T COG5627 189 SNRCPITLNPDFYP--ILSSKCNHKPEMDLINKKLQVECTRVCP 230 (275)
T ss_pred cccCCcccCcchhH--HHHhhhcccccHHHHHHHhcCCceeecc
Confidence 67899999876532 333359999999999999884 34466
No 176
>KOG3842|consensus
Probab=35.49 E-value=38 Score=25.28 Aligned_cols=37 Identities=16% Similarity=0.340 Sum_probs=24.7
Q ss_pred CCcccccCCcCC---------------CCCc-eEEeCCCCcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQ---------------PGEE-VKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~---------------~~~~-~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
+.+|++|+..=. .|-. ..--||||+--.+-..-|-+.
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~i 393 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQI 393 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcC
Confidence 678999997611 1111 233479999888888888764
No 177
>PF09607 BrkDBD: Brinker DNA-binding domain; InterPro: IPR018586 This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway []. ; PDB: 2GLO_A.
Probab=33.74 E-value=31 Score=18.95 Aligned_cols=12 Identities=8% Similarity=0.437 Sum_probs=8.9
Q ss_pred ccHHhHHHHHhC
Q psy16979 98 FHSECLEPWLRE 109 (114)
Q Consensus 98 FH~~Ci~~Wl~~ 109 (114)
.+..||..|++.
T Consensus 37 V~r~~Vr~W~kq 48 (58)
T PF09607_consen 37 VSRRQVRKWRKQ 48 (58)
T ss_dssp S-HHHHHHHHTT
T ss_pred ccHHHHHHHHHH
Confidence 377899999875
No 178
>PF06718 DUF1203: Protein of unknown function (DUF1203); InterPro: IPR009593 This family consists of several hypothetical bacterial proteins of around 155 residues in length. Family members are present in Rhizobium, Agrobacterium and Streptomyces species.
Probab=33.67 E-value=30 Score=21.71 Aligned_cols=20 Identities=40% Similarity=0.645 Sum_probs=16.7
Q ss_pred CcccccCCcCCCCCceEEeC
Q psy16979 74 AQCVICLAPFQPGEEVKELL 93 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~lp 93 (114)
.-|-+||.+...|+.+..++
T Consensus 2 ~PcR~cL~~~~~Ge~~lLls 21 (117)
T PF06718_consen 2 YPCRHCLRDAEPGEELLLLS 21 (117)
T ss_pred CCcEEecccCCCCCeEEEEe
Confidence 35999999999999877664
No 179
>PF00645 zf-PARP: Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region; InterPro: IPR001510 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 PARP (Poly(ADP) polymerase) type zinc finger domains. NAD(+) ADP-ribosyltransferase(2.4.2.30 from EC) [, ] is a eukaryotic enzyme that catalyses the covalent attachment of ADP-ribose units from NAD(+) to various nuclear acceptor proteins. This post-translational modification of nuclear proteins is dependent on DNA. It appears to be involved in the regulation of various important cellular processes such as differentiation, proliferation and tumour transformation as well as in the regulation of the molecular events involved in the recovery of the cell from DNA damage. Structurally, NAD(+) ADP-ribosyltransferase consists of three distinct domains: an N-terminal zinc-dependent DNA-binding domain, a central automodification domain and a C-terminal NAD-binding domain. The DNA-binding region contains a pair of PARP-type zinc finger domains which have been shown to bind DNA in a zinc-dependent manner. The PARP-type zinc finger domains seem to bind specifically to single-stranded DNA and to act as a DNA nick sensor. DNA ligase III [] contains, in its N-terminal section, a single copy of a zinc finger highly similar to those of PARP. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 1UW0_A 3OD8_D 3ODA_A 4AV1_A 2DMJ_A 4DQY_D 2L30_A 2CS2_A 2L31_A 3ODE_B ....
Probab=33.52 E-value=43 Score=19.09 Aligned_cols=37 Identities=19% Similarity=0.336 Sum_probs=25.6
Q ss_pred CCcccccCCcCCCCC-ceEEe---CCC-----CcccHHhHHHHHhC
Q psy16979 73 DAQCVICLAPFQPGE-EVKEL---LCH-----HKFHSECLEPWLRE 109 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~-~~~~l---pC~-----H~FH~~Ci~~Wl~~ 109 (114)
-..|..|...+..|+ .+... +-+ .-||..|+..+...
T Consensus 7 Ra~Ck~C~~~I~kg~lRiG~~~~~~~~~~~~~~W~H~~C~~~~~~~ 52 (82)
T PF00645_consen 7 RAKCKGCKKKIAKGELRIGKIVPSPEGDGDIPKWYHWDCFFKKQLR 52 (82)
T ss_dssp TEBETTTSCBE-TTSEEEEEEEEETTSSCEEEEEEEHHHHHHTTCC
T ss_pred CccCcccCCcCCCCCEEEEEEecccccCCCCCceECccccccchhh
Confidence 357999999998887 33222 233 57999999987654
No 180
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=33.45 E-value=20 Score=16.11 Aligned_cols=10 Identities=30% Similarity=0.926 Sum_probs=8.0
Q ss_pred cccccCCcCC
Q psy16979 75 QCVICLAPFQ 84 (114)
Q Consensus 75 ~C~ICl~~~~ 84 (114)
.||||-..+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 6999988763
No 181
>KOG0230|consensus
Probab=32.80 E-value=18 Score=32.18 Aligned_cols=18 Identities=28% Similarity=0.658 Sum_probs=14.0
Q ss_pred EEeCCCCcccHHhHHHHH
Q psy16979 90 KELLCHHKFHSECLEPWL 107 (114)
Q Consensus 90 ~~lpC~H~FH~~Ci~~Wl 107 (114)
+.-+|+|.||++|+....
T Consensus 877 R~~~C~Hsl~rD~L~ffg 894 (1598)
T KOG0230|consen 877 RVASCGHSLHRDCLRFFG 894 (1598)
T ss_pred cccCCcchhhhhhhhhcc
Confidence 444599999999997643
No 182
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=32.78 E-value=33 Score=18.99 Aligned_cols=9 Identities=11% Similarity=0.312 Sum_probs=4.9
Q ss_pred EEeC-CCCcc
Q psy16979 90 KELL-CHHKF 98 (114)
Q Consensus 90 ~~lp-C~H~F 98 (114)
.+.| |+|.|
T Consensus 54 L~Cp~c~r~Y 63 (68)
T PF03966_consen 54 LICPECGREY 63 (68)
T ss_dssp EEETTTTEEE
T ss_pred EEcCCCCCEE
Confidence 3334 76665
No 183
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=31.61 E-value=26 Score=16.52 Aligned_cols=9 Identities=33% Similarity=0.611 Sum_probs=4.5
Q ss_pred CCcccccCC
Q psy16979 73 DAQCVICLA 81 (114)
Q Consensus 73 ~~~C~ICl~ 81 (114)
...|++|-.
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 345555543
No 184
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=31.46 E-value=26 Score=19.29 Aligned_cols=28 Identities=29% Similarity=0.789 Sum_probs=20.5
Q ss_pred CcccccCCcCCCCCceEEeCCCCccc-HHhHHHHHhCC
Q psy16979 74 AQCVICLAPFQPGEEVKELLCHHKFH-SECLEPWLRER 110 (114)
Q Consensus 74 ~~C~ICl~~~~~~~~~~~lpC~H~FH-~~Ci~~Wl~~~ 110 (114)
..|++|-..+..++ .|+ .+|=+.|.+++
T Consensus 4 kHC~~CG~~Ip~~~---------~fCS~~C~~~~~k~q 32 (59)
T PF09889_consen 4 KHCPVCGKPIPPDE---------SFCSPKCREEYRKRQ 32 (59)
T ss_pred CcCCcCCCcCCcch---------hhhCHHHHHHHHHHH
Confidence 46999988876553 688 47888887653
No 185
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=31.36 E-value=22 Score=19.64 Aligned_cols=20 Identities=30% Similarity=0.424 Sum_probs=16.3
Q ss_pred cccCCcCCCCCceEEeC-CCC
Q psy16979 77 VICLAPFQPGEEVKELL-CHH 96 (114)
Q Consensus 77 ~ICl~~~~~~~~~~~lp-C~H 96 (114)
-|-|+++..|+.|.+.| |.-
T Consensus 32 eIsLeDl~~GE~VArCPSCSL 52 (67)
T COG5216 32 EISLEDLRNGEVVARCPSCSL 52 (67)
T ss_pred EEEHHHhhCCceEEEcCCceE
Confidence 47788888999999988 873
No 186
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=30.45 E-value=53 Score=15.68 Aligned_cols=25 Identities=24% Similarity=0.430 Sum_probs=13.8
Q ss_pred cccccCCcCCCCC-------ceEEeC-CCCccc
Q psy16979 75 QCVICLAPFQPGE-------EVKELL-CHHKFH 99 (114)
Q Consensus 75 ~C~ICl~~~~~~~-------~~~~lp-C~H~FH 99 (114)
.|+-|-..|...+ ...+-| |+|.|.
T Consensus 4 ~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 4 QCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred ECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 5777777655321 123344 777764
No 187
>PF12677 DUF3797: Domain of unknown function (DUF3797); InterPro: IPR024256 This presumed domain is functionally uncharacterised. This domain family is found in bacteria and viruses, and is approximately 50 amino acids in length. There is a conserved CGN sequence motif.
Probab=29.84 E-value=26 Score=18.53 Aligned_cols=30 Identities=17% Similarity=0.279 Sum_probs=17.9
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHh
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSEC 102 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~C 102 (114)
-..|+.|-.+..........==.|.|++.|
T Consensus 13 Y~~Cp~CGN~~vGngEG~liV~edtfkRtC 42 (49)
T PF12677_consen 13 YCKCPKCGNDKVGNGEGTLIVEEDTFKRTC 42 (49)
T ss_pred hccCcccCCcEeecCcceEEEeccceeeee
Confidence 356999998865433322223456677666
No 188
>PF14353 CpXC: CpXC protein
Probab=29.37 E-value=49 Score=20.59 Aligned_cols=9 Identities=33% Similarity=0.752 Sum_probs=4.0
Q ss_pred cccccCCcC
Q psy16979 75 QCVICLAPF 83 (114)
Q Consensus 75 ~C~ICl~~~ 83 (114)
+|+-|...|
T Consensus 3 tCP~C~~~~ 11 (128)
T PF14353_consen 3 TCPHCGHEF 11 (128)
T ss_pred CCCCCCCee
Confidence 344444443
No 189
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=29.36 E-value=1e+02 Score=16.78 Aligned_cols=39 Identities=26% Similarity=0.532 Sum_probs=25.3
Q ss_pred CcccccCCcCCCCC-ceEEeCCCCcccHHhHHHHHhCCCCCC
Q psy16979 74 AQCVICLAPFQPGE-EVKELLCHHKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 74 ~~C~ICl~~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~CP 114 (114)
..|-.|-.++..+. ...+..=...|+.+|...-| +..||
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CP 45 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCP 45 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCc
Confidence 45777877777665 34443333579999988865 45565
No 190
>KOG4021|consensus
Probab=29.01 E-value=25 Score=24.29 Aligned_cols=12 Identities=25% Similarity=0.703 Sum_probs=10.1
Q ss_pred CCcccccCCcCC
Q psy16979 73 DAQCVICLAPFQ 84 (114)
Q Consensus 73 ~~~C~ICl~~~~ 84 (114)
...|+||.+++-
T Consensus 108 gnpCPICRDeyL 119 (239)
T KOG4021|consen 108 GNPCPICRDEYL 119 (239)
T ss_pred CCCCCccccceE
Confidence 567999999974
No 191
>PHA02942 putative transposase; Provisional
Probab=28.78 E-value=1.2e+02 Score=22.95 Aligned_cols=30 Identities=10% Similarity=0.181 Sum_probs=21.0
Q ss_pred CCcccccCCcCCC-CCceEEeC-CCCcccHHh
Q psy16979 73 DAQCVICLAPFQP-GEEVKELL-CHHKFHSEC 102 (114)
Q Consensus 73 ~~~C~ICl~~~~~-~~~~~~lp-C~H~FH~~C 102 (114)
...|+.|-..... +..+-..+ |||..|++=
T Consensus 325 Sq~Cs~CG~~~~~l~~r~f~C~~CG~~~drD~ 356 (383)
T PHA02942 325 SVSCPKCGHKMVEIAHRYFHCPSCGYENDRDV 356 (383)
T ss_pred CccCCCCCCccCcCCCCEEECCCCCCEeCcHH
Confidence 5689999976542 23445555 999999874
No 192
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=28.38 E-value=28 Score=17.00 Aligned_cols=7 Identities=29% Similarity=0.852 Sum_probs=6.0
Q ss_pred CCCcccH
Q psy16979 94 CHHKFHS 100 (114)
Q Consensus 94 C~H~FH~ 100 (114)
|+++||.
T Consensus 7 Cg~~Yh~ 13 (36)
T PF05191_consen 7 CGRIYHI 13 (36)
T ss_dssp TTEEEET
T ss_pred CCCcccc
Confidence 9999985
No 193
>KOG1356|consensus
Probab=28.19 E-value=34 Score=28.64 Aligned_cols=33 Identities=15% Similarity=0.347 Sum_probs=24.6
Q ss_pred CCcccccCCcCCCCCceEEeC-CCCcccHHhHHHHH
Q psy16979 73 DAQCVICLAPFQPGEEVKELL-CHHKFHSECLEPWL 107 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp-C~H~FH~~Ci~~Wl 107 (114)
.+.|-.|.... ....-+.+ |++.|+.+|++.|-
T Consensus 229 ~~mC~~C~~tl--fn~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 229 REMCDRCETTL--FNIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred chhhhhhcccc--cceeEEccccCCeeeecchhhcc
Confidence 67899998763 23233344 99999999999994
No 194
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=27.62 E-value=45 Score=18.34 Aligned_cols=15 Identities=27% Similarity=0.869 Sum_probs=12.8
Q ss_pred CCcccccCCcCCCCC
Q psy16979 73 DAQCVICLAPFQPGE 87 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~ 87 (114)
...|++|-..+..+.
T Consensus 39 ~p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGT 53 (59)
T ss_pred CccCCCcCCccccce
Confidence 578999999998775
No 195
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=27.29 E-value=48 Score=16.93 Aligned_cols=23 Identities=17% Similarity=0.239 Sum_probs=14.2
Q ss_pred cccccCCcCCCCC-ceEEeC-CCCc
Q psy16979 75 QCVICLAPFQPGE-EVKELL-CHHK 97 (114)
Q Consensus 75 ~C~ICl~~~~~~~-~~~~lp-C~H~ 97 (114)
.|.-|-.+++... ...+.| |||.
T Consensus 4 ~C~~Cg~~~~~~~~~~irC~~CG~r 28 (44)
T smart00659 4 ICGECGRENEIKSKDVVRCRECGYR 28 (44)
T ss_pred ECCCCCCEeecCCCCceECCCCCce
Confidence 4777777776542 334455 8873
No 196
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=27.18 E-value=59 Score=24.27 Aligned_cols=36 Identities=17% Similarity=0.122 Sum_probs=30.0
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHhHHHHHh
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSECLEPWLR 108 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~ 108 (114)
-..||+=.+.-.+.+.-..|.|||+.-..-++.--+
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~ 371 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQ 371 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhh
Confidence 567999998888888889999999998888877544
No 197
>PRK00076 recR recombination protein RecR; Reviewed
Probab=27.00 E-value=1.1e+02 Score=21.05 Aligned_cols=28 Identities=18% Similarity=0.349 Sum_probs=18.2
Q ss_pred CCCceeeCCCCCCCCcccccCCcCCCCC
Q psy16979 60 QIPSIAFPADEAPDAQCVICLAPFQPGE 87 (114)
Q Consensus 60 ~l~~~~~~~~~~~~~~C~ICl~~~~~~~ 87 (114)
++..-.......+++.|.||.++-.+..
T Consensus 52 ~i~~C~~C~~lse~~~C~IC~d~~Rd~~ 79 (196)
T PRK00076 52 KIKHCSVCGNLTEQDPCEICSDPRRDQS 79 (196)
T ss_pred cCCcCCCCCCcCCCCcCCCCCCCCCCCC
Confidence 3334444455555788999999866554
No 198
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=26.46 E-value=6 Score=21.15 Aligned_cols=32 Identities=25% Similarity=0.572 Sum_probs=17.6
Q ss_pred cccc--cCCcCCCCC--ce--EEeC-CCCcccHHhHHHH
Q psy16979 75 QCVI--CLAPFQPGE--EV--KELL-CHHKFHSECLEPW 106 (114)
Q Consensus 75 ~C~I--Cl~~~~~~~--~~--~~lp-C~H~FH~~Ci~~W 106 (114)
-|+- |-..+...+ .. ++-+ |++.|+..|-.+|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 4655 665554433 22 4556 9999999998777
No 199
>PRK13844 recombination protein RecR; Provisional
Probab=25.87 E-value=1.2e+02 Score=20.99 Aligned_cols=25 Identities=16% Similarity=0.282 Sum_probs=16.5
Q ss_pred ceeeCCCCCCCCcccccCCcCCCCC
Q psy16979 63 SIAFPADEAPDAQCVICLAPFQPGE 87 (114)
Q Consensus 63 ~~~~~~~~~~~~~C~ICl~~~~~~~ 87 (114)
.-.......+++.|+||.++-.+..
T Consensus 59 ~C~~C~~lte~~~C~IC~d~~Rd~~ 83 (200)
T PRK13844 59 KCVYCQALTEDDVCNICSNTNRDDT 83 (200)
T ss_pred cCCCCCCCCCCCCCCCCCCCCCCCC
Confidence 3344444455778999999876554
No 200
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.17 E-value=1.3e+02 Score=20.74 Aligned_cols=27 Identities=11% Similarity=0.222 Sum_probs=17.5
Q ss_pred CCceeeCCCCCCCCcccccCCcCCCCC
Q psy16979 61 IPSIAFPADEAPDAQCVICLAPFQPGE 87 (114)
Q Consensus 61 l~~~~~~~~~~~~~~C~ICl~~~~~~~ 87 (114)
+..-.......+.+.|.||.+.-.+..
T Consensus 53 i~~C~~C~~lse~~~C~IC~d~~Rd~~ 79 (195)
T TIGR00615 53 LRTCSVCGAISDQEVCNICSDERRDNS 79 (195)
T ss_pred CCcCCCCCCCCCCCcCCCCCCCCCCCC
Confidence 333444445555788999999976554
No 201
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=24.71 E-value=18 Score=18.94 Aligned_cols=32 Identities=22% Similarity=0.447 Sum_probs=17.5
Q ss_pred cccccCCcCCCCCceEEeCCCCcccHHhHHHHHhC
Q psy16979 75 QCVICLAPFQPGEEVKELLCHHKFHSECLEPWLRE 109 (114)
Q Consensus 75 ~C~ICl~~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 109 (114)
.|+|....+.. .++--.|.|.-+.+ +..||+.
T Consensus 4 ~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~ 35 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLES 35 (50)
T ss_dssp B-TTTSSB-SS--EEEETT--SS--EE-HHHHHHH
T ss_pred eCCCCCCEEEe--CccCCcCcccceEC-HHHHHHH
Confidence 58888877653 56777799985544 5666654
No 202
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=24.18 E-value=50 Score=21.25 Aligned_cols=24 Identities=17% Similarity=0.270 Sum_probs=11.1
Q ss_pred CCcccccCCcCCCCCceEEeC-CCC
Q psy16979 73 DAQCVICLAPFQPGEEVKELL-CHH 96 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lp-C~H 96 (114)
+..|+.|--.+-..+.-+..| |+|
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~~ 52 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCGY 52 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCCc
Confidence 445666655543333223334 554
No 203
>PF12907 zf-met2: Zinc-binding
Probab=23.17 E-value=16 Score=18.42 Aligned_cols=11 Identities=36% Similarity=0.797 Sum_probs=8.1
Q ss_pred CcccccCCcCC
Q psy16979 74 AQCVICLAPFQ 84 (114)
Q Consensus 74 ~~C~ICl~~~~ 84 (114)
..|.||+..|-
T Consensus 2 i~C~iC~qtF~ 12 (40)
T PF12907_consen 2 IICKICRQTFM 12 (40)
T ss_pred cCcHHhhHHHH
Confidence 36999997664
No 204
>PF05353 Atracotoxin: Delta Atracotoxin; InterPro: IPR008017 Delta atracotoxin produces potentially fatal neurotoxic symptoms in primates by slowing the inactivation of voltage-gated sodium channels []. The structure of atracotoxin comprises a core beta region containing a triple-stranded a thumb-like extension protruding from the beta region and a C-terminal helix. The beta region contains a cystine knot motif, a feature seen in other neurotoxic polypeptides [].; GO: 0019871 sodium channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 2ROO_A 1VTX_A 1QDP_A.
Probab=22.81 E-value=2.8 Score=21.11 Aligned_cols=13 Identities=23% Similarity=1.083 Sum_probs=8.5
Q ss_pred HhHHHHHhCCCCC
Q psy16979 101 ECLEPWLRERQHC 113 (114)
Q Consensus 101 ~Ci~~Wl~~~~~C 113 (114)
+||.-|..++.+|
T Consensus 19 kCiyAWYnqq~sC 31 (42)
T PF05353_consen 19 KCIYAWYNQQSSC 31 (42)
T ss_dssp EEEE-SSGSTEEE
T ss_pred HHHHHHHccCCch
Confidence 4777888777665
No 205
>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=22.66 E-value=71 Score=24.83 Aligned_cols=32 Identities=25% Similarity=0.487 Sum_probs=20.4
Q ss_pred CCcccccCCcCCCCC---ceEEeC-CCCcccHHhHHH
Q psy16979 73 DAQCVICLAPFQPGE---EVKELL-CHHKFHSECLEP 105 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~---~~~~lp-C~H~FH~~Ci~~ 105 (114)
.=.|.||.. |.... .+...- |+|.=|.+|-.+
T Consensus 128 ~C~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr 163 (446)
T PF07227_consen 128 RCMCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALR 163 (446)
T ss_pred cCCccccCC-cccCCCCeeEEeccCCCceehhhhhcc
Confidence 345888865 53322 233333 999999999754
No 206
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=21.77 E-value=43 Score=24.07 Aligned_cols=25 Identities=24% Similarity=0.582 Sum_probs=20.0
Q ss_pred CCcccccCCcCCCCCceEEeCCCCcccHHh
Q psy16979 73 DAQCVICLAPFQPGEEVKELLCHHKFHSEC 102 (114)
Q Consensus 73 ~~~C~ICl~~~~~~~~~~~lpC~H~FH~~C 102 (114)
...||.|-.+...++.. .++||.+|
T Consensus 220 ~r~CP~Cg~~W~L~~pl-----h~iFdFKC 244 (258)
T PF10071_consen 220 ARKCPSCGGDWRLKEPL-----HDIFDFKC 244 (258)
T ss_pred CCCCCCCCCccccCCch-----hhceeccC
Confidence 67899999998876644 67888887
No 207
>PRK00420 hypothetical protein; Validated
Probab=21.47 E-value=85 Score=19.59 Aligned_cols=12 Identities=25% Similarity=0.750 Sum_probs=7.5
Q ss_pred CCcccccCCcCC
Q psy16979 73 DAQCVICLAPFQ 84 (114)
Q Consensus 73 ~~~C~ICl~~~~ 84 (114)
+..|++|-..+.
T Consensus 23 ~~~CP~Cg~pLf 34 (112)
T PRK00420 23 SKHCPVCGLPLF 34 (112)
T ss_pred cCCCCCCCCcce
Confidence 356777776654
No 208
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=21.12 E-value=25 Score=17.53 Aligned_cols=10 Identities=40% Similarity=1.082 Sum_probs=6.4
Q ss_pred CCcccccCCc
Q psy16979 73 DAQCVICLAP 82 (114)
Q Consensus 73 ~~~C~ICl~~ 82 (114)
.+.|.||.+.
T Consensus 29 ~~~C~IC~d~ 38 (41)
T PF02132_consen 29 EDPCEICSDP 38 (41)
T ss_dssp SSS-HHHH-T
T ss_pred CCcCcCCCCC
Confidence 6789999875
No 209
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=20.88 E-value=58 Score=20.32 Aligned_cols=14 Identities=29% Similarity=0.527 Sum_probs=10.7
Q ss_pred ceEEeCCCCcccHH
Q psy16979 88 EVKELLCHHKFHSE 101 (114)
Q Consensus 88 ~~~~lpC~H~FH~~ 101 (114)
++++..|||.|+..
T Consensus 23 k~vkc~CGh~f~d~ 36 (112)
T PF08882_consen 23 KVVKCDCGHEFCDA 36 (112)
T ss_pred ceeeccCCCeecCh
Confidence 46677899999853
No 210
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=20.85 E-value=1e+02 Score=15.52 Aligned_cols=22 Identities=18% Similarity=0.221 Sum_probs=14.1
Q ss_pred ccccCCcCCCCCceEEeCCCCcccH
Q psy16979 76 CVICLAPFQPGEEVKELLCHHKFHS 100 (114)
Q Consensus 76 C~ICl~~~~~~~~~~~lpC~H~FH~ 100 (114)
|..|... ++...-|.|+|+++.
T Consensus 2 C~~C~~~---~~l~~CL~C~~~~c~ 23 (50)
T smart00290 2 CSVCGTI---ENLWLCLTCGQVGCG 23 (50)
T ss_pred cccCCCc---CCeEEecCCCCcccC
Confidence 6677743 235566778888873
No 211
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 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. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=20.38 E-value=39 Score=17.83 Aligned_cols=23 Identities=30% Similarity=0.755 Sum_probs=16.6
Q ss_pred eCCC-CcccHHhHHHHHhCCCCCC
Q psy16979 92 LLCH-HKFHSECLEPWLRERQHCP 114 (114)
Q Consensus 92 lpC~-H~FH~~Ci~~Wl~~~~~CP 114 (114)
..|. |..+..|+..-|.+...||
T Consensus 16 i~C~dHYLCl~CLt~ml~~s~~C~ 39 (50)
T PF03854_consen 16 IKCSDHYLCLNCLTLMLSRSDRCP 39 (50)
T ss_dssp EE-SS-EEEHHHHHHT-SSSSEET
T ss_pred eeecchhHHHHHHHHHhccccCCC
Confidence 3476 9999999999888887776
Done!