Query 042225
Match_columns 135
No_of_seqs 149 out of 1481
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 04:06:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042225.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042225hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0823 Predicted E3 ubiquitin 99.6 2.2E-15 4.8E-20 110.2 5.2 64 69-132 44-110 (230)
2 PLN03208 E3 ubiquitin-protein 99.6 3.9E-15 8.6E-20 106.9 5.6 64 69-132 15-94 (193)
3 KOG0320 Predicted E3 ubiquitin 99.5 1.4E-14 3E-19 102.2 3.4 58 69-126 128-187 (187)
4 PF15227 zf-C3HC4_4: zinc fing 99.4 1.1E-13 2.5E-18 76.8 3.2 38 75-112 1-42 (42)
5 KOG0317 Predicted E3 ubiquitin 99.4 1.3E-13 2.9E-18 103.6 3.8 57 69-125 236-292 (293)
6 smart00504 Ubox Modified RING 99.4 3.7E-13 8E-18 80.6 4.0 52 73-124 2-53 (63)
7 PF13923 zf-C3HC4_2: Zinc fing 99.3 1.1E-12 2.4E-17 71.7 2.9 38 75-112 1-39 (39)
8 PF13920 zf-C3HC4_3: Zinc fing 99.3 2.2E-12 4.7E-17 74.2 3.1 46 72-117 2-48 (50)
9 PF13639 zf-RING_2: Ring finge 99.3 1.1E-12 2.5E-17 73.4 1.9 40 74-113 2-44 (44)
10 TIGR00599 rad18 DNA repair pro 99.2 4.1E-12 8.9E-17 100.7 3.5 59 67-125 21-79 (397)
11 PHA02929 N1R/p28-like protein; 99.2 1.1E-11 2.4E-16 92.3 4.1 49 70-118 172-228 (238)
12 PF04564 U-box: U-box domain; 99.2 2.7E-11 5.8E-16 75.0 3.5 55 71-125 3-58 (73)
13 PF00097 zf-C3HC4: Zinc finger 99.1 4.3E-11 9.4E-16 65.8 3.1 38 75-112 1-41 (41)
14 KOG2164 Predicted E3 ubiquitin 99.1 3.3E-11 7.1E-16 96.8 3.0 63 72-134 186-253 (513)
15 KOG0287 Postreplication repair 99.1 8.4E-12 1.8E-16 96.0 -0.4 57 68-124 19-75 (442)
16 COG5574 PEX10 RING-finger-cont 99.1 5.6E-11 1.2E-15 88.6 2.8 52 70-121 213-266 (271)
17 cd00162 RING RING-finger (Real 99.1 1.7E-10 3.7E-15 63.7 3.2 43 74-116 1-45 (45)
18 COG5432 RAD18 RING-finger-cont 99.0 1.2E-10 2.6E-15 88.1 1.8 55 68-122 21-75 (391)
19 PF12678 zf-rbx1: RING-H2 zinc 99.0 5.8E-10 1.3E-14 69.0 3.4 40 74-113 21-73 (73)
20 PF13445 zf-RING_UBOX: RING-ty 98.9 5.3E-10 1.1E-14 62.2 2.3 30 75-105 1-34 (43)
21 smart00184 RING Ring finger. E 98.9 9.1E-10 2E-14 58.7 3.2 38 75-112 1-39 (39)
22 PF14634 zf-RING_5: zinc-RING 98.9 9.2E-10 2E-14 61.6 2.7 41 74-114 1-44 (44)
23 KOG0978 E3 ubiquitin ligase in 98.9 3.3E-10 7.2E-15 94.6 1.2 56 71-126 642-698 (698)
24 PHA02926 zinc finger-like prot 98.9 1E-09 2.2E-14 80.4 2.8 50 69-118 167-231 (242)
25 KOG4628 Predicted E3 ubiquitin 98.8 2.6E-09 5.6E-14 83.3 3.1 46 73-118 230-279 (348)
26 COG5243 HRD1 HRD ubiquitin lig 98.8 4E-09 8.6E-14 82.3 3.7 49 69-117 284-345 (491)
27 PF14835 zf-RING_6: zf-RING of 98.7 2.6E-09 5.6E-14 63.7 0.2 53 70-124 5-58 (65)
28 TIGR00570 cdk7 CDK-activating 98.7 1.3E-08 2.8E-13 78.2 3.5 57 72-128 3-65 (309)
29 COG5540 RING-finger-containing 98.7 1.9E-08 4.1E-13 76.7 3.5 46 72-117 323-372 (374)
30 KOG0802 E3 ubiquitin ligase [P 98.7 1.3E-08 2.7E-13 84.3 2.8 52 70-121 289-345 (543)
31 KOG2177 Predicted E3 ubiquitin 98.6 1.5E-08 3.2E-13 75.9 1.3 47 68-114 9-55 (386)
32 PF12861 zf-Apc11: Anaphase-pr 98.5 1.7E-07 3.6E-12 59.2 3.6 48 72-119 21-84 (85)
33 KOG4159 Predicted E3 ubiquitin 98.4 1.1E-07 2.4E-12 75.7 2.6 58 61-118 73-130 (398)
34 COG5152 Uncharacterized conser 98.4 1.6E-07 3.5E-12 67.8 2.7 47 71-117 195-241 (259)
35 KOG2660 Locus-specific chromos 98.3 2.1E-07 4.5E-12 71.7 0.3 52 68-119 11-63 (331)
36 KOG4265 Predicted E3 ubiquitin 98.2 1E-06 2.2E-11 68.6 3.7 55 70-126 288-343 (349)
37 KOG1813 Predicted E3 ubiquitin 98.2 3.2E-07 7E-12 69.7 0.9 111 2-117 176-286 (313)
38 KOG0824 Predicted E3 ubiquitin 98.2 4.9E-07 1.1E-11 68.9 1.6 49 73-121 8-57 (324)
39 KOG4172 Predicted E3 ubiquitin 98.2 4.3E-07 9.3E-12 52.4 0.2 46 72-117 7-54 (62)
40 KOG0311 Predicted E3 ubiquitin 98.1 2.7E-07 5.8E-12 71.7 -1.9 50 69-118 40-91 (381)
41 KOG2879 Predicted E3 ubiquitin 98.1 4.7E-06 1E-10 62.9 4.4 50 68-117 235-287 (298)
42 KOG0297 TNF receptor-associate 98.1 1.5E-06 3.3E-11 69.4 1.5 54 69-122 18-72 (391)
43 PF11789 zf-Nse: Zinc-finger o 98.0 3.3E-06 7.1E-11 49.7 2.1 43 69-111 8-53 (57)
44 KOG1734 Predicted RING-contain 98.0 1.7E-06 3.7E-11 65.2 0.7 55 70-124 222-288 (328)
45 KOG4692 Predicted E3 ubiquitin 97.9 9.2E-06 2E-10 63.5 3.3 53 65-117 415-467 (489)
46 KOG3039 Uncharacterized conser 97.9 1.3E-05 2.8E-10 59.8 3.8 57 71-127 220-280 (303)
47 PF11793 FANCL_C: FANCL C-term 97.9 2.3E-06 5E-11 52.4 -0.2 48 72-119 2-68 (70)
48 KOG0828 Predicted E3 ubiquitin 97.8 8.5E-06 1.8E-10 66.0 1.9 49 69-117 568-634 (636)
49 KOG0827 Predicted E3 ubiquitin 97.8 9.8E-06 2.1E-10 63.9 2.2 58 74-131 6-71 (465)
50 KOG1645 RING-finger-containing 97.7 3.8E-06 8.2E-11 66.5 -1.4 62 72-133 4-72 (463)
51 KOG1039 Predicted E3 ubiquitin 97.7 2E-05 4.3E-10 61.9 2.5 55 64-118 153-222 (344)
52 KOG1785 Tyrosine kinase negati 97.7 1.6E-05 3.5E-10 63.1 1.8 53 72-124 369-423 (563)
53 COG5194 APC11 Component of SCF 97.7 2.2E-05 4.7E-10 48.8 1.8 30 89-118 53-82 (88)
54 COG5222 Uncharacterized conser 97.7 1.5E-05 3.3E-10 61.1 1.2 42 72-113 274-317 (427)
55 KOG1002 Nucleotide excision re 97.7 2.3E-05 5E-10 64.2 2.0 52 68-119 532-588 (791)
56 KOG0826 Predicted E3 ubiquitin 97.6 2.1E-05 4.4E-10 60.8 1.3 58 70-127 298-356 (357)
57 smart00744 RINGv The RING-vari 97.6 8.2E-05 1.8E-09 42.4 2.8 39 75-113 2-49 (49)
58 PF04641 Rtf2: Rtf2 RING-finge 97.5 0.0002 4.4E-09 54.3 4.8 60 68-128 109-172 (260)
59 KOG0825 PHD Zn-finger protein 97.4 2.1E-05 4.6E-10 66.8 -0.8 52 71-122 122-176 (1134)
60 KOG0804 Cytoplasmic Zn-finger 97.4 9E-05 1.9E-09 59.5 2.3 48 68-117 171-222 (493)
61 KOG2930 SCF ubiquitin ligase, 97.3 0.00012 2.6E-09 47.6 1.8 28 89-116 80-107 (114)
62 COG5219 Uncharacterized conser 97.2 0.00012 2.6E-09 63.6 0.8 50 68-117 1465-1523(1525)
63 KOG4275 Predicted E3 ubiquitin 97.2 4.4E-05 9.6E-10 58.3 -1.6 42 72-117 300-342 (350)
64 KOG1493 Anaphase-promoting com 97.2 9.6E-05 2.1E-09 45.6 0.1 45 74-118 22-82 (84)
65 PF14447 Prok-RING_4: Prokaryo 97.0 0.00046 1E-08 40.0 2.0 48 71-120 6-53 (55)
66 KOG1571 Predicted E3 ubiquitin 96.9 0.0008 1.7E-08 52.7 3.0 48 68-118 301-348 (355)
67 KOG4367 Predicted Zn-finger pr 96.5 0.0012 2.6E-08 53.3 1.3 35 70-104 2-36 (699)
68 KOG2817 Predicted E3 ubiquitin 96.5 0.0025 5.5E-08 50.6 3.1 56 71-126 333-394 (394)
69 PF07800 DUF1644: Protein of u 96.4 0.0034 7.4E-08 44.1 3.1 34 71-104 1-47 (162)
70 KOG3800 Predicted E3 ubiquitin 96.2 0.003 6.5E-08 48.3 2.3 53 74-126 2-60 (300)
71 KOG1814 Predicted E3 ubiquitin 96.2 0.0034 7.5E-08 50.1 2.3 35 70-104 182-219 (445)
72 KOG1001 Helicase-like transcri 96.1 0.0014 3.1E-08 55.8 -0.0 50 73-123 455-506 (674)
73 PF14570 zf-RING_4: RING/Ubox 96.1 0.003 6.5E-08 35.7 1.2 42 75-116 1-47 (48)
74 COG5236 Uncharacterized conser 96.0 0.0081 1.7E-07 47.3 3.7 50 67-116 56-107 (493)
75 KOG4185 Predicted E3 ubiquitin 96.0 0.0041 8.8E-08 47.7 2.1 45 72-116 3-54 (296)
76 KOG4739 Uncharacterized protei 96.0 0.0018 3.9E-08 48.2 0.0 48 73-122 4-53 (233)
77 PF05290 Baculo_IE-1: Baculovi 96.0 0.0068 1.5E-07 41.4 2.8 50 70-119 78-134 (140)
78 COG5175 MOT2 Transcriptional r 95.8 0.0078 1.7E-07 47.2 2.7 56 68-124 11-71 (480)
79 KOG1941 Acetylcholine receptor 95.7 0.0033 7.1E-08 50.1 0.4 44 72-115 365-414 (518)
80 KOG3970 Predicted E3 ubiquitin 95.7 0.0082 1.8E-07 44.6 2.4 44 73-116 51-104 (299)
81 PF08746 zf-RING-like: RING-li 95.7 0.012 2.5E-07 32.5 2.4 38 75-112 1-43 (43)
82 PF10367 Vps39_2: Vacuolar sor 95.5 0.0043 9.3E-08 40.2 0.4 33 68-100 74-108 (109)
83 KOG4445 Uncharacterized conser 95.3 0.0054 1.2E-07 47.3 0.4 48 71-118 114-187 (368)
84 KOG3002 Zn finger protein [Gen 95.1 0.016 3.4E-07 45.0 2.3 47 68-117 44-91 (299)
85 KOG2114 Vacuolar assembly/sort 94.9 0.015 3.2E-07 50.4 1.9 42 71-115 839-881 (933)
86 KOG1428 Inhibitor of type V ad 94.8 0.027 5.8E-07 51.8 3.2 50 69-118 3483-3545(3738)
87 PHA02825 LAP/PHD finger-like p 94.5 0.065 1.4E-06 37.8 4.1 49 69-118 5-60 (162)
88 KOG3268 Predicted E3 ubiquitin 94.4 0.031 6.6E-07 40.2 2.2 49 71-119 164-230 (234)
89 COG5220 TFB3 Cdk activating ki 94.3 0.012 2.6E-07 44.1 -0.1 61 70-130 8-77 (314)
90 COG5109 Uncharacterized conser 94.3 0.03 6.4E-07 43.6 2.0 57 70-126 334-396 (396)
91 PHA02862 5L protein; Provision 94.3 0.08 1.7E-06 36.8 3.9 45 73-118 3-54 (156)
92 KOG2932 E3 ubiquitin ligase in 94.2 0.025 5.5E-07 43.9 1.5 44 72-117 90-134 (389)
93 PHA03096 p28-like protein; Pro 93.8 0.037 8.1E-07 42.6 1.7 42 73-114 179-231 (284)
94 KOG1952 Transcription factor N 93.4 0.11 2.3E-06 45.3 4.0 49 69-117 188-247 (950)
95 KOG0298 DEAD box-containing he 92.9 0.025 5.3E-07 51.0 -0.5 45 69-113 1150-1195(1394)
96 KOG3579 Predicted E3 ubiquitin 92.9 0.054 1.2E-06 41.6 1.4 49 70-118 266-329 (352)
97 KOG3161 Predicted E3 ubiquitin 92.8 0.03 6.6E-07 47.3 -0.1 40 69-110 8-51 (861)
98 KOG1940 Zn-finger protein [Gen 92.7 0.062 1.4E-06 41.2 1.5 44 71-114 157-204 (276)
99 PF10272 Tmpp129: Putative tra 92.4 0.095 2.1E-06 41.7 2.2 33 90-122 311-356 (358)
100 KOG3039 Uncharacterized conser 92.2 0.1 2.2E-06 39.4 2.1 37 68-104 39-75 (303)
101 KOG4362 Transcriptional regula 91.9 0.027 5.9E-07 47.9 -1.4 51 71-121 20-73 (684)
102 KOG3899 Uncharacterized conser 91.8 0.12 2.6E-06 39.9 2.1 38 90-127 325-375 (381)
103 KOG1100 Predicted E3 ubiquitin 91.8 0.078 1.7E-06 39.0 1.0 39 75-117 161-200 (207)
104 PF12906 RINGv: RING-variant d 91.1 0.17 3.6E-06 28.3 1.7 38 75-112 1-47 (47)
105 KOG3113 Uncharacterized conser 91.0 0.37 8E-06 36.5 3.9 55 68-124 107-165 (293)
106 PF05883 Baculo_RING: Baculovi 91.0 0.14 3E-06 35.2 1.5 36 72-107 26-70 (134)
107 PF03854 zf-P11: P-11 zinc fin 90.8 0.091 2E-06 29.5 0.5 32 87-118 15-47 (50)
108 PF02891 zf-MIZ: MIZ/SP-RING z 90.8 0.18 3.8E-06 28.6 1.6 43 72-115 2-50 (50)
109 KOG0825 PHD Zn-finger protein 86.8 1 2.2E-05 39.4 4.2 48 69-116 93-153 (1134)
110 KOG1815 Predicted E3 ubiquitin 86.6 0.42 9.2E-06 39.0 1.8 58 70-127 68-136 (444)
111 KOG1812 Predicted E3 ubiquitin 86.4 0.34 7.4E-06 38.9 1.1 35 71-105 145-183 (384)
112 PF14446 Prok-RING_1: Prokaryo 85.3 1.2 2.6E-05 25.8 2.7 41 72-116 5-51 (54)
113 COG5183 SSM4 Protein involved 85.1 1 2.2E-05 39.6 3.4 53 69-121 9-70 (1175)
114 PF06906 DUF1272: Protein of u 84.7 1 2.3E-05 26.2 2.3 28 92-121 29-56 (57)
115 KOG2034 Vacuolar sorting prote 84.2 0.54 1.2E-05 41.3 1.4 36 69-104 814-851 (911)
116 KOG1812 Predicted E3 ubiquitin 83.7 0.53 1.1E-05 37.8 1.1 41 72-112 306-351 (384)
117 KOG0289 mRNA splicing factor [ 81.9 1.9 4.2E-05 35.2 3.6 60 73-132 1-61 (506)
118 KOG0309 Conserved WD40 repeat- 80.4 1.3 2.8E-05 38.6 2.3 39 72-110 1028-1068(1081)
119 PF04216 FdhE: Protein involve 78.1 0.34 7.4E-06 37.2 -1.7 46 69-114 169-219 (290)
120 PF06844 DUF1244: Protein of u 76.8 1.6 3.6E-05 26.2 1.3 12 93-104 11-22 (68)
121 KOG4718 Non-SMC (structural ma 75.2 1.6 3.5E-05 32.3 1.2 43 72-114 181-224 (235)
122 KOG2068 MOT2 transcription fac 74.0 2.2 4.7E-05 33.5 1.8 47 71-117 248-298 (327)
123 COG3813 Uncharacterized protei 73.3 2.5 5.4E-05 26.0 1.5 32 90-123 27-58 (84)
124 PF10235 Cript: Microtubule-as 72.6 2.1 4.6E-05 27.4 1.2 38 72-118 44-81 (90)
125 PRK03564 formate dehydrogenase 70.5 1.5 3.2E-05 34.3 0.2 46 69-114 184-234 (309)
126 TIGR01562 FdhE formate dehydro 69.2 1.2 2.6E-05 34.8 -0.6 45 70-114 182-232 (305)
127 PF07191 zinc-ribbons_6: zinc- 68.4 0.28 6.1E-06 29.9 -3.3 40 73-117 2-41 (70)
128 PF01363 FYVE: FYVE zinc finge 64.2 1.7 3.6E-05 25.8 -0.5 32 70-101 7-42 (69)
129 PF13240 zinc_ribbon_2: zinc-r 63.8 0.98 2.1E-05 21.3 -1.3 8 107-114 14-21 (23)
130 PF14353 CpXC: CpXC protein 61.6 5.5 0.00012 26.6 1.6 46 73-118 2-50 (128)
131 KOG3842 Adaptor protein Pellin 60.8 12 0.00025 29.7 3.3 58 71-128 340-426 (429)
132 KOG3053 Uncharacterized conser 60.7 8.3 0.00018 29.5 2.5 48 69-116 17-81 (293)
133 PF10571 UPF0547: Uncharacteri 60.0 2.3 5E-05 20.7 -0.4 8 75-82 3-10 (26)
134 PF04710 Pellino: Pellino; In 59.9 3 6.4E-05 33.7 0.0 33 86-118 305-340 (416)
135 KOG0824 Predicted E3 ubiquitin 59.7 2.9 6.3E-05 32.6 -0.1 47 70-116 103-150 (324)
136 PF07975 C1_4: TFIIH C1-like d 58.3 9.9 0.00021 21.7 2.0 25 89-113 26-50 (51)
137 KOG0269 WD40 repeat-containing 58.2 12 0.00026 32.8 3.3 44 72-115 779-826 (839)
138 smart00064 FYVE Protein presen 58.2 7.9 0.00017 22.7 1.7 33 72-104 10-46 (68)
139 KOG2462 C2H2-type Zn-finger pr 57.9 5.9 0.00013 30.5 1.3 50 70-119 159-228 (279)
140 KOG0801 Predicted E3 ubiquitin 57.4 4.1 9E-05 29.0 0.4 17 4-20 48-64 (205)
141 PF10146 zf-C4H2: Zinc finger- 56.7 9.2 0.0002 28.6 2.2 25 94-118 196-220 (230)
142 COG3492 Uncharacterized protei 55.0 6.5 0.00014 25.2 1.0 12 93-104 42-53 (104)
143 KOG2979 Protein involved in DN 54.1 6.4 0.00014 30.0 1.0 45 71-115 175-222 (262)
144 smart00647 IBR In Between Ring 54.0 2 4.4E-05 24.7 -1.4 15 89-103 45-59 (64)
145 COG4647 AcxC Acetone carboxyla 52.9 7.6 0.00016 26.6 1.1 21 77-97 62-82 (165)
146 PF10497 zf-4CXXC_R1: Zinc-fin 52.4 16 0.00034 23.9 2.5 24 91-114 37-69 (105)
147 KOG4451 Uncharacterized conser 51.9 11 0.00024 28.3 1.9 25 94-118 251-275 (286)
148 KOG0883 Cyclophilin type, U bo 51.4 16 0.00035 29.7 2.8 58 70-127 38-95 (518)
149 cd00065 FYVE FYVE domain; Zinc 49.6 12 0.00025 21.1 1.4 31 73-103 3-37 (57)
150 COG0068 HypF Hydrogenase matur 49.0 7.2 0.00016 33.9 0.6 47 71-117 100-184 (750)
151 KOG3799 Rab3 effector RIM1 and 48.9 11 0.00024 26.0 1.4 27 68-99 61-88 (169)
152 KOG2231 Predicted E3 ubiquitin 47.7 14 0.00031 31.9 2.1 44 74-117 2-52 (669)
153 KOG2113 Predicted RNA binding 46.1 18 0.00039 28.6 2.3 46 70-117 341-387 (394)
154 KOG0827 Predicted E3 ubiquitin 45.7 4.9 0.00011 32.5 -0.8 49 71-119 195-247 (465)
155 KOG2169 Zn-finger transcriptio 45.1 15 0.00032 31.6 1.9 54 69-122 303-361 (636)
156 PRK04023 DNA polymerase II lar 45.1 15 0.00032 33.4 1.9 51 68-120 622-677 (1121)
157 PRK11595 DNA utilization prote 44.4 18 0.0004 26.6 2.1 38 74-116 7-44 (227)
158 PF14311 DUF4379: Domain of un 44.2 15 0.00032 20.8 1.2 8 105-112 48-55 (55)
159 TIGR00622 ssl1 transcription f 42.7 22 0.00047 23.7 2.0 40 74-113 57-110 (112)
160 smart00132 LIM Zinc-binding do 41.7 15 0.00031 18.4 0.9 34 75-116 2-37 (39)
161 smart00154 ZnF_AN1 AN1-like Zi 41.1 18 0.0004 19.1 1.2 22 75-96 1-24 (39)
162 COG3058 FdhE Uncharacterized p 40.9 17 0.00036 28.2 1.4 45 70-114 183-233 (308)
163 PF05605 zf-Di19: Drought indu 40.1 11 0.00024 21.3 0.3 6 109-114 34-39 (54)
164 KOG1609 Protein involved in mR 40.0 42 0.0009 25.5 3.6 47 72-118 78-135 (323)
165 PF04710 Pellino: Pellino; In 39.6 9.7 0.00021 30.8 0.0 57 72-128 328-413 (416)
166 KOG3005 GIY-YIG type nuclease 38.2 19 0.00041 27.7 1.3 53 73-125 183-251 (276)
167 cd00350 rubredoxin_like Rubred 38.2 22 0.00048 18.0 1.2 9 106-114 17-25 (33)
168 KOG1729 FYVE finger containing 37.4 13 0.00029 28.8 0.4 55 63-117 159-225 (288)
169 PF13248 zf-ribbon_3: zinc-rib 37.2 5.4 0.00012 19.2 -1.2 6 108-113 18-23 (26)
170 PF13901 DUF4206: Domain of un 36.8 24 0.00051 25.8 1.6 37 72-113 152-196 (202)
171 PF06750 DiS_P_DiS: Bacterial 36.6 14 0.00031 23.5 0.4 12 106-117 58-69 (92)
172 PF14569 zf-UDP: Zinc-binding 36.4 43 0.00093 20.9 2.5 46 72-117 9-62 (80)
173 PRK11088 rrmA 23S rRNA methylt 36.3 22 0.00047 26.8 1.4 22 73-94 3-27 (272)
174 COG4098 comFA Superfamily II D 36.0 16 0.00034 29.5 0.7 32 69-100 36-68 (441)
175 TIGR00143 hypF [NiFe] hydrogen 35.9 16 0.00035 31.9 0.7 23 95-117 121-151 (711)
176 PRK14559 putative protein seri 35.4 19 0.00042 31.0 1.2 12 106-117 41-52 (645)
177 KOG3362 Predicted BBOX Zn-fing 35.0 11 0.00024 26.3 -0.3 31 70-101 116-147 (156)
178 KOG2042 Ubiquitin fusion degra 34.4 44 0.00095 30.2 3.1 55 69-123 867-922 (943)
179 PF04423 Rad50_zn_hook: Rad50 34.3 14 0.0003 20.9 0.1 12 108-119 22-33 (54)
180 smart00734 ZnF_Rad18 Rad18-lik 33.9 15 0.00032 17.7 0.1 10 108-117 3-12 (26)
181 PF01485 IBR: IBR domain; Int 33.6 3.7 7.9E-05 23.5 -2.5 29 74-102 20-58 (64)
182 PF02318 FYVE_2: FYVE-type zin 33.5 18 0.0004 23.9 0.6 43 71-114 53-102 (118)
183 smart00290 ZnF_UBP Ubiquitin C 31.4 32 0.0007 18.7 1.3 23 75-97 2-24 (50)
184 TIGR00373 conserved hypothetic 31.3 47 0.001 23.2 2.4 36 68-118 105-140 (158)
185 PF00412 LIM: LIM domain; Int 31.2 42 0.00091 18.5 1.8 31 71-101 25-56 (58)
186 KOG2807 RNA polymerase II tran 30.9 39 0.00085 26.9 2.1 42 72-113 330-374 (378)
187 PF12773 DZR: Double zinc ribb 30.8 33 0.00072 18.7 1.3 11 107-117 30-40 (50)
188 KOG1829 Uncharacterized conser 30.7 15 0.00033 31.2 -0.2 23 88-113 535-557 (580)
189 PRK06266 transcription initiat 29.9 54 0.0012 23.4 2.6 35 69-118 114-148 (178)
190 PLN02248 cellulose synthase-li 29.7 45 0.00097 30.7 2.5 34 88-121 148-181 (1135)
191 PF09986 DUF2225: Uncharacteri 29.0 18 0.00039 26.6 -0.1 52 71-122 4-64 (214)
192 KOG0802 E3 ubiquitin ligase [P 28.7 24 0.00052 29.7 0.6 47 71-121 478-524 (543)
193 KOG4218 Nuclear hormone recept 28.5 46 0.001 26.8 2.1 15 70-84 13-27 (475)
194 PLN02436 cellulose synthase A 28.5 51 0.0011 30.3 2.6 45 73-117 37-89 (1094)
195 PF00628 PHD: PHD-finger; Int 28.4 24 0.00052 19.2 0.4 40 74-113 1-49 (51)
196 PF01428 zf-AN1: AN1-like Zinc 28.3 37 0.0008 18.2 1.1 20 78-97 6-26 (43)
197 KOG3726 Uncharacterized conser 27.6 30 0.00065 30.0 1.0 40 72-114 654-697 (717)
198 PF10186 Atg14: UV radiation r 27.4 42 0.00091 25.2 1.7 23 74-104 1-23 (302)
199 KOG2066 Vacuolar assembly/sort 27.3 22 0.00047 31.4 0.2 41 71-112 783-830 (846)
200 PF08882 Acetone_carb_G: Aceto 26.3 37 0.00081 22.6 1.1 12 85-96 24-35 (112)
201 PF13834 DUF4193: Domain of un 25.8 29 0.00062 22.6 0.5 34 65-98 63-98 (99)
202 PF06827 zf-FPG_IleRS: Zinc fi 25.3 15 0.00033 18.0 -0.7 12 74-85 3-14 (30)
203 PLN02189 cellulose synthase 25.3 62 0.0014 29.6 2.6 46 72-117 34-87 (1040)
204 KOG3476 Microtubule-associated 24.5 8.8 0.00019 24.4 -2.0 39 71-118 53-91 (100)
205 COG4306 Uncharacterized protei 24.4 55 0.0012 22.4 1.6 23 94-119 30-52 (160)
206 PRK05978 hypothetical protein; 23.2 49 0.0011 23.1 1.3 32 72-118 33-64 (148)
207 KOG2071 mRNA cleavage and poly 23.1 47 0.001 28.3 1.4 34 70-103 511-557 (579)
208 PF12292 DUF3624: Protein of u 23.1 24 0.00053 21.8 -0.2 22 95-116 3-25 (77)
209 smart00249 PHD PHD zinc finger 23.0 45 0.00098 17.1 0.9 27 75-101 2-31 (47)
210 PRK01343 zinc-binding protein; 23.0 48 0.001 19.3 1.0 12 106-117 9-20 (57)
211 PF12132 DUF3587: Protein of u 22.7 51 0.0011 24.2 1.3 23 82-104 151-177 (199)
212 PF07503 zf-HYPF: HypF finger; 22.5 80 0.0017 16.4 1.7 24 94-117 1-32 (35)
213 PTZ00303 phosphatidylinositol 22.5 41 0.00089 30.1 0.9 31 73-103 461-500 (1374)
214 PRK08351 DNA-directed RNA poly 22.4 36 0.00077 20.1 0.4 19 105-123 14-32 (61)
215 PF13719 zinc_ribbon_5: zinc-r 22.4 43 0.00092 17.4 0.7 12 73-84 3-14 (37)
216 PF09889 DUF2116: Uncharacteri 21.9 51 0.0011 19.3 1.0 14 106-119 3-16 (59)
217 PLN02638 cellulose synthase A 21.8 93 0.002 28.7 2.9 45 73-117 18-70 (1079)
218 PF00096 zf-C2H2: Zinc finger, 21.8 32 0.00069 15.2 0.1 11 74-84 2-12 (23)
219 PF09723 Zn-ribbon_8: Zinc rib 21.7 17 0.00037 19.5 -1.0 9 106-114 26-34 (42)
220 smart00531 TFIIE Transcription 21.5 66 0.0014 22.1 1.7 12 107-118 124-135 (147)
221 PF13717 zinc_ribbon_4: zinc-r 21.2 47 0.001 17.2 0.7 11 73-83 3-13 (36)
222 TIGR00627 tfb4 transcription f 21.0 77 0.0017 24.5 2.1 9 107-115 270-278 (279)
223 PF10083 DUF2321: Uncharacteri 20.3 67 0.0015 22.7 1.5 26 91-119 27-52 (158)
224 PF14205 Cys_rich_KTR: Cystein 20.3 41 0.0009 19.4 0.3 11 73-83 5-15 (55)
No 1
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.58 E-value=2.2e-15 Score=110.17 Aligned_cols=64 Identities=30% Similarity=0.745 Sum_probs=57.9
Q ss_pred CCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcC---CCCccccccccccCceeecCCCCCCC
Q 042225 69 GEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ---GRCPTCRTRMSVRSIRRIFFPQLQPP 132 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~~~~~~~~~ 132 (135)
....+.|.||++..++||++.|||.|||.||.+|+..+ +.||+|+..+..+.|+++|-++...+
T Consensus 44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~ 110 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSKKP 110 (230)
T ss_pred CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCCCC
Confidence 45689999999999999999999999999999999843 56999999999999999999987544
No 2
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.57 E-value=3.9e-15 Score=106.94 Aligned_cols=64 Identities=31% Similarity=0.729 Sum_probs=55.7
Q ss_pred CCccceeeccccCccCcEEcCCCCcccHHhHHHHHhc----------------CCCCccccccccccCceeecCCCCCCC
Q 042225 69 GEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL----------------QGRCPTCRTRMSVRSIRRIFFPQLQPP 132 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~----------------~~~CP~Cr~~~~~~~~~~~~~~~~~~~ 132 (135)
..+.+.|+||++.+.+|+.++|||.||+.||..|+.. ...||+||..+...+++++|..+...+
T Consensus 15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg~~~~ 94 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRGQKAP 94 (193)
T ss_pred CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccCCCCC
Confidence 4457889999999999999999999999999999752 247999999999999999998776443
No 3
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.49 E-value=1.4e-14 Score=102.16 Aligned_cols=58 Identities=47% Similarity=1.075 Sum_probs=53.0
Q ss_pred CCccceeeccccCccC--cEEcCCCCcccHHhHHHHHhcCCCCccccccccccCceeecC
Q 042225 69 GEVRFTCGICLDTMKE--ESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRIFF 126 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~--p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 126 (135)
.+..+.|+||++.+.+ |+.+.|||+||+.||...++....||+|++.+..+++++|||
T Consensus 128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI~L 187 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRIYL 187 (187)
T ss_pred cccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhheeccC
Confidence 4467999999998886 466899999999999999999999999999999999999996
No 4
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.43 E-value=1.1e-13 Score=76.83 Aligned_cols=38 Identities=45% Similarity=1.047 Sum_probs=30.7
Q ss_pred eeccccCccCcEEcCCCCcccHHhHHHHHhcC----CCCccc
Q 042225 75 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ----GRCPTC 112 (135)
Q Consensus 75 C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~----~~CP~C 112 (135)
|+||+++|.+|++++|||+||..||.+|++.. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999999999999999999999844 368887
No 5
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.41 E-value=1.3e-13 Score=103.64 Aligned_cols=57 Identities=32% Similarity=0.760 Sum_probs=52.0
Q ss_pred CCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccccCceeec
Q 042225 69 GEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRIF 125 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~ 125 (135)
......|.+|++...+|..++|||.||+.||.+|...+..||+||..+...+++-++
T Consensus 236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi~Lr 292 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVICLR 292 (293)
T ss_pred CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcceeeec
Confidence 345688999999999999999999999999999999999999999999998887654
No 6
>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=99.39 E-value=3.7e-13 Score=80.64 Aligned_cols=52 Identities=19% Similarity=0.331 Sum_probs=48.9
Q ss_pred ceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccccCceee
Q 042225 73 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRI 124 (135)
Q Consensus 73 ~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~ 124 (135)
+.|+||.+.+.+|+.++|||+||+.||..|++....||.|+..+..++++++
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~ 53 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPN 53 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeC
Confidence 5799999999999999999999999999999988899999999988888876
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=99.32 E-value=1.1e-12 Score=71.70 Aligned_cols=38 Identities=45% Similarity=1.156 Sum_probs=33.8
Q ss_pred eeccccCccCc-EEcCCCCcccHHhHHHHHhcCCCCccc
Q 042225 75 CGICLDTMKEE-SSTKCGHVFCKSCIVDAIRLQGRCPTC 112 (135)
Q Consensus 75 C~IC~~~~~~p-~~~~CgH~fc~~Ci~~~~~~~~~CP~C 112 (135)
|+||++.+.+| +.++|||.||+.|+.+|++....||+|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999999 689999999999999999998899987
No 8
>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=99.29 E-value=2.2e-12 Score=74.19 Aligned_cols=46 Identities=28% Similarity=0.857 Sum_probs=41.4
Q ss_pred cceeeccccCccCcEEcCCCCc-ccHHhHHHHHhcCCCCcccccccc
Q 042225 72 RFTCGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
+..|.||++...+.+.++|||. ||..|+.+|++....||+||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5679999999999999999999 999999999998899999999875
No 9
>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=99.29 E-value=1.1e-12 Score=73.40 Aligned_cols=40 Identities=40% Similarity=1.013 Sum_probs=35.2
Q ss_pred eeeccccCcc---CcEEcCCCCcccHHhHHHHHhcCCCCcccc
Q 042225 74 TCGICLDTMK---EESSTKCGHVFCKSCIVDAIRLQGRCPTCR 113 (135)
Q Consensus 74 ~C~IC~~~~~---~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr 113 (135)
.|+||++.+. ..+.++|||.||.+|+.+|++...+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 5999999885 357789999999999999999999999997
No 10
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.25 E-value=4.1e-12 Score=100.67 Aligned_cols=59 Identities=29% Similarity=0.633 Sum_probs=51.6
Q ss_pred CCCCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccccCceeec
Q 042225 67 VVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRIF 125 (135)
Q Consensus 67 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~ 125 (135)
..+...+.|+||.+.+.+|+.++|||.||..|+..|+.....||+|+..+....+...+
T Consensus 21 ~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~ 79 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNW 79 (397)
T ss_pred cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccch
Confidence 34667889999999999999999999999999999999888899999998766665443
No 11
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.21 E-value=1.1e-11 Score=92.33 Aligned_cols=49 Identities=31% Similarity=0.735 Sum_probs=42.0
Q ss_pred CccceeeccccCccCc--------EEcCCCCcccHHhHHHHHhcCCCCccccccccc
Q 042225 70 EVRFTCGICLDTMKEE--------SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p--------~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
..+..|+||++.+.++ +.++|||.||..||.+|++...+||+||..+..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 3467899999987653 456899999999999999999999999998873
No 12
>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=99.16 E-value=2.7e-11 Score=75.00 Aligned_cols=55 Identities=22% Similarity=0.280 Sum_probs=45.6
Q ss_pred ccceeeccccCccCcEEcCCCCcccHHhHHHHHhc-CCCCccccccccccCceeec
Q 042225 71 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL-QGRCPTCRTRMSVRSIRRIF 125 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~~ 125 (135)
+.+.|+|+.+++.+|+.+++||+|++.+|..|+.. ...||.++..+...++.+++
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~ 58 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNR 58 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-H
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECH
Confidence 57899999999999999999999999999999998 78999999999998888763
No 13
>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=99.13 E-value=4.3e-11 Score=65.80 Aligned_cols=38 Identities=34% Similarity=0.998 Sum_probs=34.7
Q ss_pred eeccccCccCcE-EcCCCCcccHHhHHHHHh--cCCCCccc
Q 042225 75 CGICLDTMKEES-STKCGHVFCKSCIVDAIR--LQGRCPTC 112 (135)
Q Consensus 75 C~IC~~~~~~p~-~~~CgH~fc~~Ci~~~~~--~~~~CP~C 112 (135)
|+||++.+.+++ .++|||.||..|+.+|++ ....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999999998 899999999999999999 45679987
No 14
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=3.3e-11 Score=96.83 Aligned_cols=63 Identities=29% Similarity=0.753 Sum_probs=56.6
Q ss_pred cceeeccccCccCcEEcCCCCcccHHhHHHHHhcC-----CCCccccccccccCceeecCCCCCCCCC
Q 042225 72 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ-----GRCPTCRTRMSVRSIRRIFFPQLQPPAS 134 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~-----~~CP~Cr~~~~~~~~~~~~~~~~~~~~~ 134 (135)
+..||||++...-|..+.|||.||..||..++... ..||+|+..+..++|.++++.+.|.+++
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~qkke~ 253 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQKKEE 253 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccccccHH
Confidence 78899999999999999999999999999998844 4799999999999999999988776653
No 15
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=99.12 E-value=8.4e-12 Score=95.96 Aligned_cols=57 Identities=28% Similarity=0.682 Sum_probs=52.3
Q ss_pred CCCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccccCceee
Q 042225 68 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRI 124 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~ 124 (135)
.+...++|-||+++|..|+.++|+|+||..||..++..+..||.|+..+.+.+++..
T Consensus 19 ~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n 75 (442)
T KOG0287|consen 19 TLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNN 75 (442)
T ss_pred hhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhh
Confidence 456788999999999999999999999999999999999999999999998877654
No 16
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.08 E-value=5.6e-11 Score=88.64 Aligned_cols=52 Identities=31% Similarity=0.783 Sum_probs=47.4
Q ss_pred CccceeeccccCccCcEEcCCCCcccHHhHHH-HHhcCCC-CccccccccccCc
Q 042225 70 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVD-AIRLQGR-CPTCRTRMSVRSI 121 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~-~~~~~~~-CP~Cr~~~~~~~~ 121 (135)
..+++|.||++....|..++|||.||+.||.. |-+.+.. ||+||+.+..+++
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 56899999999999999999999999999999 8777765 9999999987777
No 17
>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=99.05 E-value=1.7e-10 Score=63.67 Aligned_cols=43 Identities=44% Similarity=1.065 Sum_probs=36.7
Q ss_pred eeeccccCccCcEEcC-CCCcccHHhHHHHHhc-CCCCccccccc
Q 042225 74 TCGICLDTMKEESSTK-CGHVFCKSCIVDAIRL-QGRCPTCRTRM 116 (135)
Q Consensus 74 ~C~IC~~~~~~p~~~~-CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~ 116 (135)
.|+||++.+.+++.+. |||.||..|+..|+.. ...||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 3899999997776665 9999999999999987 67899998753
No 18
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.00 E-value=1.2e-10 Score=88.13 Aligned_cols=55 Identities=31% Similarity=0.632 Sum_probs=49.1
Q ss_pred CCCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccccCce
Q 042225 68 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIR 122 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 122 (135)
.+...++|-||...+..|..++|||+||..||.+++..+..||+||.......++
T Consensus 21 ~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr 75 (391)
T COG5432 21 GLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLR 75 (391)
T ss_pred cchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhhhcc
Confidence 3556788999999999999999999999999999999999999999988765444
No 19
>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=98.96 E-value=5.8e-10 Score=69.01 Aligned_cols=40 Identities=33% Similarity=0.906 Sum_probs=33.4
Q ss_pred eeeccccCccCc-------------EEcCCCCcccHHhHHHHHhcCCCCcccc
Q 042225 74 TCGICLDTMKEE-------------SSTKCGHVFCKSCIVDAIRLQGRCPTCR 113 (135)
Q Consensus 74 ~C~IC~~~~~~p-------------~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr 113 (135)
.|+||++.+.++ ....|||.||..||.+|++...+||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 399999988332 3458999999999999999999999997
No 20
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.94 E-value=5.3e-10 Score=62.22 Aligned_cols=30 Identities=37% Similarity=0.926 Sum_probs=21.4
Q ss_pred eeccccCccC----cEEcCCCCcccHHhHHHHHhc
Q 042225 75 CGICLDTMKE----ESSTKCGHVFCKSCIVDAIRL 105 (135)
Q Consensus 75 C~IC~~~~~~----p~~~~CgH~fc~~Ci~~~~~~ 105 (135)
|+||.+ +.+ |+.|+|||+||.+|+.++.+.
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 899999 877 899999999999999999884
No 21
>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=98.94 E-value=9.1e-10 Score=58.68 Aligned_cols=38 Identities=42% Similarity=1.106 Sum_probs=34.2
Q ss_pred eeccccCccCcEEcCCCCcccHHhHHHHHh-cCCCCccc
Q 042225 75 CGICLDTMKEESSTKCGHVFCKSCIVDAIR-LQGRCPTC 112 (135)
Q Consensus 75 C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~-~~~~CP~C 112 (135)
|+||++...+++.++|||.||..|+..|++ ....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999988999999999999999999998 55679987
No 22
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.91 E-value=9.2e-10 Score=61.56 Aligned_cols=41 Identities=34% Similarity=0.976 Sum_probs=34.8
Q ss_pred eeeccccCcc---CcEEcCCCCcccHHhHHHHHhcCCCCccccc
Q 042225 74 TCGICLDTMK---EESSTKCGHVFCKSCIVDAIRLQGRCPTCRT 114 (135)
Q Consensus 74 ~C~IC~~~~~---~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 114 (135)
.|++|++.+. .+..++|||+||..|+..+......||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 3899999882 4678999999999999998856678999974
No 23
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=3.3e-10 Score=94.64 Aligned_cols=56 Identities=32% Similarity=0.828 Sum_probs=51.5
Q ss_pred ccceeeccccCccCcEEcCCCCcccHHhHHHHHh-cCCCCccccccccccCceeecC
Q 042225 71 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIR-LQGRCPTCRTRMSVRSIRRIFF 126 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~~~~ 126 (135)
.-+.|++|...+.+.+.+.|||.||..|+...+. .+..||.|...|..+|+.+||+
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccCC
Confidence 4678999999999999999999999999999887 4578999999999999999985
No 24
>PHA02926 zinc finger-like protein; Provisional
Probab=98.89 E-value=1e-09 Score=80.38 Aligned_cols=50 Identities=34% Similarity=0.749 Sum_probs=39.8
Q ss_pred CCccceeeccccCccC---------cEEcCCCCcccHHhHHHHHhcC------CCCccccccccc
Q 042225 69 GEVRFTCGICLDTMKE---------ESSTKCGHVFCKSCIVDAIRLQ------GRCPTCRTRMSV 118 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~---------p~~~~CgH~fc~~Ci~~~~~~~------~~CP~Cr~~~~~ 118 (135)
.+.+..|+||++...+ ++..+|+|.||..||..|.+.. .+||.||..+..
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 4456789999997643 2456999999999999999843 459999998763
No 25
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.81 E-value=2.6e-09 Score=83.25 Aligned_cols=46 Identities=28% Similarity=0.660 Sum_probs=39.6
Q ss_pred ceeeccccCccCc---EEcCCCCcccHHhHHHHHhcCC-CCccccccccc
Q 042225 73 FTCGICLDTMKEE---SSTKCGHVFCKSCIVDAIRLQG-RCPTCRTRMSV 118 (135)
Q Consensus 73 ~~C~IC~~~~~~p---~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~~~ 118 (135)
..|+||++.|.+. ..|||+|.||..||+.|+...+ .||+|+..+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 4899999999864 5689999999999999998764 59999987754
No 26
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=4e-09 Score=82.30 Aligned_cols=49 Identities=31% Similarity=0.693 Sum_probs=42.3
Q ss_pred CCccceeeccccCcc-C------------cEEcCCCCcccHHhHHHHHhcCCCCcccccccc
Q 042225 69 GEVRFTCGICLDTMK-E------------ESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~-~------------p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
..++..|.||++.+. . |..++|||.+|.+|+..|+..+.+||.||.++.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 457889999999743 2 367899999999999999999999999999854
No 27
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.71 E-value=2.6e-09 Score=63.73 Aligned_cols=53 Identities=40% Similarity=0.868 Sum_probs=27.6
Q ss_pred CccceeeccccCccCcEE-cCCCCcccHHhHHHHHhcCCCCccccccccccCceee
Q 042225 70 EVRFTCGICLDTMKEESS-TKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRI 124 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~ 124 (135)
++.++|++|.+.+.+|+. ..|.|.||..|+...+. ..||+|..+.-..|++-+
T Consensus 5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~N 58 (65)
T PF14835_consen 5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQIN 58 (65)
T ss_dssp HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----
T ss_pred HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhh
Confidence 346789999999999975 58999999999976444 459999999888877643
No 28
>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=98.69 E-value=1.3e-08 Score=78.24 Aligned_cols=57 Identities=30% Similarity=0.656 Sum_probs=44.2
Q ss_pred cceeeccccC-ccCcE----EcCCCCcccHHhHHHHHh-cCCCCccccccccccCceeecCCC
Q 042225 72 RFTCGICLDT-MKEES----STKCGHVFCKSCIVDAIR-LQGRCPTCRTRMSVRSIRRIFFPQ 128 (135)
Q Consensus 72 ~~~C~IC~~~-~~~p~----~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~~~~~~ 128 (135)
+..||+|... +.+|. ..+|||.||.+|+...+. ....||.|+..+..+.+....|..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q~F~D 65 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQLFED 65 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcccccccc
Confidence 4679999983 33432 227999999999999765 446899999999998887776654
No 29
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=1.9e-08 Score=76.68 Aligned_cols=46 Identities=26% Similarity=0.735 Sum_probs=39.9
Q ss_pred cceeeccccCccCc---EEcCCCCcccHHhHHHHHh-cCCCCcccccccc
Q 042225 72 RFTCGICLDTMKEE---SSTKCGHVFCKSCIVDAIR-LQGRCPTCRTRMS 117 (135)
Q Consensus 72 ~~~C~IC~~~~~~p---~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~ 117 (135)
...|+||+..+.+. +.+||.|.||..|+..|+. .+..||+||..+.
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 36799999988743 6789999999999999998 6789999998875
No 30
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=1.3e-08 Score=84.31 Aligned_cols=52 Identities=33% Similarity=0.659 Sum_probs=45.6
Q ss_pred CccceeeccccCccC-----cEEcCCCCcccHHhHHHHHhcCCCCccccccccccCc
Q 042225 70 EVRFTCGICLDTMKE-----ESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSI 121 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~-----p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 121 (135)
..+..|.||.+.+.. +..++|||.||..|+..|++.+.+||.||..+.....
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDYVL 345 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhcccc
Confidence 347889999999998 7899999999999999999999999999996654443
No 31
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.59 E-value=1.5e-08 Score=75.91 Aligned_cols=47 Identities=36% Similarity=0.853 Sum_probs=41.5
Q ss_pred CCCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccc
Q 042225 68 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRT 114 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 114 (135)
...+.+.|+||++.|.+|..++|||.||..|+..++.....||.||.
T Consensus 9 ~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 9 VLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred hccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 34567889999999999989999999999999999885568999993
No 32
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.48 E-value=1.7e-07 Score=59.23 Aligned_cols=48 Identities=31% Similarity=0.715 Sum_probs=36.8
Q ss_pred cceeeccccCccC------------c-EEcCCCCcccHHhHHHHHhc---CCCCcccccccccc
Q 042225 72 RFTCGICLDTMKE------------E-SSTKCGHVFCKSCIVDAIRL---QGRCPTCRTRMSVR 119 (135)
Q Consensus 72 ~~~C~IC~~~~~~------------p-~~~~CgH~fc~~Ci~~~~~~---~~~CP~Cr~~~~~~ 119 (135)
+..|.||...|.. | +.-.|+|.||..||.+|+.. +..||+||..+..+
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 5568888877662 2 22379999999999999995 35899999987643
No 33
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=1.1e-07 Score=75.74 Aligned_cols=58 Identities=24% Similarity=0.572 Sum_probs=49.9
Q ss_pred cCCCCcCCCCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccc
Q 042225 61 SRNGMVVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 61 ~~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
+.......+..++.|.||+..+.+|++++|||.||..||.+.+.....||.||..+..
T Consensus 73 ~~~s~~~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 73 ALLSGPEEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred hhhccCccccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 3344444567899999999999999999999999999999988888899999988864
No 34
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.41 E-value=1.6e-07 Score=67.80 Aligned_cols=47 Identities=30% Similarity=0.784 Sum_probs=42.3
Q ss_pred ccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCcccccccc
Q 042225 71 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
-.+.|.||...+..|+.+.|||.||..|..+-++....|-+|.+...
T Consensus 195 IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 195 IPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred CceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 45789999999999999999999999999988888889999987654
No 35
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=98.26 E-value=2.1e-07 Score=71.69 Aligned_cols=52 Identities=31% Similarity=0.673 Sum_probs=45.9
Q ss_pred CCCccceeeccccCccCcEEc-CCCCcccHHhHHHHHhcCCCCcccccccccc
Q 042225 68 VGEVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRLQGRCPTCRTRMSVR 119 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~ 119 (135)
.....+.|.+|..+|.+++++ .|-|+||++||..++.....||.|...+...
T Consensus 11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 456788999999999998765 7999999999999999999999998887654
No 36
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=1e-06 Score=68.56 Aligned_cols=55 Identities=25% Similarity=0.646 Sum_probs=46.9
Q ss_pred CccceeeccccCccCcEEcCCCCc-ccHHhHHHHHhcCCCCccccccccccCceeecC
Q 042225 70 EVRFTCGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGRCPTCRTRMSVRSIRRIFF 126 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 126 (135)
+....|.||+...++.+.+||.|. .|..|.+...-+...||+||.++.. +..++.
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~--ll~i~~ 343 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE--LLEIYV 343 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchHh--hheecc
Confidence 447789999999999999999997 8999999887778899999999864 555544
No 37
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=3.2e-07 Score=69.71 Aligned_cols=111 Identities=18% Similarity=0.291 Sum_probs=70.3
Q ss_pred CCcCCCCCCCCCccCCCcccccCCCcccCCCCccCCCCCcccccCCCCCCchhhhhhcccCCCCcCCCCccceeeccccC
Q 042225 2 LKRRHPLSFGPLTEEDDLELRLGPRTVDSSHIAFQGRSINGIEDVPKVSNDKEKCRVCESRNGMVVVGEVRFTCGICLDT 81 (135)
Q Consensus 2 ~~~~~~~~~~p~~~~~d~e~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~ 81 (135)
++-...+.+.|.+-.+-.++.--.-+.|......+...-.+......... .. ............-.+.|-||..+
T Consensus 176 ~r~~~~~d~qpDicKdykeTgycg~gdSckFlh~r~DyK~GWqi~~e~d~--~k---e~~~~~~~D~~~~Pf~c~icr~~ 250 (313)
T KOG1813|consen 176 TRAGERIDYQPDICKDYKETGYCGYGDSCKFLHDRSDYKAGWQIEFEWDS--AK---EKKRVKIEDIELLPFKCFICRKY 250 (313)
T ss_pred hcccceeecCchhhhhhHhhCcccccchhhhhhhhhhccccceeehhhhc--cc---cccceecCCcccCCccccccccc
Confidence 44556677777777776666555555555555554443322221111111 11 11111122123345679999999
Q ss_pred ccCcEEcCCCCcccHHhHHHHHhcCCCCcccccccc
Q 042225 82 MKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 82 ~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
|.+||++.|||.||..|-..-++....|.+|.+...
T Consensus 251 f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 251 FYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred cccchhhcCCceeehhhhccccccCCcceecccccc
Confidence 999999999999999999888888889999977654
No 38
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=4.9e-07 Score=68.93 Aligned_cols=49 Identities=27% Similarity=0.505 Sum_probs=43.0
Q ss_pred ceeeccccCccCcEEcCCCCcccHHhHHHHHhcCC-CCccccccccccCc
Q 042225 73 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQG-RCPTCRTRMSVRSI 121 (135)
Q Consensus 73 ~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~-~CP~Cr~~~~~~~~ 121 (135)
-.|+||+....-|+.+.|+|.||.-||....+..+ +|++||.++...-+
T Consensus 8 ~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~ 57 (324)
T KOG0824|consen 8 KECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID 57 (324)
T ss_pred CcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence 45999999999999999999999999998887665 59999999986544
No 39
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=4.3e-07 Score=52.39 Aligned_cols=46 Identities=30% Similarity=0.795 Sum_probs=40.2
Q ss_pred cceeeccccCccCcEEcCCCCc-ccHHhHHHHHh-cCCCCcccccccc
Q 042225 72 RFTCGICLDTMKEESSTKCGHV-FCKSCIVDAIR-LQGRCPTCRTRMS 117 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~~~CgH~-fc~~Ci~~~~~-~~~~CP~Cr~~~~ 117 (135)
+..|.||++...+.+...|||. .|..|-.+.++ ....||+||+++.
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 3679999999999999999997 89999988777 5678999999876
No 40
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=2.7e-07 Score=71.68 Aligned_cols=50 Identities=38% Similarity=0.879 Sum_probs=41.9
Q ss_pred CCccceeeccccCccCcEEc-CCCCcccHHhHHHHHhc-CCCCccccccccc
Q 042225 69 GEVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRL-QGRCPTCRTRMSV 118 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~~-~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~ 118 (135)
+..++.|+||++.+...+++ .|+|.||..||..-++. ...||.||+.+..
T Consensus 40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 34578899999999988766 69999999999877774 4689999998853
No 41
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.08 E-value=4.7e-06 Score=62.91 Aligned_cols=50 Identities=24% Similarity=0.625 Sum_probs=42.0
Q ss_pred CCCccceeeccccCccCcEEcC-CCCcccHHhHHHHHhc--CCCCcccccccc
Q 042225 68 VGEVRFTCGICLDTMKEESSTK-CGHVFCKSCIVDAIRL--QGRCPTCRTRMS 117 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~~-CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~ 117 (135)
....+..|++|.+....|.+.. |||.||+.|+...... .++||.|..++.
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3456788999999999998775 9999999999887763 479999987765
No 42
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=98.06 E-value=1.5e-06 Score=69.40 Aligned_cols=54 Identities=26% Similarity=0.813 Sum_probs=47.6
Q ss_pred CCccceeeccccCccCcEE-cCCCCcccHHhHHHHHhcCCCCccccccccccCce
Q 042225 69 GEVRFTCGICLDTMKEESS-TKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIR 122 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 122 (135)
..+++.|++|..++.+|+. +.|||.||..|+..|+.....||.|+..+......
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 5678999999999999998 49999999999999999988999998887655443
No 43
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.03 E-value=3.3e-06 Score=49.71 Aligned_cols=43 Identities=35% Similarity=0.786 Sum_probs=30.0
Q ss_pred CCccceeeccccCccCcEEc-CCCCcccHHhHHHHHhc--CCCCcc
Q 042225 69 GEVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRL--QGRCPT 111 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~~-~CgH~fc~~Ci~~~~~~--~~~CP~ 111 (135)
....+.|||....+.+|+.. .|||+|-+..|.+|++. ...||+
T Consensus 8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 34568899999999999874 89999999999999943 457998
No 44
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=1.7e-06 Score=65.19 Aligned_cols=55 Identities=20% Similarity=0.509 Sum_probs=43.7
Q ss_pred CccceeeccccCcc----------CcEEcCCCCcccHHhHHHHHh--cCCCCccccccccccCceee
Q 042225 70 EVRFTCGICLDTMK----------EESSTKCGHVFCKSCIVDAIR--LQGRCPTCRTRMSVRSIRRI 124 (135)
Q Consensus 70 ~~~~~C~IC~~~~~----------~p~~~~CgH~fc~~Ci~~~~~--~~~~CP~Cr~~~~~~~~~~~ 124 (135)
.++..|+||...+. +...+.|+|.|+..||..|-- ++.+||.|++.+..+.++++
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsn 288 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSN 288 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccC
Confidence 35667999987554 346789999999999999976 55689999999987766654
No 45
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=9.2e-06 Score=63.47 Aligned_cols=53 Identities=23% Similarity=0.414 Sum_probs=47.7
Q ss_pred CcCCCCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCcccccccc
Q 042225 65 MVVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 65 ~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
...+..++..|+||..-..+.+..||+|.-|+.||.+.+.+.+.|-.|+..+.
T Consensus 415 ~~lp~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 415 KDLPDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CCCCCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 34456789999999999999999999999999999999999999999988776
No 46
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.90 E-value=1.3e-05 Score=59.84 Aligned_cols=57 Identities=25% Similarity=0.363 Sum_probs=51.1
Q ss_pred ccceeeccccCccCc----EEcCCCCcccHHhHHHHHhcCCCCccccccccccCceeecCC
Q 042225 71 VRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRIFFP 127 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 127 (135)
..+.|++|.+.+.+. +.-+|||+||+.|++..+...+-||+|.+++..++|+.+.--
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrG 280 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRG 280 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeecc
Confidence 679999999999986 344899999999999999999999999999999999988543
No 47
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.89 E-value=2.3e-06 Score=52.41 Aligned_cols=48 Identities=27% Similarity=0.684 Sum_probs=24.2
Q ss_pred cceeeccccCcc-C---cEE----cCCCCcccHHhHHHHHhc---C--------CCCcccccccccc
Q 042225 72 RFTCGICLDTMK-E---ESS----TKCGHVFCKSCIVDAIRL---Q--------GRCPTCRTRMSVR 119 (135)
Q Consensus 72 ~~~C~IC~~~~~-~---p~~----~~CgH~fc~~Ci~~~~~~---~--------~~CP~Cr~~~~~~ 119 (135)
+..|.||+..+. + |.. ..|+..||..|+.+|+.. . ..||.|+.++..+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 456999999765 2 211 269999999999999882 1 1499999988653
No 48
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=8.5e-06 Score=65.98 Aligned_cols=49 Identities=24% Similarity=0.600 Sum_probs=38.5
Q ss_pred CCccceeeccccCccC-----------------cEEcCCCCcccHHhHHHHHhc-CCCCcccccccc
Q 042225 69 GEVRFTCGICLDTMKE-----------------ESSTKCGHVFCKSCIVDAIRL-QGRCPTCRTRMS 117 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~-----------------p~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~ 117 (135)
.+....|+||+....- -+.+||.|.|+..|+.+|+.. +..||+||.++.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 3455679999975531 145699999999999999994 458999999875
No 49
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=9.8e-06 Score=63.88 Aligned_cols=58 Identities=22% Similarity=0.643 Sum_probs=43.2
Q ss_pred eeeccccCccCcEE---c-CCCCcccHHhHHHHHhcC---CCCccccccccccCce-eecCCCCCC
Q 042225 74 TCGICLDTMKEESS---T-KCGHVFCKSCIVDAIRLQ---GRCPTCRTRMSVRSIR-RIFFPQLQP 131 (135)
Q Consensus 74 ~C~IC~~~~~~p~~---~-~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~-~~~~~~~~~ 131 (135)
.|.||.+.+.+..- + .|||+|+..|+..|+... ..||.|+-.+..+.++ +++++.++.
T Consensus 6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~N~~~~d~vvE 71 (465)
T KOG0827|consen 6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVANPSTVDHVVE 71 (465)
T ss_pred eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeeechhhhhhhhc
Confidence 59999665543322 2 599999999999999843 5799999778777777 666665553
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=3.8e-06 Score=66.49 Aligned_cols=62 Identities=32% Similarity=0.650 Sum_probs=50.2
Q ss_pred cceeeccccCccCc-----EEcCCCCcccHHhHHHHHhc--CCCCccccccccccCceeecCCCCCCCC
Q 042225 72 RFTCGICLDTMKEE-----SSTKCGHVFCKSCIVDAIRL--QGRCPTCRTRMSVRSIRRIFFPQLQPPA 133 (135)
Q Consensus 72 ~~~C~IC~~~~~~p-----~~~~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~~~~~~~~~~~~~~~~~ 133 (135)
...|+||++.+.-+ +.+.|||.|-..||+.|+.+ .+.||.|.....++++++.|--.+++.|
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~alR~qa~d 72 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEYALRVQAMD 72 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHHHHHHHHHh
Confidence 45799999988765 46789999999999999963 2479999998888999888766655543
No 51
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=2e-05 Score=61.85 Aligned_cols=55 Identities=31% Similarity=0.730 Sum_probs=42.4
Q ss_pred CCcCCCCccceeeccccCccCcE-----E---cCCCCcccHHhHHHHHh--c-----CCCCccccccccc
Q 042225 64 GMVVVGEVRFTCGICLDTMKEES-----S---TKCGHVFCKSCIVDAIR--L-----QGRCPTCRTRMSV 118 (135)
Q Consensus 64 ~~~~~~~~~~~C~IC~~~~~~p~-----~---~~CgH~fc~~Ci~~~~~--~-----~~~CP~Cr~~~~~ 118 (135)
........+..|.||++...+.. . .+|.|.||..||..|.. + .+.||.||.....
T Consensus 153 ~~a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 153 SFALQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred ccCcCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 33444567889999999777654 3 57999999999999984 3 3689999977653
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.71 E-value=1.6e-05 Score=63.05 Aligned_cols=53 Identities=28% Similarity=0.586 Sum_probs=43.2
Q ss_pred cceeeccccCccCcEEcCCCCcccHHhHHHHHhc--CCCCccccccccccCceee
Q 042225 72 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL--QGRCPTCRTRMSVRSIRRI 124 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~--~~~CP~Cr~~~~~~~~~~~ 124 (135)
...|.||-+--.+-..-+|||..|..|+..|... ..+||.||..+....-+.+
T Consensus 369 FeLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~vii 423 (563)
T KOG1785|consen 369 FELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVII 423 (563)
T ss_pred HHHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccceee
Confidence 4569999998877777799999999999999864 4689999999976544333
No 53
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.69 E-value=2.2e-05 Score=48.80 Aligned_cols=30 Identities=30% Similarity=0.656 Sum_probs=27.5
Q ss_pred CCCCcccHHhHHHHHhcCCCCccccccccc
Q 042225 89 KCGHVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 89 ~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
-|.|.|+.+||.+|+..+..||++|+.+..
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 599999999999999999999999987754
No 54
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.68 E-value=1.5e-05 Score=61.08 Aligned_cols=42 Identities=33% Similarity=0.870 Sum_probs=37.0
Q ss_pred cceeeccccCccCcEEc-CCCCcccHHhHHHHHh-cCCCCcccc
Q 042225 72 RFTCGICLDTMKEESST-KCGHVFCKSCIVDAIR-LQGRCPTCR 113 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~~-~CgH~fc~~Ci~~~~~-~~~~CP~Cr 113 (135)
.+.|+.|..++.+|+.+ .|||.||..||...+. ..+.||.|.
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~ 317 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCS 317 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcc
Confidence 38999999999999988 6899999999987665 568999994
No 55
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.66 E-value=2.3e-05 Score=64.15 Aligned_cols=52 Identities=27% Similarity=0.740 Sum_probs=44.6
Q ss_pred CCCccceeeccccCccCcEEcCCCCcccHHhHHHHHh-----cCCCCcccccccccc
Q 042225 68 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIR-----LQGRCPTCRTRMSVR 119 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~-----~~~~CP~Cr~~~~~~ 119 (135)
.......|.+|.+.-.+++.+.|.|.||..|+.++.. ..-+||+|...++..
T Consensus 532 enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 4556788999999999999999999999999999877 235899998887653
No 56
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=2.1e-05 Score=60.83 Aligned_cols=58 Identities=29% Similarity=0.573 Sum_probs=50.5
Q ss_pred CccceeeccccCccCcEEcC-CCCcccHHhHHHHHhcCCCCccccccccccCceeecCC
Q 042225 70 EVRFTCGICLDTMKEESSTK-CGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRIFFP 127 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 127 (135)
.+...|++|.....+|..+. -|-+||+.|+..++.+.+.||+-..+....+++++|-+
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~rl~~~ 356 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIRLFNK 356 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHHHHhcC
Confidence 35677999999999997775 59999999999999999999999999988888877643
No 57
>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=97.55 E-value=8.2e-05 Score=42.38 Aligned_cols=39 Identities=23% Similarity=0.596 Sum_probs=30.7
Q ss_pred eecccc--CccCcEEcCCC-----CcccHHhHHHHHhcC--CCCcccc
Q 042225 75 CGICLD--TMKEESSTKCG-----HVFCKSCIVDAIRLQ--GRCPTCR 113 (135)
Q Consensus 75 C~IC~~--~~~~p~~~~Cg-----H~fc~~Ci~~~~~~~--~~CP~Cr 113 (135)
|.||++ .-.++...||. |.+|..|+.+|+..+ ..||+|+
T Consensus 2 CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 2 CRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred ccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 889997 33456778885 779999999999754 4899984
No 58
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.47 E-value=0.0002 Score=54.31 Aligned_cols=60 Identities=22% Similarity=0.458 Sum_probs=48.8
Q ss_pred CCCccceeeccccCccCc----EEcCCCCcccHHhHHHHHhcCCCCccccccccccCceeecCCC
Q 042225 68 VGEVRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRIFFPQ 128 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~ 128 (135)
.....+.|||....|... ...+|||+|+..++.+.- ....||+|..++...|++.|.-+.
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~~ 172 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPPE 172 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCCc
Confidence 356788999999999643 234999999999999873 456799999999999999886554
No 59
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.45 E-value=2.1e-05 Score=66.79 Aligned_cols=52 Identities=25% Similarity=0.544 Sum_probs=42.1
Q ss_pred ccceeeccccCccCc---EEcCCCCcccHHhHHHHHhcCCCCccccccccccCce
Q 042225 71 VRFTCGICLDTMKEE---SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIR 122 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p---~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 122 (135)
....|++|+..+.+. ....|+|.||..|+..|-+...+||+||..|..-.+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~ 176 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVL 176 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeee
Confidence 456788888777654 2347999999999999999999999999988765443
No 60
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.41 E-value=9e-05 Score=59.47 Aligned_cols=48 Identities=31% Similarity=0.591 Sum_probs=38.9
Q ss_pred CCCccceeeccccCccCc----EEcCCCCcccHHhHHHHHhcCCCCcccccccc
Q 042225 68 VGEVRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
...+--+||||++.+... +.+.|.|.|+-.|+..|.. .+||+||....
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence 345667899999988865 3568999999999999843 57999998665
No 61
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.00012 Score=47.65 Aligned_cols=28 Identities=25% Similarity=0.567 Sum_probs=25.7
Q ss_pred CCCCcccHHhHHHHHhcCCCCccccccc
Q 042225 89 KCGHVFCKSCIVDAIRLQGRCPTCRTRM 116 (135)
Q Consensus 89 ~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~ 116 (135)
.|.|.|+..||.+|++....||+|.+.-
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 5999999999999999999999997654
No 62
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.18 E-value=0.00012 Score=63.58 Aligned_cols=50 Identities=20% Similarity=0.581 Sum_probs=39.0
Q ss_pred CCCccceeeccccCcc--C-----cEEcCCCCcccHHhHHHHHhcC--CCCcccccccc
Q 042225 68 VGEVRFTCGICLDTMK--E-----ESSTKCGHVFCKSCIVDAIRLQ--GRCPTCRTRMS 117 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~--~-----p~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~ 117 (135)
..+....|+||..++. + .....|.|.||..|+..|++.. .+||+||..+.
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3456778999998765 1 2334699999999999999954 58999997765
No 63
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.18 E-value=4.4e-05 Score=58.27 Aligned_cols=42 Identities=33% Similarity=0.843 Sum_probs=36.5
Q ss_pred cceeeccccCccCcEEcCCCCc-ccHHhHHHHHhcCCCCcccccccc
Q 042225 72 RFTCGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
...|.||++...+-+.|+|||. -|..|=.+ ...||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccc----cccCchHHHHHH
Confidence 7889999999999999999996 79999754 348999998774
No 64
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.18 E-value=9.6e-05 Score=45.56 Aligned_cols=45 Identities=36% Similarity=0.755 Sum_probs=33.1
Q ss_pred eeeccccCccC------------cEEc-CCCCcccHHhHHHHHhc---CCCCccccccccc
Q 042225 74 TCGICLDTMKE------------ESST-KCGHVFCKSCIVDAIRL---QGRCPTCRTRMSV 118 (135)
Q Consensus 74 ~C~IC~~~~~~------------p~~~-~CgH~fc~~Ci~~~~~~---~~~CP~Cr~~~~~ 118 (135)
.|-||.-.|.. |.++ -|.|.|+..||.+|+.. +..||+||..+..
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 57777666553 1222 49999999999999984 3579999987653
No 65
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.02 E-value=0.00046 Score=39.99 Aligned_cols=48 Identities=23% Similarity=0.561 Sum_probs=37.7
Q ss_pred ccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccccC
Q 042225 71 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRS 120 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~ 120 (135)
....|..|...-...+.++|||..|..|..-+ .-..||.|..++...+
T Consensus 6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred cceeEEEccccccccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 34567888888788899999999999997543 3467999999887554
No 66
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.0008 Score=52.73 Aligned_cols=48 Identities=33% Similarity=0.713 Sum_probs=37.0
Q ss_pred CCCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccc
Q 042225 68 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
.......|.||.+...+.+.++|||.-| |..-... -..||+||..+..
T Consensus 301 ~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIRL 348 (355)
T ss_pred ccCCCCceEEecCCccceeeecCCcEEE--chHHHhh-CCCCchhHHHHHH
Confidence 3455677999999999999999999866 6654433 3459999987753
No 67
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=96.48 E-value=0.0012 Score=53.31 Aligned_cols=35 Identities=23% Similarity=0.623 Sum_probs=31.6
Q ss_pred CccceeeccccCccCcEEcCCCCcccHHhHHHHHh
Q 042225 70 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIR 104 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~ 104 (135)
++++.|+||...|++|+.++|+|..|..|....+.
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence 46788999999999999999999999999987654
No 68
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.47 E-value=0.0025 Score=50.57 Aligned_cols=56 Identities=20% Similarity=0.466 Sum_probs=45.2
Q ss_pred ccceeeccccCcc---CcEEcCCCCcccHHhHHHHHhcC---CCCccccccccccCceeecC
Q 042225 71 VRFTCGICLDTMK---EESSTKCGHVFCKSCIVDAIRLQ---GRCPTCRTRMSVRSIRRIFF 126 (135)
Q Consensus 71 ~~~~C~IC~~~~~---~p~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~~~ 126 (135)
..+.|||=.+--. .|+.+.|||+.++.-+.+..++. +.||+|-......+..++||
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~~kql~F 394 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASDTKQLYF 394 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHhcccccC
Confidence 5788998776444 37899999999999999988743 57999988777777777775
No 69
>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=96.42 E-value=0.0034 Score=44.05 Aligned_cols=34 Identities=18% Similarity=0.484 Sum_probs=26.2
Q ss_pred ccceeeccccCccCcEEcC------------CCCcc-cHHhHHHHHh
Q 042225 71 VRFTCGICLDTMKEESSTK------------CGHVF-CKSCIVDAIR 104 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~~~~------------CgH~f-c~~Ci~~~~~ 104 (135)
++..|+||++...++|.|- |+..| +..|++++.+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 3567999999999999884 44433 6789988766
No 70
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.003 Score=48.32 Aligned_cols=53 Identities=25% Similarity=0.611 Sum_probs=39.5
Q ss_pred eeecccc-CccCc----EEcCCCCcccHHhHHHHHh-cCCCCccccccccccCceeecC
Q 042225 74 TCGICLD-TMKEE----SSTKCGHVFCKSCIVDAIR-LQGRCPTCRTRMSVRSIRRIFF 126 (135)
Q Consensus 74 ~C~IC~~-~~~~p----~~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~~~~ 126 (135)
.|++|.. .+.+| ..-+|||..|.+|+...+. ....||.|...+....++...|
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q~f 60 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQTF 60 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccchhhc
Confidence 4889986 44454 2238999999999999887 4578999998887766654433
No 71
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.17 E-value=0.0034 Score=50.13 Aligned_cols=35 Identities=37% Similarity=0.850 Sum_probs=29.6
Q ss_pred CccceeeccccCccCc---EEcCCCCcccHHhHHHHHh
Q 042225 70 EVRFTCGICLDTMKEE---SSTKCGHVFCKSCIVDAIR 104 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p---~~~~CgH~fc~~Ci~~~~~ 104 (135)
...+.|.||++..... +.++|+|.||+.|+..++.
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 3578899999977653 5689999999999999877
No 72
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.10 E-value=0.0014 Score=55.78 Aligned_cols=50 Identities=32% Similarity=0.788 Sum_probs=42.4
Q ss_pred ceeeccccCccCcEEcCCCCcccHHhHHHHHhcC--CCCccccccccccCcee
Q 042225 73 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ--GRCPTCRTRMSVRSIRR 123 (135)
Q Consensus 73 ~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~~~~~~~~~ 123 (135)
..|.+|.+ ...++.+.|||.||..|+...+... ..||.||..+...+++.
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 78999999 7788899999999999999887743 46999999887766654
No 73
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.09 E-value=0.003 Score=35.72 Aligned_cols=42 Identities=33% Similarity=0.888 Sum_probs=20.9
Q ss_pred eeccccCccCc--EEc--CCCCcccHHhHHHHHh-cCCCCccccccc
Q 042225 75 CGICLDTMKEE--SST--KCGHVFCKSCIVDAIR-LQGRCPTCRTRM 116 (135)
Q Consensus 75 C~IC~~~~~~p--~~~--~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~ 116 (135)
|++|.+.+... ... +||+.+|..|+...+. ....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 67888877322 223 6899999999998886 467899999764
No 74
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.03 E-value=0.0081 Score=47.29 Aligned_cols=50 Identities=32% Similarity=0.755 Sum_probs=41.6
Q ss_pred CCCCccceeeccccCccCcEEcCCCCcccHHhHHHH--HhcCCCCccccccc
Q 042225 67 VVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDA--IRLQGRCPTCRTRM 116 (135)
Q Consensus 67 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~--~~~~~~CP~Cr~~~ 116 (135)
..+++...|.||.+-+.-...+||+|..|--|-.+. +..++.|++||...
T Consensus 56 dtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 56 DTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 346678889999999998889999999999998654 44778999998653
No 75
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.03 E-value=0.0041 Score=47.74 Aligned_cols=45 Identities=29% Similarity=0.679 Sum_probs=36.6
Q ss_pred cceeeccccCccC------cEEcCCCCcccHHhHHHHHhcC-CCCccccccc
Q 042225 72 RFTCGICLDTMKE------ESSTKCGHVFCKSCIVDAIRLQ-GRCPTCRTRM 116 (135)
Q Consensus 72 ~~~C~IC~~~~~~------p~~~~CgH~fc~~Ci~~~~~~~-~~CP~Cr~~~ 116 (135)
...|-||.+.+.. |..+.|||.+|..|+...+.+. -.||.||...
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 3569999988873 5677899999999999877755 4689999984
No 76
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.99 E-value=0.0018 Score=48.25 Aligned_cols=48 Identities=25% Similarity=0.732 Sum_probs=33.3
Q ss_pred ceeeccccCcc-Cc-EEcCCCCcccHHhHHHHHhcCCCCccccccccccCce
Q 042225 73 FTCGICLDTMK-EE-SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIR 122 (135)
Q Consensus 73 ~~C~IC~~~~~-~p-~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 122 (135)
+.|..|..-.. ++ ..+.|+|+||..|...-. ...|++|++++....+-
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i~l~ 53 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRIIQLN 53 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCC--ccccccccceeeeeecc
Confidence 45777776444 33 457999999999985431 12799999998755443
No 77
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.99 E-value=0.0068 Score=41.39 Aligned_cols=50 Identities=30% Similarity=0.731 Sum_probs=42.2
Q ss_pred CccceeeccccCccCcEEcC----CCCcccHHhHHHHHhcC---CCCcccccccccc
Q 042225 70 EVRFTCGICLDTMKEESSTK----CGHVFCKSCIVDAIRLQ---GRCPTCRTRMSVR 119 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~~----CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~ 119 (135)
..-+.|.||.+...+...+. ||-..|..|....++.. ..||+|+..+...
T Consensus 78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 36789999999999888773 99999999999988854 4799999888654
No 78
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.77 E-value=0.0078 Score=47.23 Aligned_cols=56 Identities=27% Similarity=0.739 Sum_probs=40.5
Q ss_pred CCCccceeeccccCccC--c--EEcCCCCcccHHhHHHHHhc-CCCCccccccccccCceee
Q 042225 68 VGEVRFTCGICLDTMKE--E--SSTKCGHVFCKSCIVDAIRL-QGRCPTCRTRMSVRSIRRI 124 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~--p--~~~~CgH~fc~~Ci~~~~~~-~~~CP~Cr~~~~~~~~~~~ 124 (135)
.+++++ |++|++.+.. . .-.+||-..|.-|+...... ...||.||.....+.++-+
T Consensus 11 edeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~ 71 (480)
T COG5175 11 EDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYV 71 (480)
T ss_pred cccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeEE
Confidence 345555 9999997653 2 23478988899998776553 4689999998887776544
No 79
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=95.71 E-value=0.0033 Score=50.09 Aligned_cols=44 Identities=25% Similarity=0.788 Sum_probs=34.9
Q ss_pred cceeeccccCccC-c---EEcCCCCcccHHhHHHHHhcC--CCCcccccc
Q 042225 72 RFTCGICLDTMKE-E---SSTKCGHVFCKSCIVDAIRLQ--GRCPTCRTR 115 (135)
Q Consensus 72 ~~~C~IC~~~~~~-p---~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~ 115 (135)
.+.|..|.+.+-. + ..+||.|+||..|+.+++.+. .+||.||+-
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 5679999986642 2 357999999999999998754 589999943
No 80
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.69 E-value=0.0082 Score=44.61 Aligned_cols=44 Identities=20% Similarity=0.573 Sum_probs=35.8
Q ss_pred ceeeccccCccC--cEEcCCCCcccHHhHHHHHhcC--------CCCccccccc
Q 042225 73 FTCGICLDTMKE--ESSTKCGHVFCKSCIVDAIRLQ--------GRCPTCRTRM 116 (135)
Q Consensus 73 ~~C~IC~~~~~~--p~~~~CgH~fc~~Ci~~~~~~~--------~~CP~Cr~~~ 116 (135)
--|..|...+.. .+.+-|-|.|+++|+.+|..+- ..||.|...+
T Consensus 51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 349999998874 5788999999999999998731 3699997765
No 81
>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=95.68 E-value=0.012 Score=32.52 Aligned_cols=38 Identities=21% Similarity=0.718 Sum_probs=23.9
Q ss_pred eeccccCccCcEEcC---CCCcccHHhHHHHHhcCC--CCccc
Q 042225 75 CGICLDTMKEESSTK---CGHVFCKSCIVDAIRLQG--RCPTC 112 (135)
Q Consensus 75 C~IC~~~~~~p~~~~---CgH~fc~~Ci~~~~~~~~--~CP~C 112 (135)
|.+|.++....+.-+ |+-.++..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 678888888776654 999999999999998655 69987
No 82
>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=95.52 E-value=0.0043 Score=40.25 Aligned_cols=33 Identities=30% Similarity=0.561 Sum_probs=27.0
Q ss_pred CCCccceeeccccCccCcE--EcCCCCcccHHhHH
Q 042225 68 VGEVRFTCGICLDTMKEES--STKCGHVFCKSCIV 100 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~--~~~CgH~fc~~Ci~ 100 (135)
.+.+...|++|...+.+.. ..||||.||..|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 3556778999999998764 45999999999975
No 83
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=95.34 E-value=0.0054 Score=47.31 Aligned_cols=48 Identities=27% Similarity=0.681 Sum_probs=37.5
Q ss_pred ccceeeccccCccCc---EEcCCCCcccHHhHHHHHh-----------------------cCCCCccccccccc
Q 042225 71 VRFTCGICLDTMKEE---SSTKCGHVFCKSCIVDAIR-----------------------LQGRCPTCRTRMSV 118 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p---~~~~CgH~fc~~Ci~~~~~-----------------------~~~~CP~Cr~~~~~ 118 (135)
....|.||+--|.+. +.+.|-|-|+..|+.+++. ....||+||..+..
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 456799999887753 5789999999999988765 11249999998853
No 84
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.09 E-value=0.016 Score=45.00 Aligned_cols=47 Identities=26% Similarity=0.726 Sum_probs=38.5
Q ss_pred CCCccceeeccccCccCcE-EcCCCCcccHHhHHHHHhcCCCCcccccccc
Q 042225 68 VGEVRFTCGICLDTMKEES-STKCGHVFCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~-~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
...+-+.||||.+.+..|+ +-.=||..|.+|-.+ ....||.||.++.
T Consensus 44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred cchhhccCchhhccCcccceecCCCcEehhhhhhh---hcccCCccccccc
Confidence 4556788999999999885 456699999999753 3678999999887
No 85
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.95 E-value=0.015 Score=50.40 Aligned_cols=42 Identities=24% Similarity=0.640 Sum_probs=35.2
Q ss_pred ccceeeccccCccCcE-EcCCCCcccHHhHHHHHhcCCCCcccccc
Q 042225 71 VRFTCGICLDTMKEES-STKCGHVFCKSCIVDAIRLQGRCPTCRTR 115 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~-~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~ 115 (135)
....|..|...+.-|+ .-.|||.||.+|+. .....||.|+..
T Consensus 839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchh
Confidence 3468999999999884 57999999999998 456789999763
No 86
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=94.79 E-value=0.027 Score=51.81 Aligned_cols=50 Identities=20% Similarity=0.557 Sum_probs=38.1
Q ss_pred CCccceeeccccCcc---CcEEcCCCCcccHHhHHHHHhcC----------CCCccccccccc
Q 042225 69 GEVRFTCGICLDTMK---EESSTKCGHVFCKSCIVDAIRLQ----------GRCPTCRTRMSV 118 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~---~p~~~~CgH~fc~~Ci~~~~~~~----------~~CP~Cr~~~~~ 118 (135)
...+..|.||+..-- ..+++.|+|.|+..|....+.+. ..||+|..++..
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 345778999997443 34789999999999998877643 269999877754
No 87
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=94.55 E-value=0.065 Score=37.75 Aligned_cols=49 Identities=20% Similarity=0.452 Sum_probs=35.4
Q ss_pred CCccceeeccccCccCcEEcCCCCc-----ccHHhHHHHHhcC--CCCccccccccc
Q 042225 69 GEVRFTCGICLDTMKEESSTKCGHV-----FCKSCIVDAIRLQ--GRCPTCRTRMSV 118 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~~~CgH~-----fc~~Ci~~~~~~~--~~CP~Cr~~~~~ 118 (135)
...+..|-||++.... ...||... .|.+|+.+|+..+ ..|+.|+.....
T Consensus 5 s~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 5 SLMDKCCWICKDEYDV-VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCCeeEecCCCCCC-ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 3456679999987542 33466543 3999999999854 579999887753
No 88
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.38 E-value=0.031 Score=40.20 Aligned_cols=49 Identities=29% Similarity=0.738 Sum_probs=33.7
Q ss_pred ccceeeccccCccCcE-------EcCCCCcccHHhHHHHHhc------C-----CCCcccccccccc
Q 042225 71 VRFTCGICLDTMKEES-------STKCGHVFCKSCIVDAIRL------Q-----GRCPTCRTRMSVR 119 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~-------~~~CgH~fc~~Ci~~~~~~------~-----~~CP~Cr~~~~~~ 119 (135)
+..-|-||..+--+.+ ...||..|+.-|+..|++. + ..||.|..++..+
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 3445666665433322 2369999999999999982 1 2599999888653
No 89
>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=94.27 E-value=0.012 Score=44.12 Aligned_cols=61 Identities=18% Similarity=0.453 Sum_probs=44.2
Q ss_pred CccceeeccccC-ccCc-EEc----CCCCcccHHhHHHHHhcC-CCCc--cccccccccCceeecCCCCC
Q 042225 70 EVRFTCGICLDT-MKEE-SST----KCGHVFCKSCIVDAIRLQ-GRCP--TCRTRMSVRSIRRIFFPQLQ 130 (135)
Q Consensus 70 ~~~~~C~IC~~~-~~~p-~~~----~CgH~fc~~Ci~~~~~~~-~~CP--~Cr~~~~~~~~~~~~~~~~~ 130 (135)
..+.+||+|... +-+| +.+ .|-|..|.+|+.+.+... ..|| -|.+-+....++...|..++
T Consensus 8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf~~qtFeD~~ 77 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKFIKQTFEDIT 77 (314)
T ss_pred hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcccccccchhh
Confidence 346689999973 3344 221 499999999999998854 6799 88887777776666665543
No 90
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.27 E-value=0.03 Score=43.61 Aligned_cols=57 Identities=23% Similarity=0.421 Sum_probs=44.5
Q ss_pred CccceeeccccCcc---CcEEcCCCCcccHHhHHHHHhcC---CCCccccccccccCceeecC
Q 042225 70 EVRFTCGICLDTMK---EESSTKCGHVFCKSCIVDAIRLQ---GRCPTCRTRMSVRSIRRIFF 126 (135)
Q Consensus 70 ~~~~~C~IC~~~~~---~p~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~~~ 126 (135)
..-+.||+=.+... .|+.+.|||+.-+.-+....++. +.||.|-..-...++.++||
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~~~~~~rvrf 396 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSKYENILRVRF 396 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchhhhhhhcccC
Confidence 45788998776544 37899999999999998877643 57999987777777777765
No 91
>PHA02862 5L protein; Provisional
Probab=94.26 E-value=0.08 Score=36.76 Aligned_cols=45 Identities=27% Similarity=0.548 Sum_probs=33.6
Q ss_pred ceeeccccCccCcEEcCCCCc-----ccHHhHHHHHhcC--CCCccccccccc
Q 042225 73 FTCGICLDTMKEESSTKCGHV-----FCKSCIVDAIRLQ--GRCPTCRTRMSV 118 (135)
Q Consensus 73 ~~C~IC~~~~~~p~~~~CgH~-----fc~~Ci~~~~~~~--~~CP~Cr~~~~~ 118 (135)
..|-||++.-.+. .-||... .|.+|+.+|++.. ..|++|+....-
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 3599999976544 3566542 4899999999854 579999988753
No 92
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.15 E-value=0.025 Score=43.87 Aligned_cols=44 Identities=27% Similarity=0.588 Sum_probs=31.3
Q ss_pred cceeeccccCccC-cEEcCCCCcccHHhHHHHHhcCCCCcccccccc
Q 042225 72 RFTCGICLDTMKE-ESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 72 ~~~C~IC~~~~~~-p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
.-.|.-|-..+.. ...++|.|.||.+|.. ....+.||.|-..+.
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr--~~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCKHVFCLECAR--SDSDKICPLCDDRVQ 134 (389)
T ss_pred eEeecccCCcceeeecccccchhhhhhhhh--cCccccCcCcccHHH
Confidence 3456777665443 4578999999999974 344678999966553
No 93
>PHA03096 p28-like protein; Provisional
Probab=93.76 E-value=0.037 Score=42.63 Aligned_cols=42 Identities=29% Similarity=0.454 Sum_probs=29.9
Q ss_pred ceeeccccCccCc--------EEcCCCCcccHHhHHHHHhcC---CCCccccc
Q 042225 73 FTCGICLDTMKEE--------SSTKCGHVFCKSCIVDAIRLQ---GRCPTCRT 114 (135)
Q Consensus 73 ~~C~IC~~~~~~p--------~~~~CgH~fc~~Ci~~~~~~~---~~CP~Cr~ 114 (135)
..|.||++..... +...|.|.||..|+..|.... ..||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 5699999955432 334799999999999998733 34555543
No 94
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=93.40 E-value=0.11 Score=45.29 Aligned_cols=49 Identities=31% Similarity=0.688 Sum_probs=37.1
Q ss_pred CCccceeeccccCccC--cE--EcCCCCcccHHhHHHHHhc-------CCCCcccccccc
Q 042225 69 GEVRFTCGICLDTMKE--ES--STKCGHVFCKSCIVDAIRL-------QGRCPTCRTRMS 117 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~--p~--~~~CgH~fc~~Ci~~~~~~-------~~~CP~Cr~~~~ 117 (135)
....+.|.||.+.+.. ++ -..|-|+|+..||..|-.. ...||.|.....
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 4468999999998774 32 2369999999999999873 236999984443
No 95
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.88 E-value=0.025 Score=51.03 Aligned_cols=45 Identities=33% Similarity=0.754 Sum_probs=39.7
Q ss_pred CCccceeeccccCcc-CcEEcCCCCcccHHhHHHHHhcCCCCcccc
Q 042225 69 GEVRFTCGICLDTMK-EESSTKCGHVFCKSCIVDAIRLQGRCPTCR 113 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~-~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr 113 (135)
......|.||.+.+. ......|||.+|..|...|+..+..||.|.
T Consensus 1150 ~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~k 1195 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICK 1195 (1394)
T ss_pred hhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchh
Confidence 335568999999999 557889999999999999999999999996
No 96
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.86 E-value=0.054 Score=41.60 Aligned_cols=49 Identities=24% Similarity=0.746 Sum_probs=38.8
Q ss_pred CccceeeccccCccCcEEcCC----CCcccHHhHHHHHhcCC-----------CCccccccccc
Q 042225 70 EVRFTCGICLDTMKEESSTKC----GHVFCKSCIVDAIRLQG-----------RCPTCRTRMSV 118 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~~C----gH~fc~~Ci~~~~~~~~-----------~CP~Cr~~~~~ 118 (135)
...+.|.+|.+.+++.....| .|.||..|-.+.++.+. .||+-...+.+
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~vPW 329 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNVPW 329 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCcccH
Confidence 356899999999999987777 78999999999998442 46766665554
No 97
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.76 E-value=0.03 Score=47.32 Aligned_cols=40 Identities=33% Similarity=0.775 Sum_probs=31.0
Q ss_pred CCccceeeccccCcc----CcEEcCCCCcccHHhHHHHHhcCCCCc
Q 042225 69 GEVRFTCGICLDTMK----EESSTKCGHVFCKSCIVDAIRLQGRCP 110 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~----~p~~~~CgH~fc~~Ci~~~~~~~~~CP 110 (135)
+.+.+.|.||...|. .|+.+.|||+.|.+|+....+ .+||
T Consensus 8 w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 8 WVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred hHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 455678999987775 478889999999999986544 3466
No 98
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=92.68 E-value=0.062 Score=41.18 Aligned_cols=44 Identities=30% Similarity=0.712 Sum_probs=36.3
Q ss_pred ccceeeccccCcc----CcEEcCCCCcccHHhHHHHHhcCCCCccccc
Q 042225 71 VRFTCGICLDTMK----EESSTKCGHVFCKSCIVDAIRLQGRCPTCRT 114 (135)
Q Consensus 71 ~~~~C~IC~~~~~----~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 114 (135)
....||||.+.+. .+..++|||..+..|..........||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3444999998665 3567899999999999998887789999988
No 99
>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=92.41 E-value=0.095 Score=41.65 Aligned_cols=33 Identities=24% Similarity=0.722 Sum_probs=24.7
Q ss_pred CCCcccHHhHHHHHh-------------cCCCCccccccccccCce
Q 042225 90 CGHVFCKSCIVDAIR-------------LQGRCPTCRTRMSVRSIR 122 (135)
Q Consensus 90 CgH~fc~~Ci~~~~~-------------~~~~CP~Cr~~~~~~~~~ 122 (135)
|...-|.+|+.+|+. .+..||.||+.+...|+-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV~ 356 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDVC 356 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeeee
Confidence 344458899999986 223699999999877763
No 100
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.24 E-value=0.1 Score=39.39 Aligned_cols=37 Identities=19% Similarity=0.239 Sum_probs=32.6
Q ss_pred CCCccceeeccccCccCcEEcCCCCcccHHhHHHHHh
Q 042225 68 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIR 104 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~ 104 (135)
.+.+..-|.+|+..+.+|+.++=||.||..||.+++.
T Consensus 39 siK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred ccCCcceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 4555667899999999999999999999999998865
No 101
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=91.90 E-value=0.027 Score=47.90 Aligned_cols=51 Identities=33% Similarity=0.742 Sum_probs=40.7
Q ss_pred ccceeeccccCccCcEEcCCCCcccHHhHHHHHhc---CCCCccccccccccCc
Q 042225 71 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL---QGRCPTCRTRMSVRSI 121 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~---~~~CP~Cr~~~~~~~~ 121 (135)
-...|+||...+.+|+.+.|.|.||..|+...+.. ...|++|+..+.....
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~ 73 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL 73 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence 35679999999999999999999999998665543 4579999877665544
No 102
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.80 E-value=0.12 Score=39.93 Aligned_cols=38 Identities=29% Similarity=0.848 Sum_probs=29.1
Q ss_pred CCCcccHHhHHHHHh-------------cCCCCccccccccccCceeecCC
Q 042225 90 CGHVFCKSCIVDAIR-------------LQGRCPTCRTRMSVRSIRRIFFP 127 (135)
Q Consensus 90 CgH~fc~~Ci~~~~~-------------~~~~CP~Cr~~~~~~~~~~~~~~ 127 (135)
|....|.+|+.+|+. .+.+||.||+.+...|+.-+=++
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v~~~ 375 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCVDFD 375 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEEEee
Confidence 555668899998876 33479999999998888766444
No 103
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.76 E-value=0.078 Score=39.03 Aligned_cols=39 Identities=26% Similarity=0.625 Sum_probs=31.6
Q ss_pred eeccccCccCcEEcCCCCc-ccHHhHHHHHhcCCCCcccccccc
Q 042225 75 CGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 75 C~IC~~~~~~p~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
|-.|.+.-..-..+||.|. +|..|-.. ...||+|+....
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 9999998888778899996 89999754 456999986554
No 104
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=91.12 E-value=0.17 Score=28.34 Aligned_cols=38 Identities=32% Similarity=0.714 Sum_probs=23.2
Q ss_pred eeccccCccC--cEEcCCCC-----cccHHhHHHHHhc--CCCCccc
Q 042225 75 CGICLDTMKE--ESSTKCGH-----VFCKSCIVDAIRL--QGRCPTC 112 (135)
Q Consensus 75 C~IC~~~~~~--p~~~~CgH-----~fc~~Ci~~~~~~--~~~CP~C 112 (135)
|-||++...+ +...||+- ..|..|+.+|+.. ...|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 5678875543 46677654 3589999999984 3568876
No 105
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.99 E-value=0.37 Score=36.54 Aligned_cols=55 Identities=18% Similarity=0.393 Sum_probs=43.2
Q ss_pred CCCccceeeccccCccCc----EEcCCCCcccHHhHHHHHhcCCCCccccccccccCceee
Q 042225 68 VGEVRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRI 124 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~ 124 (135)
.....+.|+|-.-.+... ..-.|||+|-..-+.+.- ...|++|.+.+...+++.+
T Consensus 107 ~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~dvIvl 165 (293)
T KOG3113|consen 107 TQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDDVIVL 165 (293)
T ss_pred cccceeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCcccccCeEee
Confidence 345678899988777764 344899999998877652 5679999999999998765
No 106
>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=90.97 E-value=0.14 Score=35.15 Aligned_cols=36 Identities=25% Similarity=0.559 Sum_probs=26.8
Q ss_pred cceeeccccCccC--c-EEcCCC------CcccHHhHHHHHhcCC
Q 042225 72 RFTCGICLDTMKE--E-SSTKCG------HVFCKSCIVDAIRLQG 107 (135)
Q Consensus 72 ~~~C~IC~~~~~~--p-~~~~Cg------H~fc~~Ci~~~~~~~~ 107 (135)
...|.||++.+.+ . +.++|| |.||..|+.+|.+..+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~ 70 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERN 70 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhcc
Confidence 6779999998876 3 344555 5689999999955433
No 107
>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=90.82 E-value=0.091 Score=29.54 Aligned_cols=32 Identities=28% Similarity=0.791 Sum_probs=22.3
Q ss_pred EcCCC-CcccHHhHHHHHhcCCCCccccccccc
Q 042225 87 STKCG-HVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 87 ~~~Cg-H~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
.+.|. |-.|..|+...+.....||+|.+++..
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred eeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 45564 557999999999999999999998864
No 108
>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=90.77 E-value=0.18 Score=28.65 Aligned_cols=43 Identities=16% Similarity=0.522 Sum_probs=21.2
Q ss_pred cceeeccccCccCcEEc-CCCCcccHHhHHHHHh-----cCCCCcccccc
Q 042225 72 RFTCGICLDTMKEESST-KCGHVFCKSCIVDAIR-----LQGRCPTCRTR 115 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~~-~CgH~fc~~Ci~~~~~-----~~~~CP~Cr~~ 115 (135)
.+.|++....+..|+.. .|.|..|.+- ..|+. ....||+|.++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence 36799999999999764 7999876542 22333 23479999763
No 109
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=86.84 E-value=1 Score=39.41 Aligned_cols=48 Identities=10% Similarity=0.135 Sum_probs=33.4
Q ss_pred CCccceeeccccCccCcE----Ec---CCCCcccHHhHHHHHhc------CCCCccccccc
Q 042225 69 GEVRFTCGICLDTMKEES----ST---KCGHVFCKSCIVDAIRL------QGRCPTCRTRM 116 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~----~~---~CgH~fc~~Ci~~~~~~------~~~CP~Cr~~~ 116 (135)
..+...|.+|...+.+++ .. .|+|.||..||..|... ...|++|..-|
T Consensus 93 ~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 93 TAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 345566777777777632 23 49999999999999872 23577776555
No 110
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.62 E-value=0.42 Score=38.99 Aligned_cols=58 Identities=22% Similarity=0.647 Sum_probs=41.3
Q ss_pred CccceeeccccCccC-cEEcCCCCcccHHhHHHHHhcC--------CCCc--cccccccccCceeecCC
Q 042225 70 EVRFTCGICLDTMKE-ESSTKCGHVFCKSCIVDAIRLQ--------GRCP--TCRTRMSVRSIRRIFFP 127 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~-p~~~~CgH~fc~~Ci~~~~~~~--------~~CP--~Cr~~~~~~~~~~~~~~ 127 (135)
.....|-||.+.+.. .+.+.|||.||..|+..++..+ -+|| -|++.+....+..+.-+
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s~ 136 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVSD 136 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecCC
Confidence 445789999998885 6677999999999999988732 2354 56666665555444433
No 111
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.39 E-value=0.34 Score=38.92 Aligned_cols=35 Identities=43% Similarity=0.915 Sum_probs=26.5
Q ss_pred ccceeeccccCccCc----EEcCCCCcccHHhHHHHHhc
Q 042225 71 VRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRL 105 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p----~~~~CgH~fc~~Ci~~~~~~ 105 (135)
....|.||....... ....|+|.||..|+.+++..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 467899999433322 25689999999999998873
No 112
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=85.34 E-value=1.2 Score=25.76 Aligned_cols=41 Identities=24% Similarity=0.706 Sum_probs=28.7
Q ss_pred cceeeccccCcc--CcEEc--CCCCcccHHhHHHHHhcCCCCcc--ccccc
Q 042225 72 RFTCGICLDTMK--EESST--KCGHVFCKSCIVDAIRLQGRCPT--CRTRM 116 (135)
Q Consensus 72 ~~~C~IC~~~~~--~p~~~--~CgH~fc~~Ci~~~~~~~~~CP~--Cr~~~ 116 (135)
...|++|.+.|. +.++. .||-.|+..|+.. ...|-. |...+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~~ 51 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTGF 51 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCCc
Confidence 456999999994 44443 7999999999764 445554 55444
No 113
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.13 E-value=1 Score=39.56 Aligned_cols=53 Identities=17% Similarity=0.483 Sum_probs=39.3
Q ss_pred CCccceeeccccCc--cCcEEcCCCCc-----ccHHhHHHHHhcC--CCCccccccccccCc
Q 042225 69 GEVRFTCGICLDTM--KEESSTKCGHV-----FCKSCIVDAIRLQ--GRCPTCRTRMSVRSI 121 (135)
Q Consensus 69 ~~~~~~C~IC~~~~--~~p~~~~CgH~-----fc~~Ci~~~~~~~--~~CP~Cr~~~~~~~~ 121 (135)
.+++..|.||...- .+|..-||..+ .|.+|+.+|+... +.|-.|..++..+++
T Consensus 9 N~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred CccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeee
Confidence 44567899998643 35666676553 4899999999854 579999998886665
No 114
>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=84.68 E-value=1 Score=26.15 Aligned_cols=28 Identities=29% Similarity=0.778 Sum_probs=21.7
Q ss_pred CcccHHhHHHHHhcCCCCccccccccccCc
Q 042225 92 HVFCKSCIVDAIRLQGRCPTCRTRMSVRSI 121 (135)
Q Consensus 92 H~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 121 (135)
.+||..|....+ ...||.|...+..+.+
T Consensus 29 CTFC~~C~e~~l--~~~CPNCgGelv~RP~ 56 (57)
T PF06906_consen 29 CTFCADCAETML--NGVCPNCGGELVRRPR 56 (57)
T ss_pred CcccHHHHHHHh--cCcCcCCCCccccCCC
Confidence 369999998876 4579999988865543
No 115
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.17 E-value=0.54 Score=41.28 Aligned_cols=36 Identities=22% Similarity=0.503 Sum_probs=28.2
Q ss_pred CCccceeeccccCccC-c-EEcCCCCcccHHhHHHHHh
Q 042225 69 GEVRFTCGICLDTMKE-E-SSTKCGHVFCKSCIVDAIR 104 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~-p-~~~~CgH~fc~~Ci~~~~~ 104 (135)
.+....|.+|...+.. | +.-+|||.|++.|+.+...
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 4456789999996653 4 5569999999999987654
No 116
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.74 E-value=0.53 Score=37.85 Aligned_cols=41 Identities=29% Similarity=0.623 Sum_probs=30.4
Q ss_pred cceeeccccCccC-----cEEcCCCCcccHHhHHHHHhcCCCCccc
Q 042225 72 RFTCGICLDTMKE-----ESSTKCGHVFCKSCIVDAIRLQGRCPTC 112 (135)
Q Consensus 72 ~~~C~IC~~~~~~-----p~~~~CgH~fc~~Ci~~~~~~~~~CP~C 112 (135)
-..|+.|...+.. -++-.|||-||+.|...|......|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 4569999886653 3555699999999999998876656433
No 117
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=81.89 E-value=1.9 Score=35.19 Aligned_cols=60 Identities=27% Similarity=0.403 Sum_probs=52.8
Q ss_pred ceeeccccCccCcEEc-CCCCcccHHhHHHHHhcCCCCccccccccccCceeecCCCCCCC
Q 042225 73 FTCGICLDTMKEESST-KCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRIFFPQLQPP 132 (135)
Q Consensus 73 ~~C~IC~~~~~~p~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~ 132 (135)
+.|+|-.++.++|+.- .-||.|=+.-|++++.....+|+-..++..+++.++--+.+.-|
T Consensus 1 m~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eelV~Ik~~~~v~p 61 (506)
T KOG0289|consen 1 MVCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEELVEIKVPAQVRP 61 (506)
T ss_pred CeecccCCCCCCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHeeeccccccccC
Confidence 3599999999999876 58999999999999999999999999999999999977766544
No 118
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=80.41 E-value=1.3 Score=38.65 Aligned_cols=39 Identities=33% Similarity=0.749 Sum_probs=29.8
Q ss_pred cceeeccccCccCc--EEcCCCCcccHHhHHHHHhcCCCCc
Q 042225 72 RFTCGICLDTMKEE--SSTKCGHVFCKSCIVDAIRLQGRCP 110 (135)
Q Consensus 72 ~~~C~IC~~~~~~p--~~~~CgH~fc~~Ci~~~~~~~~~CP 110 (135)
.+.|.+|.-..... +...|||..+.+|..+|+...-.||
T Consensus 1028 ~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cp 1068 (1081)
T KOG0309|consen 1028 TFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGDVCP 1068 (1081)
T ss_pred eeeeeeEeeEeeccchhhccccccccHHHHHHHHhcCCcCC
Confidence 45577776555432 3457999999999999999888887
No 119
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=78.10 E-value=0.34 Score=37.25 Aligned_cols=46 Identities=20% Similarity=0.322 Sum_probs=23.9
Q ss_pred CCccceeeccccCccCcEEcCC-----CCcccHHhHHHHHhcCCCCccccc
Q 042225 69 GEVRFTCGICLDTMKEESSTKC-----GHVFCKSCIVDAIRLQGRCPTCRT 114 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~~~C-----gH~fc~~Ci~~~~~~~~~CP~Cr~ 114 (135)
.+..-.||||.....-.+...= .+.+|..|-.+|......||.|..
T Consensus 169 ~w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 169 GWQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 3456789999997665544432 345799999999888889999954
No 120
>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=76.80 E-value=1.6 Score=26.19 Aligned_cols=12 Identities=33% Similarity=0.916 Sum_probs=9.0
Q ss_pred cccHHhHHHHHh
Q 042225 93 VFCKSCIVDAIR 104 (135)
Q Consensus 93 ~fc~~Ci~~~~~ 104 (135)
.||..|+..|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999987
No 121
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=75.16 E-value=1.6 Score=32.32 Aligned_cols=43 Identities=19% Similarity=0.541 Sum_probs=35.2
Q ss_pred cceeeccccCccCcEE-cCCCCcccHHhHHHHHhcCCCCccccc
Q 042225 72 RFTCGICLDTMKEESS-TKCGHVFCKSCIVDAIRLQGRCPTCRT 114 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~-~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 114 (135)
-..|.+|.......+. -.||-.|+..|+..++.....||.|.-
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchhc
Confidence 4569999997766554 378888999999999999889999954
No 122
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=74.02 E-value=2.2 Score=33.54 Aligned_cols=47 Identities=30% Similarity=0.686 Sum_probs=36.9
Q ss_pred ccceeeccccCccC--c--EEcCCCCcccHHhHHHHHhcCCCCcccccccc
Q 042225 71 VRFTCGICLDTMKE--E--SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 71 ~~~~C~IC~~~~~~--p--~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
..-.|+||.+.... . +-.+||+..|..|+.........||.||++..
T Consensus 248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred cCCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 34569999997742 2 23478999999999998888999999997654
No 123
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.28 E-value=2.5 Score=25.96 Aligned_cols=32 Identities=31% Similarity=0.819 Sum_probs=23.7
Q ss_pred CCCcccHHhHHHHHhcCCCCccccccccccCcee
Q 042225 90 CGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRR 123 (135)
Q Consensus 90 CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~ 123 (135)
--|+||..|....+ ...||.|...+..+.+++
T Consensus 27 fEcTFCadCae~~l--~g~CPnCGGelv~RP~RP 58 (84)
T COG3813 27 FECTFCADCAENRL--HGLCPNCGGELVARPIRP 58 (84)
T ss_pred EeeehhHhHHHHhh--cCcCCCCCchhhcCcCCh
Confidence 35679999997644 467999998887665543
No 124
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=72.59 E-value=2.1 Score=27.39 Aligned_cols=38 Identities=24% Similarity=0.753 Sum_probs=29.2
Q ss_pred cceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccc
Q 042225 72 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
.-.|.||...+..+ ||.||..|-.. ...|.+|.+.+..
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAYk----kGiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAYK----KGICAMCGKKILD 81 (90)
T ss_pred CccccccccccccC-----CCccChhhhcc----cCcccccCCeecc
Confidence 45799999866654 88999999642 5689999888743
No 125
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=70.48 E-value=1.5 Score=34.31 Aligned_cols=46 Identities=22% Similarity=0.481 Sum_probs=34.1
Q ss_pred CCccceeeccccCccCcEE-c--CCCC--cccHHhHHHHHhcCCCCccccc
Q 042225 69 GEVRFTCGICLDTMKEESS-T--KCGH--VFCKSCIVDAIRLQGRCPTCRT 114 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~-~--~CgH--~fc~~Ci~~~~~~~~~CP~Cr~ 114 (135)
.+..-.||+|.....-.+. . .=|+ .+|..|-.+|......||.|..
T Consensus 184 ~~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 184 GEQRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred ccCCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 3457889999997654432 1 3344 4699999999888889999975
No 126
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=69.18 E-value=1.2 Score=34.80 Aligned_cols=45 Identities=20% Similarity=0.442 Sum_probs=33.4
Q ss_pred CccceeeccccCccCcEEc----CCC--CcccHHhHHHHHhcCCCCccccc
Q 042225 70 EVRFTCGICLDTMKEESST----KCG--HVFCKSCIVDAIRLQGRCPTCRT 114 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~----~Cg--H~fc~~Ci~~~~~~~~~CP~Cr~ 114 (135)
+..-.||||.....-.+.. .=| +.+|..|-.+|......||.|..
T Consensus 182 ~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 182 ESRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4466899999976544321 234 45799999999888889999975
No 127
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=68.37 E-value=0.28 Score=29.88 Aligned_cols=40 Identities=28% Similarity=0.722 Sum_probs=18.7
Q ss_pred ceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCcccccccc
Q 042225 73 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 73 ~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
..||.|...+.-.- |+.+|..|-..+ .....||.|..++.
T Consensus 2 ~~CP~C~~~L~~~~----~~~~C~~C~~~~-~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG----GHYHCEACQKDY-KKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET----TEEEETTT--EE-EEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC----CEEECccccccc-eecccCCCcccHHH
Confidence 45888887655321 666777776542 22345777766654
No 128
>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=64.21 E-value=1.7 Score=25.81 Aligned_cols=32 Identities=28% Similarity=0.586 Sum_probs=15.9
Q ss_pred CccceeeccccCccCc----EEcCCCCcccHHhHHH
Q 042225 70 EVRFTCGICLDTMKEE----SSTKCGHVFCKSCIVD 101 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p----~~~~CgH~fc~~Ci~~ 101 (135)
.+...|.+|...|.-- .--.||+.||..|...
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 3456799999988421 1237999999999754
No 129
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=63.84 E-value=0.98 Score=21.33 Aligned_cols=8 Identities=50% Similarity=1.178 Sum_probs=3.7
Q ss_pred CCCccccc
Q 042225 107 GRCPTCRT 114 (135)
Q Consensus 107 ~~CP~Cr~ 114 (135)
..||.|..
T Consensus 14 ~fC~~CG~ 21 (23)
T PF13240_consen 14 KFCPNCGT 21 (23)
T ss_pred cchhhhCC
Confidence 34555543
No 130
>PF14353 CpXC: CpXC protein
Probab=61.55 E-value=5.5 Score=26.63 Aligned_cols=46 Identities=17% Similarity=0.228 Sum_probs=26.2
Q ss_pred ceeeccccCccCcEEcCCCCcccHHhHHHHHhc---CCCCccccccccc
Q 042225 73 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL---QGRCPTCRTRMSV 118 (135)
Q Consensus 73 ~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~---~~~CP~Cr~~~~~ 118 (135)
+.||-|...+.-.+-+.-.-..-..-....+.. ..+||.|.+.+..
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRL 50 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceec
Confidence 568888887765443332222223333444443 3479999887754
No 131
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=60.78 E-value=12 Score=29.66 Aligned_cols=58 Identities=21% Similarity=0.472 Sum_probs=36.9
Q ss_pred ccceeeccccCcc--------Cc-----------EEcCCCCcccHHhHHHHHh---------cCCCCcccccccc-ccCc
Q 042225 71 VRFTCGICLDTMK--------EE-----------SSTKCGHVFCKSCIVDAIR---------LQGRCPTCRTRMS-VRSI 121 (135)
Q Consensus 71 ~~~~C~IC~~~~~--------~p-----------~~~~CgH~fc~~Ci~~~~~---------~~~~CP~Cr~~~~-~~~~ 121 (135)
....||+|..+-. ++ ...||||..-.+=..=|.+ .+..||.|-..+. +...
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~~~ 419 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQGY 419 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccCCce
Confidence 4677999986322 11 2348999766665555654 1236999988885 4456
Q ss_pred eeecCCC
Q 042225 122 RRIFFPQ 128 (135)
Q Consensus 122 ~~~~~~~ 128 (135)
++++|..
T Consensus 420 ikliFq~ 426 (429)
T KOG3842|consen 420 IKLIFQG 426 (429)
T ss_pred EEEEEec
Confidence 6676654
No 132
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.67 E-value=8.3 Score=29.50 Aligned_cols=48 Identities=27% Similarity=0.550 Sum_probs=32.8
Q ss_pred CCccceeeccccCccCcEE----cCCCC-----cccHHhHHHHHhcC--------CCCccccccc
Q 042225 69 GEVRFTCGICLDTMKEESS----TKCGH-----VFCKSCIVDAIRLQ--------GRCPTCRTRM 116 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~----~~CgH-----~fc~~Ci~~~~~~~--------~~CP~Cr~~~ 116 (135)
.+.+..|-||+..-++... -||.. =.|..|+..|+..+ -.||.|+...
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 4456779999986665422 25532 26899999999733 2599997654
No 133
>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=60.05 E-value=2.3 Score=20.71 Aligned_cols=8 Identities=25% Similarity=0.646 Sum_probs=3.7
Q ss_pred eeccccCc
Q 042225 75 CGICLDTM 82 (135)
Q Consensus 75 C~IC~~~~ 82 (135)
||-|...+
T Consensus 3 CP~C~~~V 10 (26)
T PF10571_consen 3 CPECGAEV 10 (26)
T ss_pred CCCCcCCc
Confidence 44444433
No 134
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=59.86 E-value=3 Score=33.70 Aligned_cols=33 Identities=24% Similarity=0.364 Sum_probs=0.0
Q ss_pred EEcCCCCcccHHhHHHHHh---cCCCCccccccccc
Q 042225 86 SSTKCGHVFCKSCIVDAIR---LQGRCPTCRTRMSV 118 (135)
Q Consensus 86 ~~~~CgH~fc~~Ci~~~~~---~~~~CP~Cr~~~~~ 118 (135)
+.+.|||++-++=+..-.. ....||+|+..-..
T Consensus 305 VYl~CGHVhG~h~Wg~~~~~~~~~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 305 VYLNCGHVHGYHNWGQDSDRDPRSRTCPLCRQVGPY 340 (416)
T ss_dssp ------------------------------------
T ss_pred eeccccceeeecccccccccccccccCCCccccCCc
Confidence 4578999877653321111 24689999876553
No 135
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.68 E-value=2.9 Score=32.55 Aligned_cols=47 Identities=26% Similarity=0.668 Sum_probs=37.6
Q ss_pred CccceeeccccCccCcEEc-CCCCcccHHhHHHHHhcCCCCccccccc
Q 042225 70 EVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRLQGRCPTCRTRM 116 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~-~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~ 116 (135)
.....|-+|...+.-|... .|+|.||..|...|......|+.|+...
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 3456688999988877665 4999999999999988777888776544
No 136
>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=58.27 E-value=9.9 Score=21.66 Aligned_cols=25 Identities=36% Similarity=0.794 Sum_probs=13.0
Q ss_pred CCCCcccHHhHHHHHhcCCCCcccc
Q 042225 89 KCGHVFCKSCIVDAIRLQGRCPTCR 113 (135)
Q Consensus 89 ~CgH~fc~~Ci~~~~~~~~~CP~Cr 113 (135)
.|++.||.+|-.=.-..--.||-|.
T Consensus 26 ~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCccccCcChhhhccccCCcCCC
Confidence 6889999999642222334688773
No 137
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=58.17 E-value=12 Score=32.80 Aligned_cols=44 Identities=18% Similarity=0.332 Sum_probs=32.6
Q ss_pred cceeeccccCccCcEE--cCCCCcccHHhHHHHHhcCCCCcc--cccc
Q 042225 72 RFTCGICLDTMKEESS--TKCGHVFCKSCIVDAIRLQGRCPT--CRTR 115 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~--~~CgH~fc~~Ci~~~~~~~~~CP~--Cr~~ 115 (135)
.-.|.+|...+..-.. --|||.-|.+|+..|+.....||. |...
T Consensus 779 ~~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~ 826 (839)
T KOG0269|consen 779 SAKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPHL 826 (839)
T ss_pred hcCceeecceeeeeEeecccccccccHHHHHHHHhcCCCCccccCCcc
Confidence 3468888877665332 259999999999999998887776 5443
No 138
>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 KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=57.92 E-value=5.9 Score=30.47 Aligned_cols=50 Identities=18% Similarity=0.410 Sum_probs=32.4
Q ss_pred CccceeeccccCccC-c--------EEcCCCCcccHHhH-HHHHhc----------CCCCcccccccccc
Q 042225 70 EVRFTCGICLDTMKE-E--------SSTKCGHVFCKSCI-VDAIRL----------QGRCPTCRTRMSVR 119 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~-p--------~~~~CgH~fc~~Ci-~~~~~~----------~~~CP~Cr~~~~~~ 119 (135)
...+.|.+|-..+.. + ..++|-..+|.+-. ..|+.+ -+.||.|.+.|..+
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADR 228 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADR 228 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcch
Confidence 346779999987764 2 23466666665544 357651 24699999988764
No 140
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.37 E-value=4.1 Score=29.00 Aligned_cols=17 Identities=12% Similarity=0.032 Sum_probs=10.6
Q ss_pred cCCCCCCCCCccCCCcc
Q 042225 4 RRHPLSFGPLTEEDDLE 20 (135)
Q Consensus 4 ~~~~~~~~p~~~~~d~e 20 (135)
.-+.++..+.+...+..
T Consensus 48 ~aRslSSv~d~~~~~~~ 64 (205)
T KOG0801|consen 48 NARSLSSVSDSNASEDD 64 (205)
T ss_pred hcchhccCcccccCccc
Confidence 35677777777665433
No 141
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 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 family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=56.67 E-value=9.2 Score=28.64 Aligned_cols=25 Identities=28% Similarity=0.652 Sum_probs=21.3
Q ss_pred ccHHhHHHHHhcCCCCccccccccc
Q 042225 94 FCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 94 fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
-|.+|......+...||+|++....
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRS 220 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRS 220 (230)
T ss_pred hhHhHHHHHhcCCCCCccccccccc
Confidence 5899999988889999999876654
No 142
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.02 E-value=6.5 Score=25.22 Aligned_cols=12 Identities=33% Similarity=0.963 Sum_probs=11.0
Q ss_pred cccHHhHHHHHh
Q 042225 93 VFCKSCIVDAIR 104 (135)
Q Consensus 93 ~fc~~Ci~~~~~ 104 (135)
.||..|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999987
No 143
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=54.11 E-value=6.4 Score=29.96 Aligned_cols=45 Identities=24% Similarity=0.397 Sum_probs=35.2
Q ss_pred ccceeeccccCccCcE-EcCCCCcccHHhHHHHHhcC--CCCcccccc
Q 042225 71 VRFTCGICLDTMKEES-STKCGHVFCKSCIVDAIRLQ--GRCPTCRTR 115 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~-~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~~ 115 (135)
-.++||+-...+.+|+ ...|||.|=.+-+..++... -.||+-...
T Consensus 175 fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 175 FSNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred hcccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 3678999888888886 46899999999999888753 358865444
No 144
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=54.02 E-value=2 Score=24.68 Aligned_cols=15 Identities=47% Similarity=0.921 Sum_probs=13.0
Q ss_pred CCCCcccHHhHHHHH
Q 042225 89 KCGHVFCKSCIVDAI 103 (135)
Q Consensus 89 ~CgH~fc~~Ci~~~~ 103 (135)
.||+.||..|...|.
T Consensus 45 ~C~~~fC~~C~~~~H 59 (64)
T smart00647 45 KCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCeECCCCCCcCC
Confidence 689999999988874
No 145
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=52.87 E-value=7.6 Score=26.63 Aligned_cols=21 Identities=33% Similarity=0.653 Sum_probs=15.1
Q ss_pred ccccCccCcEEcCCCCcccHH
Q 042225 77 ICLDTMKEESSTKCGHVFCKS 97 (135)
Q Consensus 77 IC~~~~~~p~~~~CgH~fc~~ 97 (135)
||...-..-+...|||.||..
T Consensus 62 i~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEecccccEEEEeccccccCh
Confidence 566655555667899999963
No 146
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=52.40 E-value=16 Score=23.94 Aligned_cols=24 Identities=29% Similarity=0.789 Sum_probs=17.9
Q ss_pred CCcccHHhHHHHHhc---------CCCCccccc
Q 042225 91 GHVFCKSCIVDAIRL---------QGRCPTCRT 114 (135)
Q Consensus 91 gH~fc~~Ci~~~~~~---------~~~CP~Cr~ 114 (135)
.-.||..||..+... ...||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999877652 246998876
No 147
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=51.85 E-value=11 Score=28.35 Aligned_cols=25 Identities=28% Similarity=0.635 Sum_probs=20.9
Q ss_pred ccHHhHHHHHhcCCCCccccccccc
Q 042225 94 FCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 94 fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
.|.+|......+...||+|++....
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRS 275 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRS 275 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhcccc
Confidence 5889998888888999999876653
No 148
>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=51.42 E-value=16 Score=29.72 Aligned_cols=58 Identities=17% Similarity=0.284 Sum_probs=51.1
Q ss_pred CccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccccCceeecCC
Q 042225 70 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRRIFFP 127 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 127 (135)
-....|.+-+..|..|+.+.=|.+|=..-|..|++....=|.-.+++..++|+++-|.
T Consensus 38 LP~~hC~lt~~Pfe~PvC~~dg~vFd~~~Ivp~lkk~g~nP~tG~kl~~~dLIkL~F~ 95 (518)
T KOG0883|consen 38 LPFNHCSLTMLPFEDPVCTVDGTVFDLTAIVPWLKKHGTNPITGQKLDGKDLIKLKFH 95 (518)
T ss_pred CChhhceeccccccCcccccCCcEEeeehhhHHHHHcCCCCCCCCccccccceeeeec
Confidence 3456799999999999999999999999999999988888888889998999888554
No 149
>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=49.61 E-value=12 Score=21.07 Aligned_cols=31 Identities=26% Similarity=0.694 Sum_probs=20.9
Q ss_pred ceeeccccCccC----cEEcCCCCcccHHhHHHHH
Q 042225 73 FTCGICLDTMKE----ESSTKCGHVFCKSCIVDAI 103 (135)
Q Consensus 73 ~~C~IC~~~~~~----p~~~~CgH~fc~~Ci~~~~ 103 (135)
..|.+|...|.- ..-..||+.||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 347788765553 1234799999999986543
No 150
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=48.96 E-value=7.2 Score=33.90 Aligned_cols=47 Identities=28% Similarity=0.599 Sum_probs=32.5
Q ss_pred ccceeeccccCccCc----------EEcCCCCcc--------------------cHHhHHHHHhc--------CCCCccc
Q 042225 71 VRFTCGICLDTMKEE----------SSTKCGHVF--------------------CKSCIVDAIRL--------QGRCPTC 112 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p----------~~~~CgH~f--------------------c~~Ci~~~~~~--------~~~CP~C 112 (135)
+.-.|.-|++.+.+| ..|.||.+| |..|..++... ...||.|
T Consensus 100 D~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~C 179 (750)
T COG0068 100 DAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPKC 179 (750)
T ss_pred chhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCccc
Confidence 445688888877765 234677777 89999888652 2369999
Q ss_pred ccccc
Q 042225 113 RTRMS 117 (135)
Q Consensus 113 r~~~~ 117 (135)
.-.+.
T Consensus 180 GP~~~ 184 (750)
T COG0068 180 GPHLF 184 (750)
T ss_pred CCCeE
Confidence 65443
No 151
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.85 E-value=11 Score=26.01 Aligned_cols=27 Identities=37% Similarity=0.813 Sum_probs=17.4
Q ss_pred CCCccceeecccc-CccCcEEcCCCCcccHHhH
Q 042225 68 VGEVRFTCGICLD-TMKEESSTKCGHVFCKSCI 99 (135)
Q Consensus 68 ~~~~~~~C~IC~~-~~~~p~~~~CgH~fc~~Ci 99 (135)
...++-.|-||+. .|.+ .|||. |..|-
T Consensus 61 Gv~ddatC~IC~KTKFAD----G~GH~-C~YCq 88 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKFAD----GCGHN-CSYCQ 88 (169)
T ss_pred ccCcCcchhhhhhccccc----ccCcc-cchhh
Confidence 3567788999987 4444 47773 44443
No 152
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.71 E-value=14 Score=31.93 Aligned_cols=44 Identities=30% Similarity=0.738 Sum_probs=34.1
Q ss_pred eeeccccCccCcEEcCCCC-cccHHhHHHHHh--c----CCCCcccccccc
Q 042225 74 TCGICLDTMKEESSTKCGH-VFCKSCIVDAIR--L----QGRCPTCRTRMS 117 (135)
Q Consensus 74 ~C~IC~~~~~~p~~~~CgH-~fc~~Ci~~~~~--~----~~~CP~Cr~~~~ 117 (135)
.|+||-.-..-...-.||| ..|..|..+... . ...||+|+..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 4888888777767779999 799999987754 2 345799988664
No 153
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=46.11 E-value=18 Score=28.57 Aligned_cols=46 Identities=7% Similarity=-0.181 Sum_probs=35.5
Q ss_pred CccceeeccccCccCcEEcCCCCc-ccHHhHHHHHhcCCCCcccccccc
Q 042225 70 EVRFTCGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGRCPTCRTRMS 117 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~~CgH~-fc~~Ci~~~~~~~~~CP~Cr~~~~ 117 (135)
-..+.|..|..-+...+..+|||. ||..|.. +.....||+|.....
T Consensus 341 ~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~~ 387 (394)
T KOG2113|consen 341 MSSLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHNDH 387 (394)
T ss_pred hhhcccccccCceeeeEeecCCcccChhhhhh--cccCCccccccccce
Confidence 357788899888777777899996 9999986 445568999976543
No 154
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.75 E-value=4.9 Score=32.47 Aligned_cols=49 Identities=20% Similarity=0.573 Sum_probs=39.9
Q ss_pred ccceeeccccCccCc----EEcCCCCcccHHhHHHHHhcCCCCcccccccccc
Q 042225 71 VRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVR 119 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p----~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~ 119 (135)
..-.|+||...+.+- -.+.|||.++..|+..|+.....||.|+..+...
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 345688998877643 4578999999999999999888899999888654
No 155
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=45.13 E-value=15 Score=31.64 Aligned_cols=54 Identities=19% Similarity=0.377 Sum_probs=34.5
Q ss_pred CCccceeeccccCccCcE-EcCCCCcccHHhHHHHHhc----CCCCccccccccccCce
Q 042225 69 GEVRFTCGICLDTMKEES-STKCGHVFCKSCIVDAIRL----QGRCPTCRTRMSVRSIR 122 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~-~~~CgH~fc~~Ci~~~~~~----~~~CP~Cr~~~~~~~~~ 122 (135)
....+.|+|+...+.-|. -..|.|.-|.+-..-...+ ...||+|.+....+++.
T Consensus 303 ~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~ 361 (636)
T KOG2169|consen 303 LRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLI 361 (636)
T ss_pred ceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccchh
Confidence 345788998887666554 3467777666554221111 23699999988776653
No 156
>PRK04023 DNA polymerase II large subunit; Validated
Probab=45.12 E-value=15 Score=33.37 Aligned_cols=51 Identities=22% Similarity=0.321 Sum_probs=34.7
Q ss_pred CCCccceeeccccCccCcEEcCCCC-----cccHHhHHHHHhcCCCCccccccccccC
Q 042225 68 VGEVRFTCGICLDTMKEESSTKCGH-----VFCKSCIVDAIRLQGRCPTCRTRMSVRS 120 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~~CgH-----~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~ 120 (135)
.......|+-|.........-.||. .||..|- +......||.|........
T Consensus 622 VEVg~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG--~~~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 622 VEIGRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCG--IEVEEDECEKCGREPTPYS 677 (1121)
T ss_pred ecccCccCCCCCCcCCcccCCCCCCCCCcceeCcccc--CcCCCCcCCCCCCCCCccc
Confidence 3445778999998864443445885 4899993 3334457999988776543
No 157
>PRK11595 DNA utilization protein GntX; Provisional
Probab=44.36 E-value=18 Score=26.64 Aligned_cols=38 Identities=21% Similarity=0.473 Sum_probs=20.1
Q ss_pred eeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccc
Q 042225 74 TCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRM 116 (135)
Q Consensus 74 ~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~ 116 (135)
.|.+|...+... ....|..|...+......|+.|..++
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhCCcccCcCccCCCcC
Confidence 477777654321 12357777665432234577776554
No 158
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=44.23 E-value=15 Score=20.81 Aligned_cols=8 Identities=38% Similarity=0.974 Sum_probs=5.4
Q ss_pred cCCCCccc
Q 042225 105 LQGRCPTC 112 (135)
Q Consensus 105 ~~~~CP~C 112 (135)
....||.|
T Consensus 48 ~~~~CP~C 55 (55)
T PF14311_consen 48 RGKGCPYC 55 (55)
T ss_pred CCCCCCCC
Confidence 45678877
No 159
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=42.70 E-value=22 Score=23.71 Aligned_cols=40 Identities=28% Similarity=0.565 Sum_probs=28.8
Q ss_pred eeeccccCccCcE--------------EcCCCCcccHHhHHHHHhcCCCCcccc
Q 042225 74 TCGICLDTMKEES--------------STKCGHVFCKSCIVDAIRLQGRCPTCR 113 (135)
Q Consensus 74 ~C~IC~~~~~~p~--------------~~~CgH~fc~~Ci~~~~~~~~~CP~Cr 113 (135)
.|--|...|.++. -..|++.||.+|-.=+...-..||-|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 4888888776431 236999999999765555556799885
No 160
>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=41.73 E-value=15 Score=18.38 Aligned_cols=34 Identities=21% Similarity=0.585 Sum_probs=17.3
Q ss_pred eeccccCccCc--EEcCCCCcccHHhHHHHHhcCCCCccccccc
Q 042225 75 CGICLDTMKEE--SSTKCGHVFCKSCIVDAIRLQGRCPTCRTRM 116 (135)
Q Consensus 75 C~IC~~~~~~p--~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~ 116 (135)
|..|.+.+... ....=+..|+..| +.|..|...+
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccC--------CCCcccCCcC
Confidence 66677766552 2223344454444 2466665544
No 161
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=41.06 E-value=18 Score=19.15 Aligned_cols=22 Identities=27% Similarity=0.847 Sum_probs=10.8
Q ss_pred eeccccCccC-cEEcC-CCCcccH
Q 042225 75 CGICLDTMKE-ESSTK-CGHVFCK 96 (135)
Q Consensus 75 C~IC~~~~~~-p~~~~-CgH~fc~ 96 (135)
|.+|.....- |..-. |+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 3445443333 44444 6666665
No 162
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=40.91 E-value=17 Score=28.24 Aligned_cols=45 Identities=20% Similarity=0.471 Sum_probs=32.1
Q ss_pred CccceeeccccCccCcEEc----CCCCcc--cHHhHHHHHhcCCCCccccc
Q 042225 70 EVRFTCGICLDTMKEESST----KCGHVF--CKSCIVDAIRLQGRCPTCRT 114 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~----~CgH~f--c~~Ci~~~~~~~~~CP~Cr~ 114 (135)
+..-.||+|.......++. .-|-+| |.-|...|......|-.|..
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR~KC~nC~~ 233 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVRVKCSNCEQ 233 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHHHHhccccc
Confidence 3445799999977765432 344444 99999999987777888843
No 163
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=40.06 E-value=11 Score=21.27 Aligned_cols=6 Identities=50% Similarity=1.735 Sum_probs=3.0
Q ss_pred Cccccc
Q 042225 109 CPTCRT 114 (135)
Q Consensus 109 CP~Cr~ 114 (135)
||+|..
T Consensus 34 CPiC~~ 39 (54)
T PF05605_consen 34 CPICSS 39 (54)
T ss_pred CCCchh
Confidence 555543
No 164
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=40.02 E-value=42 Score=25.50 Aligned_cols=47 Identities=19% Similarity=0.375 Sum_probs=34.1
Q ss_pred cceeeccccCccC----cEEcCCCC-----cccHHhHHHHHh--cCCCCccccccccc
Q 042225 72 RFTCGICLDTMKE----ESSTKCGH-----VFCKSCIVDAIR--LQGRCPTCRTRMSV 118 (135)
Q Consensus 72 ~~~C~IC~~~~~~----p~~~~CgH-----~fc~~Ci~~~~~--~~~~CP~Cr~~~~~ 118 (135)
...|-||...... +...+|.. ..+..|+..|.. ....|..|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 4679999986543 45566643 248999999998 45679999776653
No 165
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=39.61 E-value=9.7 Score=30.84 Aligned_cols=57 Identities=25% Similarity=0.509 Sum_probs=0.0
Q ss_pred cceeeccccCcc--------C---------c--EEcCCCCcccHHhHHHHHh---------cCCCCcccccccc-ccCce
Q 042225 72 RFTCGICLDTMK--------E---------E--SSTKCGHVFCKSCIVDAIR---------LQGRCPTCRTRMS-VRSIR 122 (135)
Q Consensus 72 ~~~C~IC~~~~~--------~---------p--~~~~CgH~fc~~Ci~~~~~---------~~~~CP~Cr~~~~-~~~~~ 122 (135)
...|++|...-. + | ...||||..-.+...-|-+ ....||.|-..+. .....
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~~g~v 407 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGEQGYV 407 (416)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccCCCCce
Confidence 678999995321 1 1 2348999877777766755 1236999999886 45677
Q ss_pred eecCCC
Q 042225 123 RIFFPQ 128 (135)
Q Consensus 123 ~~~~~~ 128 (135)
+++|.+
T Consensus 408 rLiFQ~ 413 (416)
T PF04710_consen 408 RLIFQD 413 (416)
T ss_dssp ------
T ss_pred EEEEeC
Confidence 777754
No 166
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=38.19 E-value=19 Score=27.69 Aligned_cols=53 Identities=23% Similarity=0.582 Sum_probs=36.9
Q ss_pred ceeeccccCccC--cEEc-----CCCCcccHHhHHHHHh---------cCCCCccccccccccCceeec
Q 042225 73 FTCGICLDTMKE--ESST-----KCGHVFCKSCIVDAIR---------LQGRCPTCRTRMSVRSIRRIF 125 (135)
Q Consensus 73 ~~C~IC~~~~~~--p~~~-----~CgH~fc~~Ci~~~~~---------~~~~CP~Cr~~~~~~~~~~~~ 125 (135)
..|-+|.+.+.+ ...+ .|+-+++..|+...+. ....||.|++.+...+++.+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w~~lv~~~ 251 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSWTTLVDLD 251 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeHHHHHHHH
Confidence 468888887732 2222 5888889999988544 124699999988877776643
No 167
>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=38.16 E-value=22 Score=17.96 Aligned_cols=9 Identities=33% Similarity=0.888 Sum_probs=6.4
Q ss_pred CCCCccccc
Q 042225 106 QGRCPTCRT 114 (135)
Q Consensus 106 ~~~CP~Cr~ 114 (135)
...||.|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 457888865
No 168
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=37.42 E-value=13 Score=28.82 Aligned_cols=55 Identities=15% Similarity=0.422 Sum_probs=34.3
Q ss_pred CCCcCCCCccceeecccc-CccCc----EEcCCCCcccHHhHHHHHh-----cC--CCCcccccccc
Q 042225 63 NGMVVVGEVRFTCGICLD-TMKEE----SSTKCGHVFCKSCIVDAIR-----LQ--GRCPTCRTRMS 117 (135)
Q Consensus 63 ~~~~~~~~~~~~C~IC~~-~~~~p----~~~~CgH~fc~~Ci~~~~~-----~~--~~CP~Cr~~~~ 117 (135)
...-.++.+...|.+|.. .|.-- ..-.||++||..|-..-+. .. .-|..|-..+.
T Consensus 159 ~~~W~PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~ 225 (288)
T KOG1729|consen 159 AAVWLPDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELE 225 (288)
T ss_pred CCcccCcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHh
Confidence 334445667889999998 44321 2347999999999765322 11 24777755553
No 169
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=37.18 E-value=5.4 Score=19.15 Aligned_cols=6 Identities=50% Similarity=1.492 Sum_probs=2.6
Q ss_pred CCcccc
Q 042225 108 RCPTCR 113 (135)
Q Consensus 108 ~CP~Cr 113 (135)
.||.|.
T Consensus 18 fC~~CG 23 (26)
T PF13248_consen 18 FCPNCG 23 (26)
T ss_pred cChhhC
Confidence 344443
No 170
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=36.76 E-value=24 Score=25.76 Aligned_cols=37 Identities=38% Similarity=0.889 Sum_probs=24.3
Q ss_pred cceeeccccC-----ccC-cEE--cCCCCcccHHhHHHHHhcCCCCcccc
Q 042225 72 RFTCGICLDT-----MKE-ESS--TKCGHVFCKSCIVDAIRLQGRCPTCR 113 (135)
Q Consensus 72 ~~~C~IC~~~-----~~~-p~~--~~CgH~fc~~Ci~~~~~~~~~CP~Cr 113 (135)
.+.|-+|.+. |.. .+. -.|+..||..|.. ...||.|.
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 4558888752 111 111 2699999999976 26699994
No 171
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=36.59 E-value=14 Score=23.49 Aligned_cols=12 Identities=33% Similarity=0.960 Sum_probs=5.9
Q ss_pred CCCCcccccccc
Q 042225 106 QGRCPTCRTRMS 117 (135)
Q Consensus 106 ~~~CP~Cr~~~~ 117 (135)
+..|..|++++.
T Consensus 58 rGrCr~C~~~I~ 69 (92)
T PF06750_consen 58 RGRCRYCGAPIP 69 (92)
T ss_pred CCCCcccCCCCC
Confidence 344555555443
No 172
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=36.43 E-value=43 Score=20.85 Aligned_cols=46 Identities=28% Similarity=0.621 Sum_probs=17.8
Q ss_pred cceeeccccCccC----cEEc---CCCCcccHHhHHHHHh-cCCCCcccccccc
Q 042225 72 RFTCGICLDTMKE----ESST---KCGHVFCKSCIVDAIR-LQGRCPTCRTRMS 117 (135)
Q Consensus 72 ~~~C~IC~~~~~~----p~~~---~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~ 117 (135)
.-.|.||.+..-- -+.. .|+-..|+.|..=-.+ ....||.|+....
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 3458999885531 1222 5777789999964444 3467999986654
No 173
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=36.30 E-value=22 Score=26.80 Aligned_cols=22 Identities=18% Similarity=0.486 Sum_probs=15.6
Q ss_pred ceeeccccCccC---cEEcCCCCcc
Q 042225 73 FTCGICLDTMKE---ESSTKCGHVF 94 (135)
Q Consensus 73 ~~C~IC~~~~~~---p~~~~CgH~f 94 (135)
+.||+|...+.. ......||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 679999998852 2344668877
No 174
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=36.04 E-value=16 Score=29.48 Aligned_cols=32 Identities=19% Similarity=0.747 Sum_probs=25.3
Q ss_pred CCccceeeccc-cCccCcEEcCCCCcccHHhHH
Q 042225 69 GEVRFTCGICL-DTMKEESSTKCGHVFCKSCIV 100 (135)
Q Consensus 69 ~~~~~~C~IC~-~~~~~p~~~~CgH~fc~~Ci~ 100 (135)
....+.|.-|. .....-..++||..||..|+.
T Consensus 36 ~~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~ 68 (441)
T COG4098 36 ENGKYRCNRCGNTHIELFAKLPCGCLYCRNCLM 68 (441)
T ss_pred ccCcEEehhcCCcchhhhcccccceEeehhhhh
Confidence 34578899998 455566789999999999983
No 175
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=35.85 E-value=16 Score=31.87 Aligned_cols=23 Identities=22% Similarity=0.661 Sum_probs=16.8
Q ss_pred cHHhHHHHHhc--------CCCCcccccccc
Q 042225 95 CKSCIVDAIRL--------QGRCPTCRTRMS 117 (135)
Q Consensus 95 c~~Ci~~~~~~--------~~~CP~Cr~~~~ 117 (135)
|..|..++... -..|+.|.-.+.
T Consensus 121 C~~C~~ey~~p~~rr~h~~~~~C~~Cgp~l~ 151 (711)
T TIGR00143 121 CPDCAKEYKDPLDRRFHAQPIACPRCGPQLN 151 (711)
T ss_pred CHHHHHHhcCCccccCCCCCccCCCCCcEEE
Confidence 99999998652 136999976664
No 176
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=35.45 E-value=19 Score=31.04 Aligned_cols=12 Identities=25% Similarity=0.935 Sum_probs=7.0
Q ss_pred CCCCcccccccc
Q 042225 106 QGRCPTCRTRMS 117 (135)
Q Consensus 106 ~~~CP~Cr~~~~ 117 (135)
.+.||.|...+.
T Consensus 41 ~~fC~~CG~~~~ 52 (645)
T PRK14559 41 EAHCPNCGAETG 52 (645)
T ss_pred cccccccCCccc
Confidence 345677766554
No 177
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=34.99 E-value=11 Score=26.28 Aligned_cols=31 Identities=26% Similarity=0.696 Sum_probs=21.9
Q ss_pred CccceeeccccCccCcEEcCCCCcccH-HhHHH
Q 042225 70 EVRFTCGICLDTMKEESSTKCGHVFCK-SCIVD 101 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~p~~~~CgH~fc~-~Ci~~ 101 (135)
...-.|+||. ++..-..+.||..||. .|+..
T Consensus 116 P~r~fCaVCG-~~S~ysC~~CG~kyCsv~C~~~ 147 (156)
T KOG3362|consen 116 PLRKFCAVCG-YDSKYSCVNCGTKYCSVRCLKT 147 (156)
T ss_pred CcchhhhhcC-CCchhHHHhcCCceeechhhhh
Confidence 3456799999 5555566799999875 56543
No 178
>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]
Probab=34.36 E-value=44 Score=30.23 Aligned_cols=55 Identities=11% Similarity=-0.002 Sum_probs=47.5
Q ss_pred CCccceeeccccCccCcEEcC-CCCcccHHhHHHHHhcCCCCccccccccccCcee
Q 042225 69 GEVRFTCGICLDTMKEESSTK-CGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSIRR 123 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~~~-CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~ 123 (135)
..+.+.=|+-...+.+|+.+| -|++.+..=+.+++....+=|.||.++...++.+
T Consensus 867 vpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~tdPFNR~pLt~d~v~p 922 (943)
T KOG2042|consen 867 VPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDCTDPFNREPLTEDMVSP 922 (943)
T ss_pred CchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCCCCccccccCchhhcCC
Confidence 445666789999999999998 8999999999999998888899999999877654
No 179
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=34.34 E-value=14 Score=20.85 Aligned_cols=12 Identities=25% Similarity=0.744 Sum_probs=6.2
Q ss_pred CCcccccccccc
Q 042225 108 RCPTCRTRMSVR 119 (135)
Q Consensus 108 ~CP~Cr~~~~~~ 119 (135)
.||+|..+|...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 799998888654
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=33.92 E-value=15 Score=17.69 Aligned_cols=10 Identities=30% Similarity=1.036 Sum_probs=6.2
Q ss_pred CCcccccccc
Q 042225 108 RCPTCRTRMS 117 (135)
Q Consensus 108 ~CP~Cr~~~~ 117 (135)
.||+|.+.+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 4777766653
No 181
>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=33.61 E-value=3.7 Score=23.51 Aligned_cols=29 Identities=24% Similarity=0.523 Sum_probs=16.1
Q ss_pred eeec--cccCccC-----c--EEcC-CCCcccHHhHHHH
Q 042225 74 TCGI--CLDTMKE-----E--SSTK-CGHVFCKSCIVDA 102 (135)
Q Consensus 74 ~C~I--C~~~~~~-----p--~~~~-CgH~fc~~Ci~~~ 102 (135)
.|+- |...+.. . +.-+ |++.||..|-..|
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 5765 6665542 1 3334 9999999998766
No 182
>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=33.45 E-value=18 Score=23.90 Aligned_cols=43 Identities=23% Similarity=0.524 Sum_probs=26.0
Q ss_pred ccceeeccccCcc---C--cEEcCCCCcccHHhHHHHHhcC--CCCccccc
Q 042225 71 VRFTCGICLDTMK---E--ESSTKCGHVFCKSCIVDAIRLQ--GRCPTCRT 114 (135)
Q Consensus 71 ~~~~C~IC~~~~~---~--p~~~~CgH~fc~~Ci~~~~~~~--~~CP~Cr~ 114 (135)
....|.+|...|. + .+-..|+|.+|..|-.. .... ..|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 4567999987543 2 24558999999999654 1111 24777754
No 183
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=31.44 E-value=32 Score=18.66 Aligned_cols=23 Identities=26% Similarity=0.547 Sum_probs=13.8
Q ss_pred eeccccCccCcEEcCCCCcccHH
Q 042225 75 CGICLDTMKEESSTKCGHVFCKS 97 (135)
Q Consensus 75 C~IC~~~~~~p~~~~CgH~fc~~ 97 (135)
|..|...-..-+-+.|++.+|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCC
Confidence 55666443333556788888843
No 184
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=31.28 E-value=47 Score=23.22 Aligned_cols=36 Identities=19% Similarity=0.382 Sum_probs=23.3
Q ss_pred CCCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccc
Q 042225 68 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 68 ~~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
.....+.|+.|...+.- ...+...+.||.|...+-.
T Consensus 105 ~~~~~Y~Cp~c~~r~tf---------------~eA~~~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTF---------------NEAMELNFTCPRCGAMLDY 140 (158)
T ss_pred cCCCeEECCCCCcEeeH---------------HHHHHcCCcCCCCCCEeee
Confidence 34567888877764441 1233457899999887753
No 185
>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=31.22 E-value=42 Score=18.52 Aligned_cols=31 Identities=26% Similarity=0.610 Sum_probs=19.4
Q ss_pred ccceeeccccCccCc-EEcCCCCcccHHhHHH
Q 042225 71 VRFTCGICLDTMKEE-SSTKCGHVFCKSCIVD 101 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p-~~~~CgH~fc~~Ci~~ 101 (135)
+-+.|..|...+... ....=|..||..|..+
T Consensus 25 ~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp TTSBETTTTCBTTTSSEEEETTEEEEHHHHHH
T ss_pred cccccCCCCCccCCCeeEeECCEEECHHHHhh
Confidence 456677777776654 3445556677777654
No 186
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=30.94 E-value=39 Score=26.85 Aligned_cols=42 Identities=26% Similarity=0.557 Sum_probs=26.9
Q ss_pred cceeeccccCccCc--E-EcCCCCcccHHhHHHHHhcCCCCcccc
Q 042225 72 RFTCGICLDTMKEE--S-STKCGHVFCKSCIVDAIRLQGRCPTCR 113 (135)
Q Consensus 72 ~~~C~IC~~~~~~p--~-~~~CgH~fc~~Ci~~~~~~~~~CP~Cr 113 (135)
...|-.|.+..... + .-.|.+.||.+|-.=....-..||-|.
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 34488886655432 2 236999999999653333345699885
No 187
>PF12773 DZR: Double zinc ribbon
Probab=30.83 E-value=33 Score=18.68 Aligned_cols=11 Identities=27% Similarity=0.782 Sum_probs=6.9
Q ss_pred CCCcccccccc
Q 042225 107 GRCPTCRTRMS 117 (135)
Q Consensus 107 ~~CP~Cr~~~~ 117 (135)
..||.|...+.
T Consensus 30 ~~C~~Cg~~~~ 40 (50)
T PF12773_consen 30 KICPNCGAENP 40 (50)
T ss_pred CCCcCCcCCCc
Confidence 45777766554
No 188
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=30.74 E-value=15 Score=31.25 Aligned_cols=23 Identities=35% Similarity=0.856 Sum_probs=17.5
Q ss_pred cCCCCcccHHhHHHHHhcCCCCcccc
Q 042225 88 TKCGHVFCKSCIVDAIRLQGRCPTCR 113 (135)
Q Consensus 88 ~~CgH~fc~~Ci~~~~~~~~~CP~Cr 113 (135)
..||+.||+.|+.+- ...||.|-
T Consensus 535 ~~C~avfH~~C~~r~---s~~CPrC~ 557 (580)
T KOG1829|consen 535 STCLAVFHKKCLRRK---SPCCPRCE 557 (580)
T ss_pred HHHHHHHHHHHHhcc---CCCCCchH
Confidence 369999999997652 34599993
No 189
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=29.89 E-value=54 Score=23.44 Aligned_cols=35 Identities=23% Similarity=0.453 Sum_probs=23.0
Q ss_pred CCccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccc
Q 042225 69 GEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 69 ~~~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
....+.|+.|...+.- ...+...+.||.|...+-.
T Consensus 114 ~~~~Y~Cp~C~~rytf---------------~eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 114 NNMFFFCPNCHIRFTF---------------DEAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred CCCEEECCCCCcEEeH---------------HHHhhcCCcCCCCCCCCee
Confidence 3467888877765441 1223457899999988754
No 190
>PLN02248 cellulose synthase-like protein
Probab=29.75 E-value=45 Score=30.74 Aligned_cols=34 Identities=32% Similarity=0.962 Sum_probs=28.0
Q ss_pred cCCCCcccHHhHHHHHhcCCCCccccccccccCc
Q 042225 88 TKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSI 121 (135)
Q Consensus 88 ~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 121 (135)
..|+...|.+|...-++....||-|+.+....++
T Consensus 148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 181 (1135)
T PLN02248 148 CECGFKICRDCYIDAVKSGGICPGCKEPYKVTDL 181 (1135)
T ss_pred ccccchhHHhHhhhhhhcCCCCCCCccccccccc
Confidence 3578888999999999888899999988765443
No 191
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=29.02 E-value=18 Score=26.63 Aligned_cols=52 Identities=17% Similarity=0.340 Sum_probs=28.7
Q ss_pred ccceeeccccCccCcEEcC-C------CCcccHHh--HHHHHhcCCCCccccccccccCce
Q 042225 71 VRFTCGICLDTMKEESSTK-C------GHVFCKSC--IVDAIRLQGRCPTCRTRMSVRSIR 122 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~~~~-C------gH~fc~~C--i~~~~~~~~~CP~Cr~~~~~~~~~ 122 (135)
..+.||+|...|....+.. = .--||..- +.+.+..-..||.|......+++.
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~~F~ 64 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEEDFE 64 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCcccccccc
Confidence 4578999999988653221 1 11122211 122222234699998888766553
No 192
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.68 E-value=24 Score=29.67 Aligned_cols=47 Identities=28% Similarity=0.575 Sum_probs=35.3
Q ss_pred ccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccccCc
Q 042225 71 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSVRSI 121 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 121 (135)
....|.+|.... ....++|. +..|+..|+..+..||.|.+.+...+.
T Consensus 478 ~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 478 PNDVCAICYQEM-SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred ccCcchHHHHHH-Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 345688888877 45556776 578888898888899999888765543
No 193
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=28.50 E-value=46 Score=26.76 Aligned_cols=15 Identities=20% Similarity=0.536 Sum_probs=10.8
Q ss_pred CccceeeccccCccC
Q 042225 70 EVRFTCGICLDTMKE 84 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~ 84 (135)
..+..||+|.+....
T Consensus 13 dl~ElCPVCGDkVSG 27 (475)
T KOG4218|consen 13 DLGELCPVCGDKVSG 27 (475)
T ss_pred ccccccccccCcccc
Confidence 345679999887664
No 194
>PLN02436 cellulose synthase A
Probab=28.47 E-value=51 Score=30.28 Aligned_cols=45 Identities=31% Similarity=0.696 Sum_probs=30.7
Q ss_pred ceeeccccCccCc----EEc---CCCCcccHHhHHHHHh-cCCCCcccccccc
Q 042225 73 FTCGICLDTMKEE----SST---KCGHVFCKSCIVDAIR-LQGRCPTCRTRMS 117 (135)
Q Consensus 73 ~~C~IC~~~~~~p----~~~---~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~ 117 (135)
-.|.||.+..-.. ... .|+--.|..|.+--.+ ....||.|+....
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3699999976321 222 4777789999953333 3467999987765
No 195
>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=28.44 E-value=24 Score=19.23 Aligned_cols=40 Identities=20% Similarity=0.595 Sum_probs=23.4
Q ss_pred eeeccccCccCcEEc---CCCCcccHHhHHHHHh------cCCCCcccc
Q 042225 74 TCGICLDTMKEESST---KCGHVFCKSCIVDAIR------LQGRCPTCR 113 (135)
Q Consensus 74 ~C~IC~~~~~~p~~~---~CgH~fc~~Ci~~~~~------~~~~CP~Cr 113 (135)
.|.||.....+...+ .|+..||..|+..-.. ....|+.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 377777744333222 5787888888854332 234577664
No 196
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=28.26 E-value=37 Score=18.19 Aligned_cols=20 Identities=30% Similarity=0.577 Sum_probs=9.6
Q ss_pred cccCccCcEEcC-CCCcccHH
Q 042225 78 CLDTMKEESSTK-CGHVFCKS 97 (135)
Q Consensus 78 C~~~~~~p~~~~-CgH~fc~~ 97 (135)
|......|+.-+ |+..||..
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLK 26 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TT
T ss_pred CcCccCCCeECCCCCcccCcc
Confidence 666555566555 88888864
No 197
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.59 E-value=30 Score=30.05 Aligned_cols=40 Identities=23% Similarity=0.450 Sum_probs=27.1
Q ss_pred cceeeccccCcc----CcEEcCCCCcccHHhHHHHHhcCCCCccccc
Q 042225 72 RFTCGICLDTMK----EESSTKCGHVFCKSCIVDAIRLQGRCPTCRT 114 (135)
Q Consensus 72 ~~~C~IC~~~~~----~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~ 114 (135)
...|.+|...-. -+.++.|+-.||..|...+ ...|++|.-
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~~---~~~~~vC~~ 697 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVACSLDY---ASISEVCGP 697 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhhhhhh---hccCcccCc
Confidence 345777876333 1345689999999996654 566999943
No 198
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=27.44 E-value=42 Score=25.20 Aligned_cols=23 Identities=22% Similarity=0.772 Sum_probs=16.5
Q ss_pred eeeccccCccCcEEcCCCCcccHHhHHHHHh
Q 042225 74 TCGICLDTMKEESSTKCGHVFCKSCIVDAIR 104 (135)
Q Consensus 74 ~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~ 104 (135)
.|+||. ....+.||..|+...+.
T Consensus 1 ~C~iC~--------~~~~~~~C~~C~~~~L~ 23 (302)
T PF10186_consen 1 QCPICH--------NSRRRFYCANCVNNRLL 23 (302)
T ss_pred CCCCCC--------CCCCCeECHHHHHHHHH
Confidence 489998 34556689999977543
No 199
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.32 E-value=22 Score=31.39 Aligned_cols=41 Identities=22% Similarity=0.523 Sum_probs=27.5
Q ss_pred ccceeeccccCcc-------CcEEcCCCCcccHHhHHHHHhcCCCCccc
Q 042225 71 VRFTCGICLDTMK-------EESSTKCGHVFCKSCIVDAIRLQGRCPTC 112 (135)
Q Consensus 71 ~~~~C~IC~~~~~-------~p~~~~CgH~fc~~Ci~~~~~~~~~CP~C 112 (135)
.+.+|..|.+... .-++..|||.|++.|+-....... |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 4458999988554 235678999999999965443332 4444
No 200
>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=26.28 E-value=37 Score=22.56 Aligned_cols=12 Identities=42% Similarity=1.066 Sum_probs=9.5
Q ss_pred cEEcCCCCcccH
Q 042225 85 ESSTKCGHVFCK 96 (135)
Q Consensus 85 p~~~~CgH~fc~ 96 (135)
-+...|||.||.
T Consensus 24 ~vkc~CGh~f~d 35 (112)
T PF08882_consen 24 VVKCDCGHEFCD 35 (112)
T ss_pred eeeccCCCeecC
Confidence 455689999996
No 201
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=25.81 E-value=29 Score=22.60 Aligned_cols=34 Identities=24% Similarity=0.575 Sum_probs=22.3
Q ss_pred CcCCCCccceeeccccCccCcEEc--CCCCcccHHh
Q 042225 65 MVVVGEVRFTCGICLDTMKEESST--KCGHVFCKSC 98 (135)
Q Consensus 65 ~~~~~~~~~~C~IC~~~~~~p~~~--~CgH~fc~~C 98 (135)
..+...+.|.|.-|+-+-...... .=|+.+|..|
T Consensus 63 ViP~q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 63 VIPKQADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred EecCCCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 344567899999999766543222 2367777776
No 202
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 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 zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=25.33 E-value=15 Score=18.00 Aligned_cols=12 Identities=17% Similarity=0.623 Sum_probs=4.6
Q ss_pred eeeccccCccCc
Q 042225 74 TCGICLDTMKEE 85 (135)
Q Consensus 74 ~C~IC~~~~~~p 85 (135)
.|+.|...+.+-
T Consensus 3 ~C~rC~~~~~~~ 14 (30)
T PF06827_consen 3 KCPRCWNYIEDI 14 (30)
T ss_dssp B-TTT--BBEEE
T ss_pred cCccCCCcceEe
Confidence 356666655443
No 203
>PLN02189 cellulose synthase
Probab=25.27 E-value=62 Score=29.63 Aligned_cols=46 Identities=30% Similarity=0.689 Sum_probs=31.2
Q ss_pred cceeeccccCccC----cEEc---CCCCcccHHhHHHHHh-cCCCCcccccccc
Q 042225 72 RFTCGICLDTMKE----ESST---KCGHVFCKSCIVDAIR-LQGRCPTCRTRMS 117 (135)
Q Consensus 72 ~~~C~IC~~~~~~----p~~~---~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~ 117 (135)
...|.||.+.+-. .... .|+--.|..|.+--.+ ....||.|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3469999997542 1222 4777789999953333 3467999988765
No 204
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=24.51 E-value=8.8 Score=24.40 Aligned_cols=39 Identities=23% Similarity=0.727 Sum_probs=28.8
Q ss_pred ccceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccc
Q 042225 71 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 71 ~~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
..-.|.||......| |-+||..|... ...|..|.+.+..
T Consensus 53 ~~~kC~iCk~~vHQ~-----GshYC~tCAY~----KgiCAMCGKki~n 91 (100)
T KOG3476|consen 53 ALAKCRICKQLVHQP-----GSHYCQTCAYK----KGICAMCGKKILN 91 (100)
T ss_pred ccchhHHHHHHhcCC-----cchhHhHhhhh----hhHHHHhhhHhhc
Confidence 345699999988876 66799999743 4568888777654
No 205
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.37 E-value=55 Score=22.40 Aligned_cols=23 Identities=26% Similarity=0.746 Sum_probs=13.8
Q ss_pred ccHHhHHHHHhcCCCCcccccccccc
Q 042225 94 FCKSCIVDAIRLQGRCPTCRTRMSVR 119 (135)
Q Consensus 94 fc~~Ci~~~~~~~~~CP~Cr~~~~~~ 119 (135)
||.+|-..- -..||.|..++...
T Consensus 30 fcskcgeat---i~qcp~csasirgd 52 (160)
T COG4306 30 FCSKCGEAT---ITQCPICSASIRGD 52 (160)
T ss_pred HHhhhchHH---HhcCCccCCccccc
Confidence 666665443 23477777776544
No 206
>PRK05978 hypothetical protein; Provisional
Probab=23.16 E-value=49 Score=23.10 Aligned_cols=32 Identities=22% Similarity=0.578 Sum_probs=21.6
Q ss_pred cceeeccccCccCcEEcCCCCcccHHhHHHHHhcCCCCccccccccc
Q 042225 72 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGRCPTCRTRMSV 118 (135)
Q Consensus 72 ~~~C~IC~~~~~~p~~~~CgH~fc~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (135)
..+||-|.+ |+.|- .+++-...|+.|...+..
T Consensus 33 ~grCP~CG~----------G~LF~-----g~Lkv~~~C~~CG~~~~~ 64 (148)
T PRK05978 33 RGRCPACGE----------GKLFR-----AFLKPVDHCAACGEDFTH 64 (148)
T ss_pred cCcCCCCCC----------Ccccc-----cccccCCCccccCCcccc
Confidence 345888876 33342 466777789999877764
No 207
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=23.14 E-value=47 Score=28.32 Aligned_cols=34 Identities=21% Similarity=0.544 Sum_probs=25.6
Q ss_pred CccceeeccccCccC-------------cEEcCCCCcccHHhHHHHH
Q 042225 70 EVRFTCGICLDTMKE-------------ESSTKCGHVFCKSCIVDAI 103 (135)
Q Consensus 70 ~~~~~C~IC~~~~~~-------------p~~~~CgH~fc~~Ci~~~~ 103 (135)
+....|+||.+.|.. .+.+.-|-.||..|+..-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 567789999997763 3455568899999997653
No 208
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=23.14 E-value=24 Score=21.84 Aligned_cols=22 Identities=27% Similarity=0.753 Sum_probs=16.1
Q ss_pred cHHhHHHHHhcC-CCCccccccc
Q 042225 95 CKSCIVDAIRLQ-GRCPTCRTRM 116 (135)
Q Consensus 95 c~~Ci~~~~~~~-~~CP~Cr~~~ 116 (135)
|..|...|+.++ ..|..|-..+
T Consensus 3 C~~C~~~~F~~KiGRC~rCM~QL 25 (77)
T PF12292_consen 3 CNDCQESWFWQKIGRCQRCMWQL 25 (77)
T ss_pred hhhHHHHHHHHHhccHHHHHHHH
Confidence 778888888755 6788885443
No 209
>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 PRK01343 zinc-binding protein; Provisional
Probab=22.99 E-value=48 Score=19.32 Aligned_cols=12 Identities=25% Similarity=0.747 Sum_probs=9.2
Q ss_pred CCCCcccccccc
Q 042225 106 QGRCPTCRTRMS 117 (135)
Q Consensus 106 ~~~CP~Cr~~~~ 117 (135)
...||.|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 457999988765
No 211
>PF12132 DUF3587: Protein of unknown function (DUF3587); InterPro: IPR021982 This entry is represented by Hyposoter fugitivus ichnovirus, Gp7; it is a family of uncharacterised viral proteins.
Probab=22.66 E-value=51 Score=24.18 Aligned_cols=23 Identities=17% Similarity=0.433 Sum_probs=16.2
Q ss_pred ccCcEEcCC----CCcccHHhHHHHHh
Q 042225 82 MKEESSTKC----GHVFCKSCIVDAIR 104 (135)
Q Consensus 82 ~~~p~~~~C----gH~fc~~Ci~~~~~ 104 (135)
+..|....| -|+||..++..|+.
T Consensus 151 f~~p~~~~C~~gHfHHyCs~HV~~WL~ 177 (199)
T PF12132_consen 151 FVKPSVDECEYGHFHHYCSQHVNSWLN 177 (199)
T ss_pred ccCCCCCCCCCCCcChhhHHHHHHHHH
Confidence 444544445 45799999999987
No 212
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=22.46 E-value=80 Score=16.35 Aligned_cols=24 Identities=25% Similarity=0.668 Sum_probs=11.9
Q ss_pred ccHHhHHHHHhc--------CCCCcccccccc
Q 042225 94 FCKSCIVDAIRL--------QGRCPTCRTRMS 117 (135)
Q Consensus 94 fc~~Ci~~~~~~--------~~~CP~Cr~~~~ 117 (135)
.|..|+.++... ...|+.|.-.+.
T Consensus 1 lC~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~ 32 (35)
T PF07503_consen 1 LCDDCLKEYFDPSNRRFHYQFISCTNCGPRYS 32 (35)
T ss_dssp --HHHHHHHCSTTSTTTT-TT--BTTCC-SCC
T ss_pred CCHHHHHHHcCCCCCcccCcCccCCCCCCCEE
Confidence 367777776542 135888865443
No 213
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=22.46 E-value=41 Score=30.12 Aligned_cols=31 Identities=23% Similarity=0.503 Sum_probs=23.0
Q ss_pred ceeeccccCccCc---------EEcCCCCcccHHhHHHHH
Q 042225 73 FTCGICLDTMKEE---------SSTKCGHVFCKSCIVDAI 103 (135)
Q Consensus 73 ~~C~IC~~~~~~p---------~~~~CgH~fc~~Ci~~~~ 103 (135)
..|..|...|..- ..-.||..||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 4699999988521 134799999999986543
No 214
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=22.38 E-value=36 Score=20.14 Aligned_cols=19 Identities=26% Similarity=0.518 Sum_probs=11.4
Q ss_pred cCCCCccccccccccCcee
Q 042225 105 LQGRCPTCRTRMSVRSIRR 123 (135)
Q Consensus 105 ~~~~CP~Cr~~~~~~~~~~ 123 (135)
....||.|.......+.+.
T Consensus 14 ~~~~CP~Cgs~~~T~~W~G 32 (61)
T PRK08351 14 TEDRCPVCGSRDLSDEWFD 32 (61)
T ss_pred CCCcCCCCcCCcccccccc
Confidence 3457999976554444443
No 215
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=22.36 E-value=43 Score=17.38 Aligned_cols=12 Identities=25% Similarity=0.631 Sum_probs=7.1
Q ss_pred ceeeccccCccC
Q 042225 73 FTCGICLDTMKE 84 (135)
Q Consensus 73 ~~C~IC~~~~~~ 84 (135)
+.||-|...|.-
T Consensus 3 i~CP~C~~~f~v 14 (37)
T PF13719_consen 3 ITCPNCQTRFRV 14 (37)
T ss_pred EECCCCCceEEc
Confidence 356666665553
No 216
>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=21.89 E-value=51 Score=19.30 Aligned_cols=14 Identities=21% Similarity=0.721 Sum_probs=8.9
Q ss_pred CCCCcccccccccc
Q 042225 106 QGRCPTCRTRMSVR 119 (135)
Q Consensus 106 ~~~CP~Cr~~~~~~ 119 (135)
++.||+|.+++..+
T Consensus 3 HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 3 HKHCPVCGKPIPPD 16 (59)
T ss_pred CCcCCcCCCcCCcc
Confidence 45677777766543
No 217
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=21.77 E-value=93 Score=28.70 Aligned_cols=45 Identities=24% Similarity=0.635 Sum_probs=30.3
Q ss_pred ceeeccccCccC-----cE--EcCCCCcccHHhHHHHHh-cCCCCcccccccc
Q 042225 73 FTCGICLDTMKE-----ES--STKCGHVFCKSCIVDAIR-LQGRCPTCRTRMS 117 (135)
Q Consensus 73 ~~C~IC~~~~~~-----p~--~~~CgH~fc~~Ci~~~~~-~~~~CP~Cr~~~~ 117 (135)
-.|.||.+..-- +. .-.||--.|..|.+==.+ ....||.|+....
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 369999996542 21 226787799999942222 3467999987765
No 218
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=21.76 E-value=32 Score=15.23 Aligned_cols=11 Identities=27% Similarity=0.758 Sum_probs=5.5
Q ss_pred eeeccccCccC
Q 042225 74 TCGICLDTMKE 84 (135)
Q Consensus 74 ~C~IC~~~~~~ 84 (135)
.|++|...|..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 35555554443
No 219
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=21.75 E-value=17 Score=19.46 Aligned_cols=9 Identities=33% Similarity=0.984 Sum_probs=6.8
Q ss_pred CCCCccccc
Q 042225 106 QGRCPTCRT 114 (135)
Q Consensus 106 ~~~CP~Cr~ 114 (135)
...||.|..
T Consensus 26 ~~~CP~Cg~ 34 (42)
T PF09723_consen 26 PVPCPECGS 34 (42)
T ss_pred CCcCCCCCC
Confidence 457999976
No 220
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=21.53 E-value=66 Score=22.05 Aligned_cols=12 Identities=25% Similarity=0.706 Sum_probs=9.9
Q ss_pred CCCccccccccc
Q 042225 107 GRCPTCRTRMSV 118 (135)
Q Consensus 107 ~~CP~Cr~~~~~ 118 (135)
+.||.|...+..
T Consensus 124 f~Cp~Cg~~l~~ 135 (147)
T smart00531 124 FTCPRCGEELEE 135 (147)
T ss_pred EECCCCCCEEEE
Confidence 789999988854
No 221
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=21.22 E-value=47 Score=17.19 Aligned_cols=11 Identities=27% Similarity=0.646 Sum_probs=5.7
Q ss_pred ceeeccccCcc
Q 042225 73 FTCGICLDTMK 83 (135)
Q Consensus 73 ~~C~IC~~~~~ 83 (135)
+.|+-|...|.
T Consensus 3 i~Cp~C~~~y~ 13 (36)
T PF13717_consen 3 ITCPNCQAKYE 13 (36)
T ss_pred EECCCCCCEEe
Confidence 34555555444
No 222
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.99 E-value=77 Score=24.47 Aligned_cols=9 Identities=44% Similarity=0.944 Sum_probs=6.0
Q ss_pred CCCcccccc
Q 042225 107 GRCPTCRTR 115 (135)
Q Consensus 107 ~~CP~Cr~~ 115 (135)
..||.|+..
T Consensus 270 ~~C~~Cgt~ 278 (279)
T TIGR00627 270 PICKTCKTA 278 (279)
T ss_pred CCCCCCCCC
Confidence 468888654
No 223
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.35 E-value=67 Score=22.69 Aligned_cols=26 Identities=31% Similarity=0.750 Sum_probs=19.2
Q ss_pred CCcccHHhHHHHHhcCCCCcccccccccc
Q 042225 91 GHVFCKSCIVDAIRLQGRCPTCRTRMSVR 119 (135)
Q Consensus 91 gH~fc~~Ci~~~~~~~~~CP~Cr~~~~~~ 119 (135)
.+.||..|=.+-. ..||.|..++...
T Consensus 27 ~~~fC~kCG~~tI---~~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 27 REKFCSKCGAKTI---TSCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHHhhHHHH---HHCcCCCCCCCCc
Confidence 3568999977653 4599999888654
No 224
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=20.30 E-value=41 Score=19.42 Aligned_cols=11 Identities=27% Similarity=0.760 Sum_probs=7.6
Q ss_pred ceeeccccCcc
Q 042225 73 FTCGICLDTMK 83 (135)
Q Consensus 73 ~~C~IC~~~~~ 83 (135)
+.||+|...-.
T Consensus 5 i~CP~CgnKTR 15 (55)
T PF14205_consen 5 ILCPICGNKTR 15 (55)
T ss_pred EECCCCCCccc
Confidence 57899986443
Done!