Query 033497
Match_columns 118
No_of_seqs 137 out of 1570
Neff 9.4
Searched_HMMs 46136
Date Fri Mar 29 02:57:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033497.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033497hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.7 8.6E-18 1.9E-22 86.9 1.6 44 70-113 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 2.4E-15 5.3E-20 106.8 2.6 48 70-117 230-278 (348)
3 KOG0317 Predicted E3 ubiquitin 99.5 1.9E-14 4.1E-19 99.1 5.0 57 58-117 228-284 (293)
4 PF12678 zf-rbx1: RING-H2 zinc 99.5 3.1E-14 6.7E-19 81.1 3.4 48 66-113 16-73 (73)
5 PHA02929 N1R/p28-like protein; 99.5 3.3E-14 7.2E-19 97.0 3.6 51 67-117 172-227 (238)
6 PF13920 zf-C3HC4_3: Zinc fing 99.4 5.5E-14 1.2E-18 74.5 2.8 46 69-117 2-48 (50)
7 PLN03208 E3 ubiquitin-protein 99.4 3.3E-13 7.2E-18 88.9 4.9 47 68-117 17-79 (193)
8 COG5243 HRD1 HRD ubiquitin lig 99.4 1.4E-13 3.1E-18 97.8 3.0 52 66-117 284-345 (491)
9 PF15227 zf-C3HC4_4: zinc fing 99.4 3.6E-13 7.8E-18 68.7 2.4 38 72-112 1-42 (42)
10 PF13923 zf-C3HC4_2: Zinc fing 99.4 3.7E-13 8E-18 67.7 2.3 38 72-112 1-39 (39)
11 KOG0320 Predicted E3 ubiquitin 99.3 2.7E-12 5.8E-17 83.0 5.1 49 67-116 129-177 (187)
12 COG5540 RING-finger-containing 99.3 1E-12 2.2E-17 91.3 2.8 51 68-118 322-373 (374)
13 PF14634 zf-RING_5: zinc-RING 99.3 3.4E-12 7.4E-17 65.8 3.6 44 71-114 1-44 (44)
14 KOG0823 Predicted E3 ubiquitin 99.3 2.2E-12 4.8E-17 86.6 3.0 49 65-116 43-94 (230)
15 PHA02926 zinc finger-like prot 99.2 5.2E-12 1.1E-16 84.5 3.6 51 66-116 167-229 (242)
16 PF12861 zf-Apc11: Anaphase-pr 99.2 8.4E-12 1.8E-16 72.0 3.8 49 68-116 20-81 (85)
17 cd00162 RING RING-finger (Real 99.2 7.6E-12 1.6E-16 64.0 3.4 44 71-116 1-45 (45)
18 PF00097 zf-C3HC4: Zinc finger 99.2 8.8E-12 1.9E-16 63.2 2.2 38 72-112 1-41 (41)
19 smart00504 Ubox Modified RING 99.2 2.3E-11 5.1E-16 67.1 3.4 44 70-116 2-45 (63)
20 KOG0802 E3 ubiquitin ligase [P 99.1 1.5E-11 3.3E-16 93.2 2.3 51 66-116 288-340 (543)
21 smart00184 RING Ring finger. E 99.1 7.7E-11 1.7E-15 58.3 3.7 38 72-112 1-39 (39)
22 TIGR00599 rad18 DNA repair pro 99.1 4.6E-11 1E-15 86.9 3.4 48 66-116 23-70 (397)
23 COG5574 PEX10 RING-finger-cont 99.1 5.1E-11 1.1E-15 81.4 3.3 57 58-117 204-262 (271)
24 COG5194 APC11 Component of SCF 99.0 2.9E-10 6.3E-15 64.3 3.0 47 70-116 21-80 (88)
25 KOG2164 Predicted E3 ubiquitin 99.0 1.9E-10 4.1E-15 84.8 2.3 45 69-116 186-235 (513)
26 KOG0287 Postreplication repair 99.0 2.1E-10 4.6E-15 81.0 2.4 46 69-117 23-68 (442)
27 PF13445 zf-RING_UBOX: RING-ty 99.0 3.7E-10 8E-15 57.6 2.1 38 72-110 1-43 (43)
28 KOG1493 Anaphase-promoting com 98.9 5.8E-10 1.3E-14 62.6 0.8 49 68-116 19-80 (84)
29 COG5432 RAD18 RING-finger-cont 98.8 3.2E-09 6.9E-14 73.8 3.6 45 69-116 25-69 (391)
30 PF04564 U-box: U-box domain; 98.8 4.3E-09 9.3E-14 59.8 3.2 47 68-117 3-50 (73)
31 KOG2930 SCF ubiquitin ligase, 98.8 7.7E-09 1.7E-13 61.3 3.2 54 62-115 39-106 (114)
32 KOG1734 Predicted RING-contain 98.7 4.5E-09 9.7E-14 72.3 1.8 56 61-116 216-280 (328)
33 KOG2177 Predicted E3 ubiquitin 98.7 6.1E-09 1.3E-13 72.6 2.1 45 66-113 10-54 (386)
34 KOG4172 Predicted E3 ubiquitin 98.7 4.6E-09 1E-13 55.3 1.1 46 68-116 6-53 (62)
35 KOG1785 Tyrosine kinase negati 98.7 1.6E-09 3.5E-14 78.1 -0.9 47 67-116 367-415 (563)
36 TIGR00570 cdk7 CDK-activating 98.7 1.9E-08 4.1E-13 70.9 3.4 49 68-116 2-53 (309)
37 smart00744 RINGv The RING-vari 98.7 3.3E-08 7.2E-13 51.9 3.4 42 71-113 1-49 (49)
38 KOG0828 Predicted E3 ubiquitin 98.6 2.6E-08 5.6E-13 73.6 2.9 53 66-118 568-635 (636)
39 KOG4265 Predicted E3 ubiquitin 98.6 2.7E-08 5.9E-13 70.8 2.9 48 67-117 288-336 (349)
40 KOG0804 Cytoplasmic Zn-finger 98.6 2.4E-08 5.3E-13 72.9 2.3 50 65-116 171-221 (493)
41 PF11793 FANCL_C: FANCL C-term 98.6 5.6E-09 1.2E-13 58.9 -0.9 49 69-117 2-66 (70)
42 KOG0978 E3 ubiquitin ligase in 98.5 3.4E-08 7.4E-13 76.0 1.6 46 69-117 643-689 (698)
43 PF14835 zf-RING_6: zf-RING of 98.5 1.6E-08 3.5E-13 55.3 -0.4 44 68-116 6-50 (65)
44 KOG0827 Predicted E3 ubiquitin 98.5 6.7E-08 1.4E-12 69.6 2.4 45 70-114 5-53 (465)
45 KOG0311 Predicted E3 ubiquitin 98.5 2E-08 4.4E-13 71.4 -0.7 50 66-118 40-91 (381)
46 KOG1039 Predicted E3 ubiquitin 98.4 1.1E-07 2.4E-12 68.3 2.3 50 67-116 159-220 (344)
47 KOG0824 Predicted E3 ubiquitin 98.4 1.8E-07 3.9E-12 65.4 2.0 47 69-118 7-54 (324)
48 COG5219 Uncharacterized conser 98.4 1.6E-07 3.5E-12 74.1 1.6 51 67-117 1467-1523(1525)
49 KOG4159 Predicted E3 ubiquitin 98.2 9.8E-07 2.1E-11 64.6 2.2 52 63-117 78-129 (398)
50 KOG1645 RING-finger-containing 98.1 1.5E-06 3.3E-11 63.1 1.9 46 69-114 4-53 (463)
51 KOG0825 PHD Zn-finger protein 98.0 1.4E-06 3E-11 67.8 0.0 48 69-116 123-170 (1134)
52 KOG1002 Nucleotide excision re 97.9 6.3E-06 1.4E-10 61.9 2.4 91 12-116 490-585 (791)
53 KOG2660 Locus-specific chromos 97.8 4.2E-06 9.1E-11 59.3 0.5 46 68-116 14-60 (331)
54 KOG0297 TNF receptor-associate 97.8 9.2E-06 2E-10 59.8 2.2 48 66-116 18-66 (391)
55 KOG4692 Predicted E3 ubiquitin 97.8 1.5E-05 3.1E-10 57.3 2.6 49 66-117 419-467 (489)
56 COG5152 Uncharacterized conser 97.7 1.5E-05 3.3E-10 53.0 1.6 43 70-115 197-239 (259)
57 KOG4445 Uncharacterized conser 97.7 1.2E-05 2.5E-10 56.6 0.9 34 70-103 116-149 (368)
58 KOG1941 Acetylcholine receptor 97.7 1.2E-05 2.6E-10 58.4 1.0 48 67-114 363-413 (518)
59 KOG2879 Predicted E3 ubiquitin 97.7 4.8E-05 1E-09 52.9 3.5 49 66-117 236-287 (298)
60 KOG4275 Predicted E3 ubiquitin 97.7 5.1E-06 1.1E-10 58.1 -1.4 41 69-116 300-341 (350)
61 PF14570 zf-RING_4: RING/Ubox 97.6 6.7E-05 1.5E-09 38.9 2.8 45 72-116 1-47 (48)
62 PF11789 zf-Nse: Zinc-finger o 97.6 3.6E-05 7.9E-10 41.5 1.7 41 68-111 10-53 (57)
63 KOG1813 Predicted E3 ubiquitin 97.4 4.2E-05 9E-10 53.6 0.6 44 70-116 242-285 (313)
64 PF12906 RINGv: RING-variant d 97.4 0.0001 2.2E-09 38.2 1.4 40 72-112 1-47 (47)
65 KOG1428 Inhibitor of type V ad 97.3 0.00017 3.6E-09 60.2 3.1 51 66-116 3483-3543(3738)
66 KOG1814 Predicted E3 ubiquitin 97.3 0.00017 3.7E-09 52.8 2.8 35 70-104 185-219 (445)
67 COG5236 Uncharacterized conser 97.3 0.00068 1.5E-08 48.9 5.0 48 65-115 57-106 (493)
68 KOG3970 Predicted E3 ubiquitin 97.2 0.00032 7E-09 47.6 3.1 48 69-117 50-105 (299)
69 PF05883 Baculo_RING: Baculovi 97.2 0.00034 7.3E-09 43.9 2.5 36 69-104 26-67 (134)
70 PHA02825 LAP/PHD finger-like p 97.1 0.00079 1.7E-08 43.4 3.8 47 66-116 5-58 (162)
71 KOG4185 Predicted E3 ubiquitin 97.1 0.00043 9.3E-09 49.1 2.7 46 70-115 4-53 (296)
72 PHA02862 5L protein; Provision 97.1 0.00073 1.6E-08 42.9 3.3 43 70-116 3-52 (156)
73 COG5222 Uncharacterized conser 97.1 0.00042 9E-09 49.0 2.4 42 70-114 275-318 (427)
74 PHA03096 p28-like protein; Pro 97.0 0.00046 1E-08 48.8 2.5 44 70-113 179-230 (284)
75 KOG4739 Uncharacterized protei 97.0 0.00026 5.6E-09 48.4 1.0 42 72-116 6-47 (233)
76 KOG1571 Predicted E3 ubiquitin 97.0 0.00039 8.5E-09 50.1 1.8 46 65-116 301-346 (355)
77 PF14447 Prok-RING_4: Prokaryo 96.8 0.00044 9.6E-09 36.7 0.6 42 71-117 9-50 (55)
78 PF03854 zf-P11: P-11 zinc fin 96.8 0.00057 1.2E-08 35.1 0.9 43 71-118 4-47 (50)
79 PF07800 DUF1644: Protein of u 96.8 0.0015 3.2E-08 42.1 2.9 34 68-104 1-47 (162)
80 KOG3268 Predicted E3 ubiquitin 96.8 0.0013 2.8E-08 43.3 2.6 47 70-116 166-227 (234)
81 KOG1952 Transcription factor N 96.7 0.00055 1.2E-08 54.2 0.9 48 67-114 189-244 (950)
82 PF10367 Vps39_2: Vacuolar sor 96.6 0.00054 1.2E-08 41.2 0.2 35 65-100 74-108 (109)
83 KOG1940 Zn-finger protein [Gen 96.6 0.0017 3.6E-08 45.7 2.3 47 68-114 157-204 (276)
84 KOG2114 Vacuolar assembly/sort 96.4 0.0022 4.8E-08 50.9 2.2 41 69-114 840-880 (933)
85 PF08746 zf-RING-like: RING-li 96.4 0.0017 3.6E-08 33.0 1.1 41 72-112 1-43 (43)
86 COG5175 MOT2 Transcriptional r 96.3 0.0042 9.2E-08 44.8 3.0 48 68-115 13-62 (480)
87 KOG1001 Helicase-like transcri 96.2 0.0023 5E-08 50.3 1.6 43 70-116 455-499 (674)
88 KOG2817 Predicted E3 ubiquitin 96.1 0.0058 1.3E-07 44.7 2.9 47 68-114 333-382 (394)
89 PF04641 Rtf2: Rtf2 RING-finge 95.9 0.0065 1.4E-07 42.5 2.6 51 66-117 110-161 (260)
90 KOG4367 Predicted Zn-finger pr 95.9 0.0052 1.1E-07 45.8 2.1 34 67-103 2-35 (699)
91 KOG0826 Predicted E3 ubiquitin 95.9 0.0058 1.3E-07 43.8 2.3 47 66-115 297-344 (357)
92 KOG3039 Uncharacterized conser 95.9 0.0076 1.7E-07 41.6 2.7 49 68-116 220-269 (303)
93 PF14446 Prok-RING_1: Prokaryo 95.6 0.013 2.8E-07 31.1 2.3 34 68-101 4-38 (54)
94 KOG1100 Predicted E3 ubiquitin 95.6 0.0041 8.9E-08 42.1 0.4 38 72-116 161-199 (207)
95 PF10272 Tmpp129: Putative tra 95.5 0.01 2.3E-07 43.3 2.2 27 90-116 311-350 (358)
96 KOG3002 Zn finger protein [Gen 95.3 0.013 2.9E-07 41.8 2.3 45 66-116 45-90 (299)
97 KOG2932 E3 ubiquitin ligase in 95.0 0.01 2.3E-07 42.3 1.1 43 70-116 91-133 (389)
98 PF05290 Baculo_IE-1: Baculovi 95.0 0.028 6E-07 35.3 2.7 46 68-116 79-131 (140)
99 KOG0827 Predicted E3 ubiquitin 94.9 0.0011 2.5E-08 48.3 -4.0 48 69-116 196-244 (465)
100 KOG3053 Uncharacterized conser 94.9 0.017 3.7E-07 40.1 1.7 50 66-115 17-80 (293)
101 KOG4362 Transcriptional regula 94.8 0.0085 1.8E-07 46.9 0.2 45 68-115 20-67 (684)
102 KOG0309 Conserved WD40 repeat- 94.5 0.023 5E-07 45.0 1.9 41 70-111 1029-1069(1081)
103 KOG1609 Protein involved in mR 94.5 0.059 1.3E-06 38.3 3.8 50 67-116 76-133 (323)
104 KOG3800 Predicted E3 ubiquitin 94.5 0.047 1E-06 38.6 3.1 46 71-116 2-50 (300)
105 KOG0801 Predicted E3 ubiquitin 94.4 0.0078 1.7E-07 39.0 -0.6 27 70-96 178-204 (205)
106 KOG2034 Vacuolar sorting prote 94.4 0.025 5.5E-07 45.3 2.0 42 61-103 809-850 (911)
107 KOG3899 Uncharacterized conser 94.1 0.034 7.4E-07 39.5 1.9 27 90-116 325-364 (381)
108 KOG0298 DEAD box-containing he 94.1 0.018 3.9E-07 47.9 0.6 43 70-114 1154-1196(1394)
109 KOG1812 Predicted E3 ubiquitin 93.6 0.026 5.6E-07 41.7 0.6 38 68-105 145-183 (384)
110 PF02891 zf-MIZ: MIZ/SP-RING z 92.9 0.11 2.3E-06 27.1 2.2 43 70-115 3-50 (50)
111 COG5220 TFB3 Cdk activating ki 91.9 0.13 2.7E-06 35.7 2.0 46 68-113 9-60 (314)
112 KOG1815 Predicted E3 ubiquitin 91.4 0.17 3.7E-06 38.1 2.5 37 66-104 67-103 (444)
113 KOG0269 WD40 repeat-containing 90.9 0.21 4.6E-06 39.8 2.7 39 70-111 780-820 (839)
114 COG5183 SSM4 Protein involved 90.2 0.39 8.5E-06 38.8 3.5 49 67-116 10-65 (1175)
115 COG5109 Uncharacterized conser 87.4 0.54 1.2E-05 33.9 2.4 46 68-113 335-383 (396)
116 KOG2068 MOT2 transcription fac 87.2 0.56 1.2E-05 33.9 2.4 47 70-116 250-297 (327)
117 KOG1829 Uncharacterized conser 87.0 0.27 5.9E-06 38.2 0.8 23 87-112 534-556 (580)
118 PF07975 C1_4: TFIIH C1-like d 87.0 0.26 5.7E-06 25.8 0.5 42 72-113 2-50 (51)
119 KOG0825 PHD Zn-finger protein 86.7 1 2.3E-05 36.4 3.8 49 68-116 95-153 (1134)
120 KOG3161 Predicted E3 ubiquitin 85.9 0.42 9.2E-06 37.6 1.4 39 70-110 12-51 (861)
121 KOG4718 Non-SMC (structural ma 85.6 0.5 1.1E-05 32.1 1.4 42 70-113 182-223 (235)
122 KOG2066 Vacuolar assembly/sort 85.6 0.33 7.1E-06 38.9 0.6 44 68-112 783-830 (846)
123 KOG3579 Predicted E3 ubiquitin 85.4 0.76 1.7E-05 32.7 2.3 38 67-107 266-307 (352)
124 PF06844 DUF1244: Protein of u 84.8 0.62 1.3E-05 25.7 1.3 12 93-104 11-22 (68)
125 KOG1812 Predicted E3 ubiquitin 84.8 0.53 1.2E-05 34.9 1.4 43 70-112 307-351 (384)
126 KOG3039 Uncharacterized conser 84.3 0.5 1.1E-05 32.9 1.0 34 68-104 42-75 (303)
127 PF13901 DUF4206: Domain of un 84.0 0.67 1.5E-05 31.3 1.5 40 69-113 152-196 (202)
128 KOG2807 RNA polymerase II tran 83.0 0.71 1.5E-05 33.5 1.4 45 70-114 331-375 (378)
129 KOG0802 E3 ubiquitin ligase [P 82.5 1 2.2E-05 34.9 2.2 43 67-116 477-519 (543)
130 PF01363 FYVE: FYVE zinc finge 80.6 0.44 9.4E-06 26.2 -0.3 37 67-103 7-44 (69)
131 smart00249 PHD PHD zinc finger 79.3 1.1 2.5E-05 21.8 1.0 31 72-102 2-32 (47)
132 PF04710 Pellino: Pellino; In 79.2 0.61 1.3E-05 34.6 0.0 28 85-115 304-337 (416)
133 PF04216 FdhE: Protein involve 78.2 0.32 6.9E-06 34.6 -1.7 46 66-114 169-219 (290)
134 cd00065 FYVE FYVE domain; Zinc 76.7 1.9 4E-05 22.6 1.5 35 70-104 3-38 (57)
135 KOG3005 GIY-YIG type nuclease 76.3 4.6 0.0001 28.5 3.6 47 70-116 183-242 (276)
136 PF06937 EURL: EURL protein; 76.3 2.6 5.6E-05 29.8 2.4 42 70-111 31-75 (285)
137 PF00628 PHD: PHD-finger; Int 75.9 0.61 1.3E-05 23.9 -0.6 43 71-113 1-49 (51)
138 TIGR00622 ssl1 transcription f 74.8 3.7 8.1E-05 25.2 2.6 44 70-113 56-110 (112)
139 smart00132 LIM Zinc-binding do 73.2 3.2 6.8E-05 19.4 1.7 38 71-117 1-38 (39)
140 KOG4185 Predicted E3 ubiquitin 72.9 0.65 1.4E-05 32.9 -1.2 47 68-114 206-264 (296)
141 KOG0824 Predicted E3 ubiquitin 72.5 0.87 1.9E-05 32.6 -0.7 46 67-115 103-149 (324)
142 PF07191 zinc-ribbons_6: zinc- 72.1 0.24 5.3E-06 27.7 -2.8 39 70-116 2-40 (70)
143 smart00064 FYVE Protein presen 71.5 3.7 7.9E-05 22.3 1.9 35 69-103 10-45 (68)
144 PF05605 zf-Di19: Drought indu 70.4 3.1 6.7E-05 21.7 1.3 13 69-81 2-14 (54)
145 PF06906 DUF1272: Protein of u 70.0 9.5 0.00021 20.4 3.1 45 71-117 7-52 (57)
146 KOG3799 Rab3 effector RIM1 and 69.9 1.5 3.3E-05 27.8 0.1 50 65-114 61-115 (169)
147 COG4847 Uncharacterized protei 69.2 5.4 0.00012 23.7 2.3 37 68-105 5-41 (103)
148 COG3492 Uncharacterized protei 68.7 3.5 7.6E-05 24.3 1.4 12 93-104 42-53 (104)
149 PF04423 Rad50_zn_hook: Rad50 68.5 2.1 4.6E-05 22.4 0.5 9 108-116 22-30 (54)
150 PF14569 zf-UDP: Zinc-binding 68.1 9 0.0002 21.9 2.9 49 67-115 7-60 (80)
151 KOG3113 Uncharacterized conser 66.4 11 0.00024 26.6 3.7 47 68-116 110-157 (293)
152 PRK11088 rrmA 23S rRNA methylt 65.6 4.1 8.8E-05 28.5 1.5 25 70-94 3-27 (272)
153 PF10497 zf-4CXXC_R1: Zinc-fin 65.0 9.9 0.00021 22.9 2.9 24 91-114 37-69 (105)
154 PF13240 zinc_ribbon_2: zinc-r 64.4 0.81 1.8E-05 19.8 -1.4 6 109-114 16-21 (23)
155 KOG3842 Adaptor protein Pellin 64.2 8.5 0.00018 28.1 2.9 49 68-116 340-413 (429)
156 PF10571 UPF0547: Uncharacteri 63.6 1.4 2.9E-05 19.7 -0.8 9 71-79 2-10 (26)
157 TIGR01562 FdhE formate dehydro 58.5 1.5 3.2E-05 31.6 -1.7 45 69-114 184-232 (305)
158 PLN02189 cellulose synthase 57.3 11 0.00024 31.7 2.7 48 68-115 33-85 (1040)
159 PF14311 DUF4379: Domain of un 57.1 5.5 0.00012 20.8 0.8 22 90-112 34-55 (55)
160 PF14169 YdjO: Cold-inducible 56.6 6 0.00013 21.4 0.8 11 107-117 40-50 (59)
161 PF00412 LIM: LIM domain; Int 56.0 5.2 0.00011 20.7 0.6 30 70-101 27-56 (58)
162 KOG2231 Predicted E3 ubiquitin 54.8 9.5 0.00021 30.5 2.0 43 71-116 2-51 (669)
163 PF07649 C1_3: C1-like domain; 54.7 6.8 0.00015 17.7 0.8 29 71-99 2-30 (30)
164 PF10083 DUF2321: Uncharacteri 54.4 11 0.00024 24.5 1.9 24 91-117 27-50 (158)
165 PLN02638 cellulose synthase A 53.4 14 0.00031 31.2 2.8 47 68-115 16-68 (1079)
166 COG4647 AcxC Acetone carboxyla 53.1 6.5 0.00014 24.8 0.7 22 73-97 61-82 (165)
167 PLN02436 cellulose synthase A 52.5 14 0.00031 31.2 2.7 48 68-115 35-87 (1094)
168 PRK03564 formate dehydrogenase 52.0 4.1 8.8E-05 29.5 -0.4 45 68-114 186-234 (309)
169 KOG2979 Protein involved in DN 51.9 9.7 0.00021 26.8 1.5 41 70-112 177-219 (262)
170 KOG4218 Nuclear hormone recept 50.8 14 0.00031 27.3 2.2 22 68-90 14-35 (475)
171 smart00647 IBR In Between Ring 50.5 2.4 5.1E-05 22.5 -1.4 18 85-102 40-58 (64)
172 PF09943 DUF2175: Uncharacteri 50.4 13 0.00028 22.4 1.7 34 70-104 3-36 (101)
173 PF02318 FYVE_2: FYVE-type zin 49.2 5.9 0.00013 24.3 0.1 46 68-114 53-102 (118)
174 KOG2071 mRNA cleavage and poly 49.2 7.8 0.00017 30.4 0.7 37 67-103 511-557 (579)
175 KOG2041 WD40 repeat protein [G 48.6 17 0.00036 29.8 2.5 48 65-116 1127-1184(1189)
176 PRK01343 zinc-binding protein; 47.4 12 0.00026 20.1 1.1 11 106-116 9-19 (57)
177 KOG3726 Uncharacterized conser 47.2 11 0.00023 30.3 1.2 40 70-112 655-695 (717)
178 PLN02195 cellulose synthase A 46.0 21 0.00046 29.9 2.8 47 68-115 5-57 (977)
179 COG3813 Uncharacterized protei 45.6 18 0.00038 20.5 1.6 25 91-117 28-52 (84)
180 PF14353 CpXC: CpXC protein 45.1 25 0.00054 21.6 2.5 12 70-81 2-13 (128)
181 PF10235 Cript: Microtubule-as 44.0 17 0.00037 21.4 1.5 37 69-117 44-80 (90)
182 KOG1245 Chromatin remodeling c 42.8 10 0.00022 33.0 0.6 46 70-115 1109-1158(1404)
183 PLN02400 cellulose synthase 42.1 20 0.00043 30.4 2.0 47 68-115 35-87 (1085)
184 PRK11595 DNA utilization prote 40.2 26 0.00056 23.9 2.2 8 71-78 7-14 (227)
185 PF13717 zinc_ribbon_4: zinc-r 39.9 13 0.00028 17.8 0.5 11 71-81 4-14 (36)
186 PF13719 zinc_ribbon_5: zinc-r 39.6 15 0.00031 17.6 0.6 11 71-81 4-14 (37)
187 PF12773 DZR: Double zinc ribb 39.2 20 0.00043 18.1 1.1 8 108-115 31-38 (50)
188 KOG2113 Predicted RNA binding 38.9 38 0.00082 24.8 2.8 42 69-115 343-385 (394)
189 PF07503 zf-HYPF: HypF finger; 38.9 29 0.00063 16.5 1.6 19 95-113 2-28 (35)
190 KOG1729 FYVE finger containing 38.8 5 0.00011 28.7 -1.5 35 70-104 215-249 (288)
191 KOG4323 Polycomb-like PHD Zn-f 38.8 23 0.00049 27.2 1.8 34 70-103 169-204 (464)
192 PF10146 zf-C4H2: Zinc finger- 38.4 26 0.00056 24.3 1.9 23 93-115 195-217 (230)
193 smart00734 ZnF_Rad18 Rad18-lik 37.3 16 0.00034 16.1 0.5 8 108-115 3-10 (26)
194 KOG1512 PHD Zn-finger protein 36.6 11 0.00025 27.0 -0.0 31 70-100 315-345 (381)
195 PLN02915 cellulose synthase A 36.4 41 0.00089 28.6 3.0 48 68-115 14-66 (1044)
196 KOG1244 Predicted transcriptio 36.1 4.9 0.00011 28.6 -1.9 45 70-114 282-330 (336)
197 PF06221 zf-C2HC5: Putative zi 35.3 25 0.00055 18.8 1.2 26 86-117 20-46 (57)
198 PF09237 GAGA: GAGA factor; I 34.5 14 0.00031 19.4 0.1 6 109-114 27-32 (54)
199 KOG4451 Uncharacterized conser 33.9 36 0.00077 23.8 2.0 24 92-115 249-272 (286)
200 COG5627 MMS21 DNA repair prote 33.4 22 0.00047 24.9 0.9 40 69-111 189-231 (275)
201 PF06750 DiS_P_DiS: Bacterial 32.6 39 0.00085 19.8 1.8 18 100-117 52-69 (92)
202 KOG1842 FYVE finger-containing 32.3 17 0.00036 27.8 0.2 36 67-102 178-214 (505)
203 PF13832 zf-HC5HC2H_2: PHD-zin 31.9 40 0.00087 20.0 1.8 33 68-102 54-88 (110)
204 PLN02248 cellulose synthase-li 31.4 47 0.001 28.5 2.6 27 89-115 149-175 (1135)
205 PF09538 FYDLN_acid: Protein o 31.1 32 0.00068 20.9 1.3 29 69-97 9-39 (108)
206 smart00290 ZnF_UBP Ubiquitin C 30.3 31 0.00068 17.2 1.0 22 72-96 2-23 (50)
207 cd00729 rubredoxin_SM Rubredox 30.3 36 0.00078 16.0 1.1 7 108-114 20-26 (34)
208 PF15353 HECA: Headcase protei 30.1 43 0.00092 20.4 1.7 15 89-103 39-53 (107)
209 PF09297 zf-NADH-PPase: NADH p 30.0 5.9 0.00013 18.3 -1.6 11 92-102 3-13 (32)
210 cd00730 rubredoxin Rubredoxin; 28.9 72 0.0016 16.5 2.2 11 71-81 3-13 (50)
211 KOG1356 Putative transcription 28.4 16 0.00034 30.1 -0.5 33 70-103 230-262 (889)
212 PF01485 IBR: IBR domain; Int 28.4 2.9 6.2E-05 22.1 -3.4 32 71-102 20-58 (64)
213 KOG1818 Membrane trafficking a 28.0 22 0.00049 28.3 0.3 38 66-103 161-200 (634)
214 PF13913 zf-C2HC_2: zinc-finge 27.6 24 0.00052 15.3 0.2 7 109-115 5-11 (25)
215 COG2835 Uncharacterized conser 27.4 28 0.00061 18.9 0.5 10 107-116 9-18 (60)
216 smart00109 C1 Protein kinase C 27.2 66 0.0014 15.5 1.9 34 69-102 11-45 (49)
217 PF03119 DNA_ligase_ZBD: NAD-d 26.1 24 0.00053 15.8 0.1 8 109-116 2-9 (28)
218 PRK11827 hypothetical protein; 26.0 22 0.00048 19.2 -0.0 10 107-116 9-18 (60)
219 KOG1819 FYVE finger-containing 25.6 27 0.00058 27.4 0.3 33 69-101 901-934 (990)
220 KOG3475 60S ribosomal protein 25.6 45 0.00098 19.4 1.2 26 90-115 14-40 (92)
221 KOG2462 C2H2-type Zn-finger pr 25.3 38 0.00082 24.2 1.0 9 108-116 217-225 (279)
222 PF07227 DUF1423: Protein of u 25.1 47 0.001 25.4 1.5 33 70-103 129-165 (446)
223 PRK04023 DNA polymerase II lar 24.7 41 0.00088 28.6 1.2 47 65-117 622-674 (1121)
224 KOG1973 Chromatin remodeling p 24.4 12 0.00026 26.5 -1.6 26 90-115 240-268 (274)
225 COG4306 Uncharacterized protei 24.0 37 0.0008 21.4 0.7 21 93-116 29-49 (160)
226 KOG0956 PHD finger protein AF1 23.7 54 0.0012 26.7 1.6 30 85-114 41-70 (900)
227 PF13771 zf-HC5HC2H: PHD-like 23.4 31 0.00068 19.6 0.3 34 68-101 35-68 (90)
228 KOG1701 Focal adhesion adaptor 23.3 7 0.00015 29.5 -3.0 11 70-80 303-313 (468)
229 COG4357 Zinc finger domain con 22.9 88 0.0019 18.7 2.1 27 90-117 65-91 (105)
230 KOG1538 Uncharacterized conser 22.9 34 0.00073 27.9 0.4 26 90-115 1050-1075(1081)
231 KOG4275 Predicted E3 ubiquitin 22.8 65 0.0014 23.4 1.8 48 66-114 41-89 (350)
232 PF15446 zf-PHD-like: PHD/FYVE 22.6 50 0.0011 21.9 1.1 14 88-101 21-34 (175)
233 PF00096 zf-C2H2: Zinc finger, 22.4 34 0.00073 13.8 0.2 6 109-114 3-8 (23)
234 PF05502 Dynactin_p62: Dynacti 21.8 34 0.00073 26.4 0.3 12 70-81 27-38 (483)
235 PF06677 Auto_anti-p27: Sjogre 21.6 67 0.0015 15.9 1.2 15 101-115 12-26 (41)
236 PF14445 Prok-RING_2: Prokaryo 21.3 12 0.00027 19.5 -1.5 34 68-101 6-39 (57)
237 KOG4021 Mitochondrial ribosoma 20.6 54 0.0012 22.3 1.0 20 96-115 97-117 (239)
238 KOG4443 Putative transcription 20.4 35 0.00076 27.4 0.1 26 89-114 40-70 (694)
No 1
>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=99.68 E-value=8.6e-18 Score=86.91 Aligned_cols=44 Identities=48% Similarity=1.198 Sum_probs=39.7
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccC
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCR 113 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr 113 (118)
++|+||++.+..++.++.++|+|.||.+||.+|++.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 36999999998888889999999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.54 E-value=2.4e-15 Score=106.76 Aligned_cols=48 Identities=31% Similarity=0.996 Sum_probs=44.1
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCc-ccccCcccC
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNS-CPVCRSGVI 117 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~-CP~Cr~~~~ 117 (118)
..|.||+|.|..++..++|||+|.||..||++|+...++ ||+|++.+.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 489999999999999999999999999999999987765 999998764
No 3
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=1.9e-14 Score=99.09 Aligned_cols=57 Identities=33% Similarity=0.832 Sum_probs=49.4
Q ss_pred cccCCCCccCccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 58 TVSSLPTVAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 58 ~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
.....+........|.+|++.... +..+||||+||+.||..|...+..||+||..+.
T Consensus 228 ~s~~~~~i~~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 228 DSNSLSSIPEATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred hccCCccCCCCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 334455566777999999999877 999999999999999999999999999998765
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.48 E-value=3.1e-14 Score=81.06 Aligned_cols=48 Identities=38% Similarity=0.924 Sum_probs=37.1
Q ss_pred cCccccccccccccccC---------CC-ceeeCCCChhhHHHHHHHhhCCCcccccC
Q 033497 66 AATEGRCTVCMENFLQA---------FP-GKQVPCGHVFHATCISTWISLSNSCPVCR 113 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~---------~~-~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr 113 (118)
...+..|+||++.+... .. +...+|||.||..||.+|++.+.+||+||
T Consensus 16 ~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 16 DIADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 33455699999999431 12 34457999999999999999999999998
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.47 E-value=3.3e-14 Score=96.96 Aligned_cols=51 Identities=37% Similarity=0.867 Sum_probs=41.9
Q ss_pred CccccccccccccccCCC-----ceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 67 ATEGRCTVCMENFLQAFP-----GKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~-----~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
..+.+|+||++.+..+.. +++.+|+|.||..||.+|++.+.+||+||..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 345789999999765321 245579999999999999999999999999875
No 6
>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=99.45 E-value=5.5e-14 Score=74.46 Aligned_cols=46 Identities=30% Similarity=0.839 Sum_probs=40.5
Q ss_pred cccccccccccccCCCceeeCCCCh-hhHHHHHHHhhCCCcccccCcccC
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHV-FHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
+..|.||++.... +..+||||. ||..|+.+|++....||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5679999999777 899999999 999999999999999999999874
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.41 E-value=3.3e-13 Score=88.91 Aligned_cols=47 Identities=32% Similarity=0.814 Sum_probs=40.0
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHHHhhC----------------CCcccccCcccC
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISL----------------SNSCPVCRSGVI 117 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~----------------~~~CP~Cr~~~~ 117 (118)
++..|+||++.+.. +++++|||.||+.||.+|+.. ...||.||..+.
T Consensus 17 ~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 17 GDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 46889999999877 888999999999999999742 236999998764
No 8
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.40 E-value=1.4e-13 Score=97.75 Aligned_cols=52 Identities=35% Similarity=1.079 Sum_probs=44.7
Q ss_pred cCcccccccccccccc-C---------CCceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 66 AATEGRCTVCMENFLQ-A---------FPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~-~---------~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
...+..|.||+|++.. + ..+..+||||.+|..|++.|++++.+||+||.++.
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 5677899999999543 2 34688999999999999999999999999999864
No 9
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.37 E-value=3.6e-13 Score=68.67 Aligned_cols=38 Identities=34% Similarity=0.945 Sum_probs=30.4
Q ss_pred ccccccccccCCCceeeCCCChhhHHHHHHHhhCC----Cccccc
Q 033497 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWISLS----NSCPVC 112 (118)
Q Consensus 72 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~----~~CP~C 112 (118)
|+||++.|.+ ++.++|||.||..||.+|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999999 9999999999999999999643 359987
No 10
>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=99.36 E-value=3.7e-13 Score=67.67 Aligned_cols=38 Identities=34% Similarity=1.045 Sum_probs=33.0
Q ss_pred ccccccccccCCCc-eeeCCCChhhHHHHHHHhhCCCccccc
Q 033497 72 CTVCMENFLQAFPG-KQVPCGHVFHATCISTWISLSNSCPVC 112 (118)
Q Consensus 72 C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~~~~~~~~CP~C 112 (118)
|+||++.+.+ + +.++|||.||..|+.+|++.+..||+|
T Consensus 1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC---cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999887 6 678899999999999999988899987
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.32 E-value=2.7e-12 Score=83.01 Aligned_cols=49 Identities=29% Similarity=0.768 Sum_probs=41.4
Q ss_pred CccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 67 ATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
+..+.|+|||+.+.+. .++...|||.||..||+..++....||+|++.+
T Consensus 129 ~~~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkI 177 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKI 177 (187)
T ss_pred ccccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence 4448999999998762 235577999999999999999999999999765
No 12
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=1e-12 Score=91.27 Aligned_cols=51 Identities=37% Similarity=0.970 Sum_probs=45.4
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHHHhh-CCCcccccCcccCC
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS-LSNSCPVCRSGVIA 118 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~-~~~~CP~Cr~~~~~ 118 (118)
...+|.||++.|...++.+.+||.|.||..|+.+|+. -+..||.||.++++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3478999999999888899999999999999999997 55579999999874
No 13
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.29 E-value=3.4e-12 Score=65.76 Aligned_cols=44 Identities=30% Similarity=0.873 Sum_probs=38.1
Q ss_pred cccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCc
Q 033497 71 RCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 71 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
.|+||++.+.....+.+++|||+||..|+..+......||+||+
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 48999999965666888999999999999999866678999985
No 14
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.28 E-value=2.2e-12 Score=86.59 Aligned_cols=49 Identities=29% Similarity=0.722 Sum_probs=41.6
Q ss_pred ccCccccccccccccccCCCceeeCCCChhhHHHHHHHhhC---CCcccccCccc
Q 033497 65 VAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISL---SNSCPVCRSGV 116 (118)
Q Consensus 65 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~---~~~CP~Cr~~~ 116 (118)
.+...+.|-||++.-.+ +++..|||.||+-||-+|+.. .+.||+|+..+
T Consensus 43 ~~~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~V 94 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEV 94 (230)
T ss_pred CCCCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCcccccc
Confidence 35567899999999777 999999999999999999963 34599999865
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=99.25 E-value=5.2e-12 Score=84.50 Aligned_cols=51 Identities=31% Similarity=0.786 Sum_probs=38.5
Q ss_pred cCccccccccccccccC-----C-CceeeCCCChhhHHHHHHHhhCC------CcccccCccc
Q 033497 66 AATEGRCTVCMENFLQA-----F-PGKQVPCGHVFHATCISTWISLS------NSCPVCRSGV 116 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~-----~-~~~~~~C~H~f~~~Ci~~~~~~~------~~CP~Cr~~~ 116 (118)
...+.+|+||+|..... . ..++.+|+|.||..||..|...+ ++||+||..+
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 34568899999987442 1 13445699999999999998643 3599999865
No 16
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.25 E-value=8.4e-12 Score=72.04 Aligned_cols=49 Identities=31% Similarity=0.681 Sum_probs=38.1
Q ss_pred cccccccccccccc---------CCCceee-CCCChhhHHHHHHHhhC---CCcccccCccc
Q 033497 68 TEGRCTVCMENFLQ---------AFPGKQV-PCGHVFHATCISTWISL---SNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~~---------~~~~~~~-~C~H~f~~~Ci~~~~~~---~~~CP~Cr~~~ 116 (118)
+++.|+||...|.. ++.+..+ .|+|.||..||.+|+.. +..||+||++.
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 47789999998863 2334333 59999999999999974 45799999875
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=99.25 E-value=7.6e-12 Score=64.04 Aligned_cols=44 Identities=43% Similarity=1.222 Sum_probs=35.6
Q ss_pred cccccccccccCCCceeeCCCChhhHHHHHHHhhC-CCcccccCccc
Q 033497 71 RCTVCMENFLQAFPGKQVPCGHVFHATCISTWISL-SNSCPVCRSGV 116 (118)
Q Consensus 71 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~-~~~CP~Cr~~~ 116 (118)
.|+||++.+.. .....+|+|.||..|+..|+.. +..||.||..+
T Consensus 1 ~C~iC~~~~~~--~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 49999999843 2344459999999999999986 67799999764
No 18
>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=99.20 E-value=8.8e-12 Score=63.19 Aligned_cols=38 Identities=39% Similarity=1.130 Sum_probs=33.5
Q ss_pred ccccccccccCCCce-eeCCCChhhHHHHHHHhh--CCCccccc
Q 033497 72 CTVCMENFLQAFPGK-QVPCGHVFHATCISTWIS--LSNSCPVC 112 (118)
Q Consensus 72 C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~~~~--~~~~CP~C 112 (118)
|+||++.+.. +. .++|||.||..|+.+|++ ....||.|
T Consensus 1 C~iC~~~~~~---~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED---PVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS---EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC---CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 8999999887 66 888999999999999998 55579987
No 19
>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=99.18 E-value=2.3e-11 Score=67.09 Aligned_cols=44 Identities=18% Similarity=0.416 Sum_probs=40.5
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
..|+||.+.+.+ ++.++|||.|+..||.+|++.+..||.|+..+
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence 569999999988 88899999999999999998888999999876
No 20
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=1.5e-11 Score=93.19 Aligned_cols=51 Identities=33% Similarity=1.015 Sum_probs=44.3
Q ss_pred cCccccccccccccccCCC--ceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 66 AATEGRCTVCMENFLQAFP--GKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~--~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
...+..|.||+|.+..... +..++|+|+||..|+..|+++..+||+||..+
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 3456889999999987544 78899999999999999999999999999843
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=99.13 E-value=7.7e-11 Score=58.30 Aligned_cols=38 Identities=39% Similarity=1.205 Sum_probs=32.9
Q ss_pred ccccccccccCCCceeeCCCChhhHHHHHHHhh-CCCccccc
Q 033497 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWIS-LSNSCPVC 112 (118)
Q Consensus 72 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~-~~~~CP~C 112 (118)
|+||++.... +..++|+|.||..|+..|+. .+..||.|
T Consensus 1 C~iC~~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKD---PVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCC---cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899988544 88899999999999999998 66679987
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.12 E-value=4.6e-11 Score=86.90 Aligned_cols=48 Identities=31% Similarity=0.666 Sum_probs=42.6
Q ss_pred cCccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 66 AATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
......|+||++.|.. +++++|||.||..||..|+.....||.||..+
T Consensus 23 Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~ 70 (397)
T TIGR00599 23 LDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAED 70 (397)
T ss_pred cccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence 3456899999999987 78899999999999999998888899999865
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.11 E-value=5.1e-11 Score=81.44 Aligned_cols=57 Identities=30% Similarity=0.775 Sum_probs=47.3
Q ss_pred cccCCCCccCccccccccccccccCCCceeeCCCChhhHHHHHH-HhhCCCc-ccccCcccC
Q 033497 58 TVSSLPTVAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCIST-WISLSNS-CPVCRSGVI 117 (118)
Q Consensus 58 ~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~-~~~~~~~-CP~Cr~~~~ 117 (118)
....++-....++.|.||++.... +..++|||+||+.||.. |-..+.. ||+||+...
T Consensus 204 ~kn~~pfip~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 204 KKNGLPFIPLADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccccCCcccccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 444555566788999999999877 99999999999999999 8766666 999998753
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.01 E-value=2.9e-10 Score=64.27 Aligned_cols=47 Identities=26% Similarity=0.639 Sum_probs=36.7
Q ss_pred cccccccccccc------------CCCceeeC-CCChhhHHHHHHHhhCCCcccccCccc
Q 033497 70 GRCTVCMENFLQ------------AFPGKQVP-CGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~------------~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
+.|.||...+.. ++.++... |.|.||..||.+|+..+..||++|++.
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 567777766542 23344444 999999999999999999999999875
No 25
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=1.9e-10 Score=84.81 Aligned_cols=45 Identities=33% Similarity=0.857 Sum_probs=38.5
Q ss_pred cccccccccccccCCCceeeCCCChhhHHHHHHHhhC-----CCcccccCccc
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISL-----SNSCPVCRSGV 116 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~-----~~~CP~Cr~~~ 116 (118)
+..||||++.... +..+.|||+||..||.++|.. ...||+||..+
T Consensus 186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 7899999999776 788889999999999999853 34699999765
No 26
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.99 E-value=2.1e-10 Score=81.00 Aligned_cols=46 Identities=35% Similarity=0.775 Sum_probs=42.5
Q ss_pred cccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
-++|.||.+.|.. +.+.||+|.||.-||+.++..+..||.|+.++.
T Consensus 23 lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 23 LLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccc
Confidence 3889999999998 999999999999999999999999999988653
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.97 E-value=3.7e-10 Score=57.62 Aligned_cols=38 Identities=39% Similarity=0.911 Sum_probs=22.9
Q ss_pred cccccccccc-CCCceeeCCCChhhHHHHHHHhhCC----Cccc
Q 033497 72 CTVCMENFLQ-AFPGKQVPCGHVFHATCISTWISLS----NSCP 110 (118)
Q Consensus 72 C~IC~~~~~~-~~~~~~~~C~H~f~~~Ci~~~~~~~----~~CP 110 (118)
|+||.+ +.. .+.++.|+|||.||.+|+.++.+.. ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 644 5667889999999999999998743 3476
No 28
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=5.8e-10 Score=62.55 Aligned_cols=49 Identities=31% Similarity=0.678 Sum_probs=38.0
Q ss_pred cccccccccccccc---------CCCceeeC-CCChhhHHHHHHHhhCC---CcccccCccc
Q 033497 68 TEGRCTVCMENFLQ---------AFPGKQVP-CGHVFHATCISTWISLS---NSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~~---------~~~~~~~~-C~H~f~~~Ci~~~~~~~---~~CP~Cr~~~ 116 (118)
.+..|.||.-.|.. ++.+.++. |.|.||..||.+|+... ..||+||+..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 44589999888753 45566555 99999999999999643 3599999865
No 29
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.83 E-value=3.2e-09 Score=73.80 Aligned_cols=45 Identities=31% Similarity=0.685 Sum_probs=41.6
Q ss_pred cccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
-++|.||-+.+.. +...+|||.||.-||+..+..+..||+||.+.
T Consensus 25 ~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 25 MLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred HHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccH
Confidence 3789999999988 88999999999999999999999999999864
No 30
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.81 E-value=4.3e-09 Score=59.83 Aligned_cols=47 Identities=21% Similarity=0.432 Sum_probs=38.5
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHHHhhC-CCcccccCcccC
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISL-SNSCPVCRSGVI 117 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~-~~~CP~Cr~~~~ 117 (118)
+.+.|+|+.+.|.+ ++++++||.|...+|.+|+.. ...||+++.++.
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 56889999999999 999999999999999999988 788999988764
No 31
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=7.7e-09 Score=61.29 Aligned_cols=54 Identities=26% Similarity=0.578 Sum_probs=39.9
Q ss_pred CCCccCcccccccccccccc-------------CCCceeeC-CCChhhHHHHHHHhhCCCcccccCcc
Q 033497 62 LPTVAATEGRCTVCMENFLQ-------------AFPGKQVP-CGHVFHATCISTWISLSNSCPVCRSG 115 (118)
Q Consensus 62 ~~~~~~~~~~C~IC~~~~~~-------------~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~ 115 (118)
+-.-+...+.|.||...+.+ ++..+... |.|.||..||.+|++.+..||+|.+.
T Consensus 39 lWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 39 LWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 33345666889999766532 12233333 99999999999999999999999764
No 32
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=4.5e-09 Score=72.29 Aligned_cols=56 Identities=32% Similarity=0.775 Sum_probs=42.9
Q ss_pred CCCCccCccccccccccccccCC-------CceeeCCCChhhHHHHHHHh--hCCCcccccCccc
Q 033497 61 SLPTVAATEGRCTVCMENFLQAF-------PGKQVPCGHVFHATCISTWI--SLSNSCPVCRSGV 116 (118)
Q Consensus 61 ~~~~~~~~~~~C~IC~~~~~~~~-------~~~~~~C~H~f~~~Ci~~~~--~~~~~CP~Cr~~~ 116 (118)
.+|....++..|.||-..+.... ....+.|+|.||+.||+.|- ..+.+||.|+..+
T Consensus 216 glPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 216 GLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 34444556778999988876543 45678999999999999996 4666899998754
No 33
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=6.1e-09 Score=72.62 Aligned_cols=45 Identities=38% Similarity=0.828 Sum_probs=40.1
Q ss_pred cCccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccC
Q 033497 66 AATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCR 113 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr 113 (118)
..+...|+||++.|.. +.+++|+|.||..|+..++.....||.||
T Consensus 10 ~~~~~~C~iC~~~~~~---p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 10 LQEELTCPICLEYFRE---PVLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccccccChhhHHHhhc---CccccccchHhHHHHHHhcCCCcCCcccC
Confidence 4567889999999998 68899999999999999988556799998
No 34
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=4.6e-09 Score=55.27 Aligned_cols=46 Identities=28% Similarity=0.704 Sum_probs=38.2
Q ss_pred ccccccccccccccCCCceeeCCCCh-hhHHHHHHHhh-CCCcccccCccc
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHV-FHATCISTWIS-LSNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~~~~-~~~~CP~Cr~~~ 116 (118)
.+.+|.||+|...+ .++..|||. +|..|..+.++ .+..||+||+++
T Consensus 6 ~~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 6 WSDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred cccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 34789999998766 677789998 89999888776 666899999876
No 35
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.71 E-value=1.6e-09 Score=78.13 Aligned_cols=47 Identities=34% Similarity=0.870 Sum_probs=39.1
Q ss_pred CccccccccccccccCCCceeeCCCChhhHHHHHHHhh--CCCcccccCccc
Q 033497 67 ATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS--LSNSCPVCRSGV 116 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~--~~~~CP~Cr~~~ 116 (118)
..-..|.||-|.-.+ +.+-||||..|..|+..|-. ...+||+||..+
T Consensus 367 sTFeLCKICaendKd---vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 367 STFELCKICAENDKD---VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred chHHHHHHhhccCCC---cccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 344789999988555 88999999999999999973 356899999865
No 36
>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=98.67 E-value=1.9e-08 Score=70.94 Aligned_cols=49 Identities=22% Similarity=0.514 Sum_probs=34.8
Q ss_pred cccccccccccc--ccCCCceeeCCCChhhHHHHHHHhh-CCCcccccCccc
Q 033497 68 TEGRCTVCMENF--LQAFPGKQVPCGHVFHATCISTWIS-LSNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~--~~~~~~~~~~C~H~f~~~Ci~~~~~-~~~~CP~Cr~~~ 116 (118)
++..||+|...- .......+-+|||.||.+|+...+. ....||.|+..+
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~l 53 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPL 53 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCcc
Confidence 346799999853 2222122226999999999999764 455799998765
No 37
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.65 E-value=3.3e-08 Score=51.87 Aligned_cols=42 Identities=24% Similarity=0.721 Sum_probs=31.9
Q ss_pred cccccccccccCCCceeeCCC-----ChhhHHHHHHHhhC--CCcccccC
Q 033497 71 RCTVCMENFLQAFPGKQVPCG-----HVFHATCISTWISL--SNSCPVCR 113 (118)
Q Consensus 71 ~C~IC~~~~~~~~~~~~~~C~-----H~f~~~Ci~~~~~~--~~~CP~Cr 113 (118)
.|.||++ ...+..+.+.||. |.+|.+|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3899998 3334446677874 88999999999954 44799995
No 38
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=2.6e-08 Score=73.60 Aligned_cols=53 Identities=28% Similarity=0.716 Sum_probs=40.4
Q ss_pred cCccccccccccccccCC--------------CceeeCCCChhhHHHHHHHhhCCC-cccccCcccCC
Q 033497 66 AATEGRCTVCMENFLQAF--------------PGKQVPCGHVFHATCISTWISLSN-SCPVCRSGVIA 118 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~--------------~~~~~~C~H~f~~~Ci~~~~~~~~-~CP~Cr~~~~~ 118 (118)
......|.||+..+..-. .-...||.|+||..|+..|....+ .||.||.++++
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 345577999998875310 012458999999999999998555 89999999874
No 39
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=2.7e-08 Score=70.82 Aligned_cols=48 Identities=23% Similarity=0.690 Sum_probs=41.9
Q ss_pred CccccccccccccccCCCceeeCCCCh-hhHHHHHHHhhCCCcccccCcccC
Q 033497 67 ATEGRCTVCMENFLQAFPGKQVPCGHV-FHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
....+|-||+....+ ..+|||.|. .|..|.+...-.++.||+||+++.
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 335789999999777 999999999 999999988777889999999874
No 40
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.59 E-value=2.4e-08 Score=72.86 Aligned_cols=50 Identities=34% Similarity=0.806 Sum_probs=39.2
Q ss_pred ccCccccccccccccccCCCc-eeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 65 VAATEGRCTVCMENFLQAFPG-KQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 65 ~~~~~~~C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
...+-.+|++|+|.+..+... +...|.|.||..|+.+|.. .+||+||...
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q 221 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQ 221 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhc
Confidence 345567899999999875433 3445999999999999954 7899999743
No 41
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.58 E-value=5.6e-09 Score=58.86 Aligned_cols=49 Identities=33% Similarity=0.718 Sum_probs=22.1
Q ss_pred cccccccccccc-cCCCce-ee---CCCChhhHHHHHHHhhC---CC--------cccccCcccC
Q 033497 69 EGRCTVCMENFL-QAFPGK-QV---PCGHVFHATCISTWISL---SN--------SCPVCRSGVI 117 (118)
Q Consensus 69 ~~~C~IC~~~~~-~~~~~~-~~---~C~H~f~~~Ci~~~~~~---~~--------~CP~Cr~~~~ 117 (118)
+..|.||+..+. .+..+. .. .|+..||..||.+|+.. .+ .||.|+.+|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 457999999876 322222 22 49999999999999851 11 4999998763
No 42
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=3.4e-08 Score=75.99 Aligned_cols=46 Identities=28% Similarity=0.676 Sum_probs=40.6
Q ss_pred cccccccccccccCCCceeeCCCChhhHHHHHHHhh-CCCcccccCcccC
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS-LSNSCPVCRSGVI 117 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~-~~~~CP~Cr~~~~ 117 (118)
-..|+.|-+.+.+ .++..|+|.||..|+...+. +++.||.|...|-
T Consensus 643 ~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFG 689 (698)
T ss_pred ceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence 3789999988888 88889999999999999886 6678999998875
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.50 E-value=1.6e-08 Score=55.25 Aligned_cols=44 Identities=30% Similarity=0.757 Sum_probs=23.6
Q ss_pred ccccccccccccccCCCcee-eCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 68 TEGRCTVCMENFLQAFPGKQ-VPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~-~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
+-..|++|.+.+.+ ++. ..|.|.||..||..-+. ..||+|+.+.
T Consensus 6 ~lLrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 6 ELLRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp HTTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred HhcCCcHHHHHhcC---CceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 34689999999988 765 45999999999987544 4599998764
No 44
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=6.7e-08 Score=69.57 Aligned_cols=45 Identities=29% Similarity=0.961 Sum_probs=34.6
Q ss_pred ccccccccccccCCCceeeC-CCChhhHHHHHHHhh---CCCcccccCc
Q 033497 70 GRCTVCMENFLQAFPGKQVP-CGHVFHATCISTWIS---LSNSCPVCRS 114 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~---~~~~CP~Cr~ 114 (118)
..|.||.+-+.......... |||+||..|+.+|+. .++.||+|+-
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence 46999966665544444444 999999999999996 3467999983
No 45
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=2e-08 Score=71.37 Aligned_cols=50 Identities=24% Similarity=0.560 Sum_probs=40.3
Q ss_pred cCccccccccccccccCCCceeeC-CCChhhHHHHHHHhh-CCCcccccCcccCC
Q 033497 66 AATEGRCTVCMENFLQAFPGKQVP-CGHVFHATCISTWIS-LSNSCPVCRSGVIA 118 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~-~~~~CP~Cr~~~~~ 118 (118)
...+..|+||++.+.. ....+ |.|.||.+||..-++ .++.||.||+.+.+
T Consensus 40 ~~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 4456889999999876 44444 999999999988775 66689999997653
No 46
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.43 E-value=1.1e-07 Score=68.28 Aligned_cols=50 Identities=36% Similarity=0.780 Sum_probs=37.9
Q ss_pred CccccccccccccccCC-----CceeeCCCChhhHHHHHHHhh--C-----CCcccccCccc
Q 033497 67 ATEGRCTVCMENFLQAF-----PGKQVPCGHVFHATCISTWIS--L-----SNSCPVCRSGV 116 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~-----~~~~~~C~H~f~~~Ci~~~~~--~-----~~~CP~Cr~~~ 116 (118)
..+..|.||++...... -.++.+|.|.||..||..|-. + .+.||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 55788999999987633 122345999999999999983 3 45799999753
No 47
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=1.8e-07 Score=65.36 Aligned_cols=47 Identities=23% Similarity=0.440 Sum_probs=39.1
Q ss_pred cccccccccccccCCCceeeCCCChhhHHHHHHHhh-CCCcccccCcccCC
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS-LSNSCPVCRSGVIA 118 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~-~~~~CP~Cr~~~~~ 118 (118)
+..|.||+..... ++.++|+|.||.-||+-... .+++|++||.++.+
T Consensus 7 ~~eC~IC~nt~n~---Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNTGNC---PVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeeccCCc---CccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 4569999887655 89999999999999998765 55569999998753
No 48
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.35 E-value=1.6e-07 Score=74.14 Aligned_cols=51 Identities=25% Similarity=0.774 Sum_probs=37.5
Q ss_pred Ccccccccccccccc-CC--C-ceeeCCCChhhHHHHHHHhh--CCCcccccCcccC
Q 033497 67 ATEGRCTVCMENFLQ-AF--P-GKQVPCGHVFHATCISTWIS--LSNSCPVCRSGVI 117 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~-~~--~-~~~~~C~H~f~~~Ci~~~~~--~~~~CP~Cr~~~~ 117 (118)
++..+|+||+..+.- +. . .+.-.|.|.||..|+-+|++ .+.+||+||..+.
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 445889999987762 11 1 12234999999999999997 4557999998764
No 49
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=9.8e-07 Score=64.63 Aligned_cols=52 Identities=29% Similarity=0.749 Sum_probs=44.8
Q ss_pred CCccCccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 63 PTVAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 63 ~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
+.....++.|.||+..+.. ++.+||||.||..||.+.+.....||.||..+.
T Consensus 78 ~~~~~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 78 PEEIRSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred CccccchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCcccccccc
Confidence 3344677999999999888 888899999999999998887778999998765
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.5e-06 Score=63.10 Aligned_cols=46 Identities=26% Similarity=0.897 Sum_probs=36.1
Q ss_pred ccccccccccccc--CCCceeeCCCChhhHHHHHHHhh--CCCcccccCc
Q 033497 69 EGRCTVCMENFLQ--AFPGKQVPCGHVFHATCISTWIS--LSNSCPVCRS 114 (118)
Q Consensus 69 ~~~C~IC~~~~~~--~~~~~~~~C~H~f~~~Ci~~~~~--~~~~CP~Cr~ 114 (118)
...|+||++.+.. +.+.+.+.|||.|..+||.+|+. ....||.|..
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ 53 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSG 53 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCC
Confidence 4679999999865 34456778999999999999994 2225999965
No 51
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.98 E-value=1.4e-06 Score=67.78 Aligned_cols=48 Identities=23% Similarity=0.643 Sum_probs=39.6
Q ss_pred cccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
...|++|+-.+..+......+|+|.||..||..|-+...+||+||..|
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF 170 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF 170 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence 366888887776655555667999999999999999999999999755
No 52
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.92 E-value=6.3e-06 Score=61.90 Aligned_cols=91 Identities=20% Similarity=0.421 Sum_probs=64.1
Q ss_pred ccccCcccccCCCChHHHHhhhhcCCCCCCCCCCCCCCCCCCCccccccCCCCccCccccccccccccccCCCceeeCCC
Q 033497 12 NIVSGSPIIDESFNLDEALTMITNTSSTPPDQDQPKSHDGQTNSELTVSSLPTVAATEGRCTVCMENFLQAFPGKQVPCG 91 (118)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~ 91 (118)
.++..|.+.+...+...++...++...+|.-.... ....++....++..|.+|.+.-.+ .+...|.
T Consensus 490 tyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S-----------~~~n~~~enk~~~~C~lc~d~aed---~i~s~Ch 555 (791)
T KOG1002|consen 490 TYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYS-----------ANANLPDENKGEVECGLCHDPAED---YIESSCH 555 (791)
T ss_pred hHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeeh-----------hhcCCCccccCceeecccCChhhh---hHhhhhh
Confidence 34555667777777777777777777666443221 223344445566789999988666 7888899
Q ss_pred ChhhHHHHHHHhh-----CCCcccccCccc
Q 033497 92 HVFHATCISTWIS-----LSNSCPVCRSGV 116 (118)
Q Consensus 92 H~f~~~Ci~~~~~-----~~~~CP~Cr~~~ 116 (118)
|.||.-|+..+.. .+.+||.|-..+
T Consensus 556 H~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 556 HKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred HHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 9999999999874 345799997654
No 53
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.85 E-value=4.2e-06 Score=59.29 Aligned_cols=46 Identities=24% Similarity=0.670 Sum_probs=39.4
Q ss_pred ccccccccccccccCCCceeeC-CCChhhHHHHHHHhhCCCcccccCccc
Q 033497 68 TEGRCTVCMENFLQAFPGKQVP-CGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
....|.+|-..|.+ +..+. |-|.||.+||.+.+...+.||.|...+
T Consensus 14 ~~itC~LC~GYliD---ATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 14 PHITCRLCGGYLID---ATTITECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred cceehhhccceeec---chhHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence 34679999999988 66555 999999999999999999999997644
No 54
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.84 E-value=9.2e-06 Score=59.75 Aligned_cols=48 Identities=33% Similarity=0.707 Sum_probs=41.7
Q ss_pred cCccccccccccccccCCCcee-eCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 66 AATEGRCTVCMENFLQAFPGKQ-VPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~-~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
..++..|+||...+.+ +.. ..|||.||..|+..|+..+..||.|+..+
T Consensus 18 ~~~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~ 66 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQEL 66 (391)
T ss_pred CcccccCccccccccC---CCCCCCCCCcccccccchhhccCcCCccccccc
Confidence 4567889999999887 666 58999999999999999888999998754
No 55
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=1.5e-05 Score=57.31 Aligned_cols=49 Identities=22% Similarity=0.580 Sum_probs=43.7
Q ss_pred cCccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 66 AATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
+.++..|+||+..... .+..||+|.-|..||.+-+...+.|=+|+..++
T Consensus 419 ~sEd~lCpICyA~pi~---Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPIN---AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CcccccCcceecccch---hhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 4678899999988766 889999999999999999999999999988764
No 56
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.72 E-value=1.5e-05 Score=52.98 Aligned_cols=43 Identities=23% Similarity=0.583 Sum_probs=38.6
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCcc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSG 115 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~ 115 (118)
+.|.||-..|.. ++...|||.||..|...-++....|-+|-+.
T Consensus 197 F~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 197 FLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred eeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 589999999998 8999999999999999888888889999654
No 57
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.71 E-value=1.2e-05 Score=56.57 Aligned_cols=34 Identities=24% Similarity=0.750 Sum_probs=31.2
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHh
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWI 103 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~ 103 (118)
-.|.||+.-|..+...+.++|-|.||..|+.+++
T Consensus 116 gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl 149 (368)
T KOG4445|consen 116 GQCVICLYGFASSPAFTVTACDHYMHFACLARYL 149 (368)
T ss_pred CceEEEEEeecCCCceeeehhHHHHHHHHHHHHH
Confidence 6799999999988878889999999999999987
No 58
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.71 E-value=1.2e-05 Score=58.37 Aligned_cols=48 Identities=33% Similarity=0.716 Sum_probs=37.7
Q ss_pred CccccccccccccccC-CCceeeCCCChhhHHHHHHHhhC--CCcccccCc
Q 033497 67 ATEGRCTVCMENFLQA-FPGKQVPCGHVFHATCISTWISL--SNSCPVCRS 114 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~-~~~~~~~C~H~f~~~Ci~~~~~~--~~~CP~Cr~ 114 (118)
+-+..|..|-+.+-.. +....+||.|+||.+|+..++.. .++||.||+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3457899999887653 33567899999999999999854 447999984
No 59
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=4.8e-05 Score=52.85 Aligned_cols=49 Identities=31% Similarity=0.591 Sum_probs=37.9
Q ss_pred cCccccccccccccccCCCce-eeCCCChhhHHHHHHHhh--CCCcccccCcccC
Q 033497 66 AATEGRCTVCMENFLQAFPGK-QVPCGHVFHATCISTWIS--LSNSCPVCRSGVI 117 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~~~~--~~~~CP~Cr~~~~ 117 (118)
...+.+|++|-+.... |. ..+|+|+||..||..-.. ...+||.|.....
T Consensus 236 ~t~~~~C~~Cg~~Pti---P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTI---PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCC---CeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 4566789999988666 54 456999999999998764 3468999987654
No 60
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=5.1e-06 Score=58.10 Aligned_cols=41 Identities=29% Similarity=0.740 Sum_probs=35.1
Q ss_pred cccccccccccccCCCceeeCCCCh-hhHHHHHHHhhCCCcccccCccc
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHV-FHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
+..|.||++...+ -+.|+|||. -|.+|.+.+ ..||+||+.+
T Consensus 300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkrm----~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKRM----NECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcc---eEEeecCcEEeehhhcccc----ccCchHHHHH
Confidence 5789999999877 899999998 789998765 4899999865
No 61
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.63 E-value=6.7e-05 Score=38.89 Aligned_cols=45 Identities=22% Similarity=0.490 Sum_probs=22.7
Q ss_pred ccccccccccCCC-ceeeCCCChhhHHHHHHHhh-CCCcccccCccc
Q 033497 72 CTVCMENFLQAFP-GKQVPCGHVFHATCISTWIS-LSNSCPVCRSGV 116 (118)
Q Consensus 72 C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~~~~-~~~~CP~Cr~~~ 116 (118)
|++|.+.+...+. ..--+|++.+|..|+...+. ....||-||.+.
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 7899999854332 22335899999999999886 567899999863
No 62
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.61 E-value=3.6e-05 Score=41.53 Aligned_cols=41 Identities=29% Similarity=0.668 Sum_probs=27.5
Q ss_pred ccccccccccccccCCCceee-CCCChhhHHHHHHHhhC--CCcccc
Q 033497 68 TEGRCTVCMENFLQAFPGKQV-PCGHVFHATCISTWISL--SNSCPV 111 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~~~~~--~~~CP~ 111 (118)
-...|+|-+..|.+ ++.- .|+|.|-.+.|.+|++. ...||.
T Consensus 10 ~~~~CPiT~~~~~~---PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFED---PVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SS---EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhC---CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 34789999999887 6654 69999999999999943 335998
No 63
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=4.2e-05 Score=53.64 Aligned_cols=44 Identities=25% Similarity=0.577 Sum_probs=39.4
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
+.|-||...|.. ++...|+|.||..|...-++....|.+|.+.+
T Consensus 242 f~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred cccccccccccc---chhhcCCceeehhhhccccccCCcceeccccc
Confidence 569999999998 99999999999999988888888899997654
No 64
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.35 E-value=0.0001 Score=38.18 Aligned_cols=40 Identities=28% Similarity=0.785 Sum_probs=26.4
Q ss_pred ccccccccccCCCceeeCC--CC---hhhHHHHHHHhh--CCCccccc
Q 033497 72 CTVCMENFLQAFPGKQVPC--GH---VFHATCISTWIS--LSNSCPVC 112 (118)
Q Consensus 72 C~IC~~~~~~~~~~~~~~C--~H---~f~~~Ci~~~~~--~~~~CP~C 112 (118)
|.||++.-..+. +.+.|| .- ..|.+|+.+|+. .+..|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 789998866544 556675 33 689999999996 45569887
No 65
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.34 E-value=0.00017 Score=60.17 Aligned_cols=51 Identities=29% Similarity=0.776 Sum_probs=39.2
Q ss_pred cCccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCC----------cccccCccc
Q 033497 66 AATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSN----------SCPVCRSGV 116 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~----------~CP~Cr~~~ 116 (118)
...++.|-||+.+-...-..+.+.|+|+||..|.++.++++- +||+|+.++
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 345678999988755545567889999999999988775322 599998875
No 66
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.00017 Score=52.76 Aligned_cols=35 Identities=29% Similarity=0.723 Sum_probs=31.9
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhh
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS 104 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~ 104 (118)
..|.||++...-.+..+.+||+|.||.+|+..++.
T Consensus 185 f~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred ccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 88999999987667889999999999999999984
No 67
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.25 E-value=0.00068 Score=48.89 Aligned_cols=48 Identities=23% Similarity=0.690 Sum_probs=39.2
Q ss_pred ccCccccccccccccccCCCceeeCCCChhhHHHHHHH--hhCCCcccccCcc
Q 033497 65 VAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTW--ISLSNSCPVCRSG 115 (118)
Q Consensus 65 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~--~~~~~~CP~Cr~~ 115 (118)
.+++...|-||.+.+.- ..++||+|..|.-|..+. +..++.||+||..
T Consensus 57 tDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 57 TDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred cccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 34556889999988765 788999999999998765 4578899999863
No 68
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.00032 Score=47.65 Aligned_cols=48 Identities=21% Similarity=0.614 Sum_probs=37.2
Q ss_pred cccccccccccccCCCceeeCCCChhhHHHHHHHhhC--------CCcccccCcccC
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISL--------SNSCPVCRSGVI 117 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~--------~~~CP~Cr~~~~ 117 (118)
...|..|-..+..++. +.+-|-|.||++|+.+|-.. ...||.|...+.
T Consensus 50 ~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 3569999998887664 45569999999999999742 235999987653
No 69
>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=97.17 E-value=0.00034 Score=43.91 Aligned_cols=36 Identities=22% Similarity=0.452 Sum_probs=29.3
Q ss_pred cccccccccccccCCCceeeCCC------ChhhHHHHHHHhh
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCG------HVFHATCISTWIS 104 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~------H~f~~~Ci~~~~~ 104 (118)
..+|.||++.+.....++.++|+ |.||.+|+.+|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 57899999999874556666775 8899999999954
No 70
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.11 E-value=0.00079 Score=43.39 Aligned_cols=47 Identities=21% Similarity=0.681 Sum_probs=33.1
Q ss_pred cCccccccccccccccCCCceeeC--CCC---hhhHHHHHHHhhC--CCcccccCccc
Q 033497 66 AATEGRCTVCMENFLQAFPGKQVP--CGH---VFHATCISTWISL--SNSCPVCRSGV 116 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~~--C~H---~f~~~Ci~~~~~~--~~~CP~Cr~~~ 116 (118)
...+..|-||.+.-.. ..-| |.. ..|.+|+.+|+.. ...|++|+...
T Consensus 5 s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 5 SLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 3456789999988432 2235 444 5699999999964 44699998764
No 71
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.08 E-value=0.00043 Score=49.06 Aligned_cols=46 Identities=28% Similarity=0.733 Sum_probs=37.4
Q ss_pred ccccccccccccC---CCceeeCCCChhhHHHHHHHhhCCC-cccccCcc
Q 033497 70 GRCTVCMENFLQA---FPGKQVPCGHVFHATCISTWISLSN-SCPVCRSG 115 (118)
Q Consensus 70 ~~C~IC~~~~~~~---~~~~~~~C~H~f~~~Ci~~~~~~~~-~CP~Cr~~ 115 (118)
..|-||-++|... ..++.+.|||.+|..|+.+.+.... .||+||.+
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~ 53 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRET 53 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCc
Confidence 4699999999764 4477888999999999988775433 59999986
No 72
>PHA02862 5L protein; Provisional
Probab=97.08 E-value=0.00073 Score=42.86 Aligned_cols=43 Identities=23% Similarity=0.647 Sum_probs=31.4
Q ss_pred ccccccccccccCCCceeeC--C---CChhhHHHHHHHhh--CCCcccccCccc
Q 033497 70 GRCTVCMENFLQAFPGKQVP--C---GHVFHATCISTWIS--LSNSCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~--C---~H~f~~~Ci~~~~~--~~~~CP~Cr~~~ 116 (118)
..|-||++.-.++ .-| | -...|.+|+.+|+. ++..|++|+.+.
T Consensus 3 diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 4699999884332 244 4 25689999999996 445699998764
No 73
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.07 E-value=0.00042 Score=49.00 Aligned_cols=42 Identities=31% Similarity=0.741 Sum_probs=34.4
Q ss_pred ccccccccccccCCCceeeC-CCChhhHHHHHHHh-hCCCcccccCc
Q 033497 70 GRCTVCMENFLQAFPGKQVP-CGHVFHATCISTWI-SLSNSCPVCRS 114 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~-~~~~~CP~Cr~ 114 (118)
+.|+.|...+.. +...+ |+|.||..||...+ ..-..||.|..
T Consensus 275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 789999988877 66665 89999999998765 46668999943
No 74
>PHA03096 p28-like protein; Provisional
Probab=97.04 E-value=0.00046 Score=48.78 Aligned_cols=44 Identities=25% Similarity=0.489 Sum_probs=30.7
Q ss_pred ccccccccccccC----CCceeeC-CCChhhHHHHHHHhhC---CCcccccC
Q 033497 70 GRCTVCMENFLQA----FPGKQVP-CGHVFHATCISTWISL---SNSCPVCR 113 (118)
Q Consensus 70 ~~C~IC~~~~~~~----~~~~~~~-C~H~f~~~Ci~~~~~~---~~~CP~Cr 113 (118)
..|.||++..... ..-..++ |.|.||..|+..|... +..||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 5799999987652 1223454 9999999999999742 23455554
No 75
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.01 E-value=0.00026 Score=48.41 Aligned_cols=42 Identities=26% Similarity=0.665 Sum_probs=30.6
Q ss_pred ccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 72 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
|--|..--. ++.-.++.|+|+||..|...-. ...||+|++++
T Consensus 6 Cn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~i 47 (233)
T KOG4739|consen 6 CNKCFRFPS-QDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSI 47 (233)
T ss_pred eccccccCC-CCceeeeechhhhhhhhcccCC--cccccccccee
Confidence 666665544 5556677899999999986642 23899999875
No 76
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.00039 Score=50.07 Aligned_cols=46 Identities=33% Similarity=0.694 Sum_probs=33.7
Q ss_pred ccCccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 65 VAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 65 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
.......|.||++...+ ...+||||.-| |..-. +....||+||..+
T Consensus 301 ~~~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI 346 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRI 346 (355)
T ss_pred ccCCCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHH
Confidence 34455789999999887 99999999966 54433 2334599999754
No 77
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.80 E-value=0.00044 Score=36.72 Aligned_cols=42 Identities=29% Similarity=0.677 Sum_probs=29.8
Q ss_pred cccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 71 RCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 71 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
.|-.|... +....+++|||..|..|..-+ +-+.||+|-.++.
T Consensus 9 ~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~ 50 (55)
T PF14447_consen 9 PCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFE 50 (55)
T ss_pred eEEEcccc---ccccccccccceeeccccChh--hccCCCCCCCccc
Confidence 35555433 334778899999999997654 4567999987763
No 78
>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=96.77 E-value=0.00057 Score=35.09 Aligned_cols=43 Identities=26% Similarity=0.733 Sum_probs=25.9
Q ss_pred cccccccccccCCCceeeCC-CChhhHHHHHHHhhCCCcccccCcccCC
Q 033497 71 RCTVCMENFLQAFPGKQVPC-GHVFHATCISTWISLSNSCPVCRSGVIA 118 (118)
Q Consensus 71 ~C~IC~~~~~~~~~~~~~~C-~H~f~~~Ci~~~~~~~~~CP~Cr~~~~~ 118 (118)
.|.-|+ |.. ..++.| .|-.|..|+..++.....||+|..+++.
T Consensus 4 nCKsCW--f~~---k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCW--FAN---KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS---S-----SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhh--hcC---CCeeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 466665 223 445667 4889999999999999999999998863
No 79
>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=96.77 E-value=0.0015 Score=42.13 Aligned_cols=34 Identities=21% Similarity=0.561 Sum_probs=24.2
Q ss_pred ccccccccccccccCCCceeeC------------CCCh-hhHHHHHHHhh
Q 033497 68 TEGRCTVCMENFLQAFPGKQVP------------CGHV-FHATCISTWIS 104 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~------------C~H~-f~~~Ci~~~~~ 104 (118)
++.+|+||||...+ .++|- |+.. -|..|++++.+
T Consensus 1 ed~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 46789999999777 66653 3322 47889998863
No 80
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.0013 Score=43.27 Aligned_cols=47 Identities=28% Similarity=0.845 Sum_probs=30.7
Q ss_pred ccccccccccccCCCc----eeeCCCChhhHHHHHHHhhC----CC-------cccccCccc
Q 033497 70 GRCTVCMENFLQAFPG----KQVPCGHVFHATCISTWISL----SN-------SCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~----~~~~C~H~f~~~Ci~~~~~~----~~-------~CP~Cr~~~ 116 (118)
-.|.||+..-..+..+ --..||..||.-|+..|++. +. .||.|..++
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 4466665543332222 22459999999999999962 11 499998875
No 81
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.73 E-value=0.00055 Score=54.15 Aligned_cols=48 Identities=35% Similarity=0.798 Sum_probs=34.4
Q ss_pred CccccccccccccccCCCce-eeCCCChhhHHHHHHHhhCCC-------cccccCc
Q 033497 67 ATEGRCTVCMENFLQAFPGK-QVPCGHVFHATCISTWISLSN-------SCPVCRS 114 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~~~~~~~-------~CP~Cr~ 114 (118)
...++|.||++.+.....+- --.|=|+||..||.+|-+... .||.|..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 34589999999987633222 223779999999999975311 4999974
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=96.63 E-value=0.00054 Score=41.20 Aligned_cols=35 Identities=34% Similarity=0.677 Sum_probs=27.5
Q ss_pred ccCccccccccccccccCCCceeeCCCChhhHHHHH
Q 033497 65 VAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCIS 100 (118)
Q Consensus 65 ~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~ 100 (118)
...++..|++|...+.. ......||||.||..|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 34556789999999876 335677999999999975
No 83
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.56 E-value=0.0017 Score=45.69 Aligned_cols=47 Identities=30% Similarity=0.812 Sum_probs=38.5
Q ss_pred ccccccccccccccCC-CceeeCCCChhhHHHHHHHhhCCCcccccCc
Q 033497 68 TEGRCTVCMENFLQAF-PGKQVPCGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~-~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
....|+||.+.+.... .+..++|||..|..|+........+||+|.+
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 3355999999877643 3567889999999999999877789999976
No 84
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.38 E-value=0.0022 Score=50.90 Aligned_cols=41 Identities=27% Similarity=0.779 Sum_probs=32.6
Q ss_pred cccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCc
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
...|.+|-..+.. +.+...|||.||..|+. .....||.|+.
T Consensus 840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccch
Confidence 3679999877765 35667799999999997 45567999975
No 85
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.38 E-value=0.0017 Score=32.98 Aligned_cols=41 Identities=24% Similarity=0.630 Sum_probs=21.3
Q ss_pred ccccccccccCCCceeeCCCChhhHHHHHHHhhCCC--ccccc
Q 033497 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSN--SCPVC 112 (118)
Q Consensus 72 C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~--~CP~C 112 (118)
|.+|-+....+..=....|+-.+|..|+..+++.+. .||.|
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 566766655521111123888899999999997666 69987
No 86
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.29 E-value=0.0042 Score=44.78 Aligned_cols=48 Identities=27% Similarity=0.602 Sum_probs=35.3
Q ss_pred ccccccccccccccCCCc-eeeCCCChhhHHHHHHHhh-CCCcccccCcc
Q 033497 68 TEGRCTVCMENFLQAFPG-KQVPCGHVFHATCISTWIS-LSNSCPVCRSG 115 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~~~~-~~~~CP~Cr~~ 115 (118)
+++-|+.|+|++...+.- .-.+||-..|.-|+....+ -+..||.||+.
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~ 62 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK 62 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence 444599999999875433 4467999988888776643 34579999874
No 87
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.22 E-value=0.0023 Score=50.26 Aligned_cols=43 Identities=30% Similarity=0.715 Sum_probs=34.7
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCC--cccccCccc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSN--SCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~--~CP~Cr~~~ 116 (118)
..|.||++ ... ....+|+|.||..|+...+.... .||.||..+
T Consensus 455 ~~c~ic~~-~~~---~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-LDS---FFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc-ccc---ceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 78999999 333 78889999999999999875333 599998754
No 88
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.0058 Score=44.72 Aligned_cols=47 Identities=23% Similarity=0.428 Sum_probs=39.8
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCC---cccccCc
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSN---SCPVCRS 114 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~---~CP~Cr~ 114 (118)
..+.|||=-+.-.+++.|..+.|||+.+.+-+.+..+... .||.|-.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 3478999888888888999999999999999999986444 6999953
No 89
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.95 E-value=0.0065 Score=42.51 Aligned_cols=51 Identities=25% Similarity=0.423 Sum_probs=38.7
Q ss_pred cCccccccccccccccCCCce-eeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 66 AATEGRCTVCMENFLQAFPGK-QVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
....+.|||....|......+ +.+|||.|...+|.... ....||+|-.++.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT 161 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence 345589999999986544343 45799999999999973 3457999987753
No 90
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=95.93 E-value=0.0052 Score=45.76 Aligned_cols=34 Identities=24% Similarity=0.580 Sum_probs=30.3
Q ss_pred CccccccccccccccCCCceeeCCCChhhHHHHHHHh
Q 033497 67 ATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWI 103 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~ 103 (118)
+++..|+||..-|.+ +++++|+|..|..|....+
T Consensus 2 eeelkc~vc~~f~~e---piil~c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE---PIILPCSHNLCQACARNIL 35 (699)
T ss_pred cccccCceehhhccC---ceEeecccHHHHHHHHhhc
Confidence 467889999999888 9999999999999988665
No 91
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.92 E-value=0.0058 Score=43.76 Aligned_cols=47 Identities=23% Similarity=0.486 Sum_probs=37.2
Q ss_pred cCccccccccccccccCCCceeeC-CCChhhHHHHHHHhhCCCcccccCcc
Q 033497 66 AATEGRCTVCMENFLQAFPGKQVP-CGHVFHATCISTWISLSNSCPVCRSG 115 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~~~~~~~CP~Cr~~ 115 (118)
......|++|+-.-.+ +..+. -|-.||..|+..++...+.||+=..+
T Consensus 297 ~~~~~~CpvClk~r~N---ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQN---PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred CCccccChhHHhccCC---CceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 3345679999988766 55555 69999999999999999999975444
No 92
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.89 E-value=0.0076 Score=41.64 Aligned_cols=49 Identities=22% Similarity=0.376 Sum_probs=40.2
Q ss_pred ccccccccccccccCCCcee-eCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 68 TEGRCTVCMENFLQAFPGKQ-VPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~-~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
..+.|++|.+.+.+...-.. -+|||.|+..|..++++.-..||+|-.++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl 269 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL 269 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence 34889999999987554444 46999999999999988888899997664
No 93
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.62 E-value=0.013 Score=31.11 Aligned_cols=34 Identities=26% Similarity=0.606 Sum_probs=27.4
Q ss_pred ccccccccccccccCCCceeeC-CCChhhHHHHHH
Q 033497 68 TEGRCTVCMENFLQAFPGKQVP-CGHVFHATCIST 101 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~ 101 (118)
....|.+|-+.|..++.+++-+ |+-.+|+.|..+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 3467999999998666677766 999999999654
No 94
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.56 E-value=0.0041 Score=42.12 Aligned_cols=38 Identities=32% Similarity=0.709 Sum_probs=30.3
Q ss_pred ccccccccccCCCceeeCCCCh-hhHHHHHHHhhCCCcccccCccc
Q 033497 72 CTVCMENFLQAFPGKQVPCGHV-FHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 72 C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
|..|.+.-.. +.++||.|. +|..|-.. ...||+|+...
T Consensus 161 Cr~C~~~~~~---VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGEREAT---VLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcCCce---EEeecccceEeccccccc----CccCCCCcChh
Confidence 9999888555 889999988 88888643 35699998754
No 95
>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=95.47 E-value=0.01 Score=43.26 Aligned_cols=27 Identities=26% Similarity=0.950 Sum_probs=21.2
Q ss_pred CCChhhHHHHHHHhhCCC-------------cccccCccc
Q 033497 90 CGHVFHATCISTWISLSN-------------SCPVCRSGV 116 (118)
Q Consensus 90 C~H~f~~~Ci~~~~~~~~-------------~CP~Cr~~~ 116 (118)
|...-|.+|+.+|+..+. .||.||+++
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 667779999999994222 499999975
No 96
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.30 E-value=0.013 Score=41.82 Aligned_cols=45 Identities=27% Similarity=0.558 Sum_probs=33.4
Q ss_pred cCccccccccccccccCCCceee-CCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 66 AATEGRCTVCMENFLQAFPGKQV-PCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
..+-++||||.+.+.. ++.. .=||..|.+|-.+ ....||.||.++
T Consensus 45 ~~~lleCPvC~~~l~~---Pi~QC~nGHlaCssC~~~---~~~~CP~Cr~~~ 90 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSP---PIFQCDNGHLACSSCRTK---VSNKCPTCRLPI 90 (299)
T ss_pred chhhccCchhhccCcc---cceecCCCcEehhhhhhh---hcccCCcccccc
Confidence 3445889999999876 3332 3489999999753 556799999876
No 97
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=95.03 E-value=0.01 Score=42.27 Aligned_cols=43 Identities=33% Similarity=0.760 Sum_probs=29.2
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
-.|.-|--.+ ....+.++|.|.||.+|.+. ..-+.||.|-..+
T Consensus 91 HfCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPI--AIYGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCcc--eeeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 4466664332 23457789999999999754 3456799996554
No 98
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.97 E-value=0.028 Score=35.32 Aligned_cols=46 Identities=24% Similarity=0.661 Sum_probs=35.6
Q ss_pred ccccccccccccccCCCceee-C---CCChhhHHHHHHHhhC---CCcccccCccc
Q 033497 68 TEGRCTVCMENFLQAFPGKQV-P---CGHVFHATCISTWISL---SNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~-~---C~H~f~~~Ci~~~~~~---~~~CP~Cr~~~ 116 (118)
.-.+|-||.|...+ .+.+ | ||-..|..|....|+. ...||.|+..+
T Consensus 79 ~lYeCnIC~etS~e---e~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAE---ERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF 131 (140)
T ss_pred CceeccCcccccch---hhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence 45789999998766 4433 2 9999999999888864 44699998765
No 99
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.91 E-value=0.0011 Score=48.28 Aligned_cols=48 Identities=27% Similarity=0.675 Sum_probs=38.8
Q ss_pred cccccccccccccC-CCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 69 EGRCTVCMENFLQA-FPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 69 ~~~C~IC~~~~~~~-~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
...|.||.+.+... .....+-|||.+|..||.+|+.....||.||..+
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel 244 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRREL 244 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhh
Confidence 36799999887652 2244567999999999999998888899998765
No 100
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.87 E-value=0.017 Score=40.13 Aligned_cols=50 Identities=28% Similarity=0.613 Sum_probs=33.5
Q ss_pred cCccccccccccccccCCCc-eeeCC-----CChhhHHHHHHHhhCC--------CcccccCcc
Q 033497 66 AATEGRCTVCMENFLQAFPG-KQVPC-----GHVFHATCISTWISLS--------NSCPVCRSG 115 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~-~~~~C-----~H~f~~~Ci~~~~~~~--------~~CP~Cr~~ 115 (118)
.+.+..|-||+..-.+.... -+-|| .|..|.+|+..|+..+ .+||.|+..
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 45677899999874332211 12344 3889999999998422 259999764
No 101
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=94.80 E-value=0.0085 Score=46.86 Aligned_cols=45 Identities=22% Similarity=0.690 Sum_probs=37.6
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCC---cccccCcc
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSN---SCPVCRSG 115 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~---~CP~Cr~~ 115 (118)
...+|+||...+.. +..+.|.|.|+..|+..-+...+ .||+|+..
T Consensus 20 k~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~ 67 (684)
T KOG4362|consen 20 KILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSD 67 (684)
T ss_pred hhccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhh
Confidence 45789999999988 78889999999999998876444 59999854
No 102
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=94.52 E-value=0.023 Score=45.04 Aligned_cols=41 Identities=27% Similarity=0.670 Sum_probs=29.1
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPV 111 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~ 111 (118)
..|.||--.+. +...+...|+|..|.+|...|++....||.
T Consensus 1029 ~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 44666643322 222345569999999999999999999874
No 103
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.47 E-value=0.059 Score=38.29 Aligned_cols=50 Identities=24% Similarity=0.571 Sum_probs=35.0
Q ss_pred CccccccccccccccCCC-ceeeCCC-----ChhhHHHHHHHhh--CCCcccccCccc
Q 033497 67 ATEGRCTVCMENFLQAFP-GKQVPCG-----HVFHATCISTWIS--LSNSCPVCRSGV 116 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~-~~~~~C~-----H~f~~~Ci~~~~~--~~~~CP~Cr~~~ 116 (118)
..+..|.||.+....... ....||. ...|..|+..|+. .+..|.+|....
T Consensus 76 ~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 76 SSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 335789999997654221 3455652 5579999999997 555699997643
No 104
>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=94.46 E-value=0.047 Score=38.59 Aligned_cols=46 Identities=24% Similarity=0.548 Sum_probs=31.3
Q ss_pred ccccccccccc--CCCceeeCCCChhhHHHHHHHhhC-CCcccccCccc
Q 033497 71 RCTVCMENFLQ--AFPGKQVPCGHVFHATCISTWISL-SNSCPVCRSGV 116 (118)
Q Consensus 71 ~C~IC~~~~~~--~~~~~~~~C~H~f~~~Ci~~~~~~-~~~CP~Cr~~~ 116 (118)
.|++|-..... +....+-+|+|..|.+|....+.. ...||-|...+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 48888655332 222223369999999999999864 44699997643
No 105
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.43 E-value=0.0078 Score=39.03 Aligned_cols=27 Identities=26% Similarity=0.770 Sum_probs=24.6
Q ss_pred ccccccccccccCCCceeeCCCChhhH
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHA 96 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~ 96 (118)
-+|.||+|++..++.+..|||--+||.
T Consensus 178 GECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 178 GECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred CcEEEEhhhccCCCceeccceEEEeec
Confidence 689999999999999999999888885
No 106
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.41 E-value=0.025 Score=45.33 Aligned_cols=42 Identities=29% Similarity=0.611 Sum_probs=31.4
Q ss_pred CCCCccCccccccccccccccCCCceeeCCCChhhHHHHHHHh
Q 033497 61 SLPTVAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWI 103 (118)
Q Consensus 61 ~~~~~~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~ 103 (118)
..-.+...+..|.+|...+... .-.+.+|||.||++||.+-.
T Consensus 809 ~ry~v~ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 809 QRYRVLEPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cceEEecCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 3334556678899998887652 24566899999999998875
No 107
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.12 E-value=0.034 Score=39.46 Aligned_cols=27 Identities=26% Similarity=0.751 Sum_probs=21.7
Q ss_pred CCChhhHHHHHHHhhC-------------CCcccccCccc
Q 033497 90 CGHVFHATCISTWISL-------------SNSCPVCRSGV 116 (118)
Q Consensus 90 C~H~f~~~Ci~~~~~~-------------~~~CP~Cr~~~ 116 (118)
|....|.+|+.+|+.. +-.||+||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 6788999999999843 22599999875
No 108
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.09 E-value=0.018 Score=47.88 Aligned_cols=43 Identities=30% Similarity=0.801 Sum_probs=36.8
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
..|.||++.+.. ...+..|||-+|..|...|+..+..||.|+.
T Consensus 1154 ~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 589999999874 1455569999999999999999999999964
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.62 E-value=0.026 Score=41.75 Aligned_cols=38 Identities=24% Similarity=0.540 Sum_probs=27.5
Q ss_pred ccccccccc-cccccCCCceeeCCCChhhHHHHHHHhhC
Q 033497 68 TEGRCTVCM-ENFLQAFPGKQVPCGHVFHATCISTWISL 105 (118)
Q Consensus 68 ~~~~C~IC~-~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~ 105 (118)
....|.||+ +............|+|.||..|+++.+..
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 356899999 44333233345679999999999999863
No 110
>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=92.91 E-value=0.11 Score=27.13 Aligned_cols=43 Identities=19% Similarity=0.524 Sum_probs=18.2
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHh---hCCC--cccccCcc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWI---SLSN--SCPVCRSG 115 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~---~~~~--~CP~Cr~~ 115 (118)
+.|+|-...+.. .++...|.|.-|.+- ..|+ ..+. .||+|.++
T Consensus 3 L~CPls~~~i~~--P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe--CccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence 468888887766 234445999854322 2233 2222 59999764
No 111
>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=91.91 E-value=0.13 Score=35.71 Aligned_cols=46 Identities=26% Similarity=0.555 Sum_probs=31.8
Q ss_pred cccccccccccccc-CCCc-eeeC-CCChhhHHHHHHHhhCC-Cccc--ccC
Q 033497 68 TEGRCTVCMENFLQ-AFPG-KQVP-CGHVFHATCISTWISLS-NSCP--VCR 113 (118)
Q Consensus 68 ~~~~C~IC~~~~~~-~~~~-~~~~-C~H~f~~~Ci~~~~~~~-~~CP--~Cr 113 (118)
.+..||||..+-.. .+.. .+-| |-|.+|.+|..+.+... ..|| -|.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 45689999866432 2222 2335 99999999999998644 4698 563
No 112
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.38 E-value=0.17 Score=38.14 Aligned_cols=37 Identities=22% Similarity=0.614 Sum_probs=30.5
Q ss_pred cCccccccccccccccCCCceeeCCCChhhHHHHHHHhh
Q 033497 66 AATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS 104 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~ 104 (118)
......|.||.+.+.. ....+.|+|.||..|+..++.
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLG 103 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhh
Confidence 4556789999998764 367778999999999999874
No 113
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=90.95 E-value=0.21 Score=39.76 Aligned_cols=39 Identities=26% Similarity=0.530 Sum_probs=29.0
Q ss_pred ccccccccccccCCCceee--CCCChhhHHHHHHHhhCCCcccc
Q 033497 70 GRCTVCMENFLQAFPGKQV--PCGHVFHATCISTWISLSNSCPV 111 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~--~C~H~f~~~Ci~~~~~~~~~CP~ 111 (118)
..|.+|-..+.. +... -|+|..|.+|+.+|+.....||.
T Consensus 780 ~~CtVC~~vi~G---~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG---VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee---eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 467788655443 3332 39999999999999988887766
No 114
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.21 E-value=0.39 Score=38.80 Aligned_cols=49 Identities=18% Similarity=0.592 Sum_probs=34.4
Q ss_pred CccccccccccccccCCCceeeCC--C---ChhhHHHHHHHhh--CCCcccccCccc
Q 033497 67 ATEGRCTVCMENFLQAFPGKQVPC--G---HVFHATCISTWIS--LSNSCPVCRSGV 116 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~~C--~---H~f~~~Ci~~~~~--~~~~CP~Cr~~~ 116 (118)
.++..|.||..+=..++ +..-|| . .-.|.+|+.+|+. ....|-+|..++
T Consensus 10 ~d~~~CRICr~e~~~d~-pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 10 EDKRSCRICRTEDIRDD-PLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred ccchhceeecCCCCCCC-cCcccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 45578999998855544 444444 3 3389999999996 344699998754
No 115
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=87.40 E-value=0.54 Score=33.94 Aligned_cols=46 Identities=26% Similarity=0.422 Sum_probs=36.3
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHHHhhCC---CcccccC
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLS---NSCPVCR 113 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~---~~CP~Cr 113 (118)
.-..||+=-+.-.+.+.+..+.|||+.-..-+....+.. ..||.|-
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 337899877776777789999999999999998876533 2599994
No 116
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=87.21 E-value=0.56 Score=33.91 Aligned_cols=47 Identities=26% Similarity=0.494 Sum_probs=36.1
Q ss_pred ccccccccccccCC-CceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 70 GRCTVCMENFLQAF-PGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~~~-~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
..|+||.+.....+ ...-.+|++..|.-|+........+||.||++.
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcc
Confidence 67999999874322 233446898889989888888888999999764
No 117
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=87.01 E-value=0.27 Score=38.21 Aligned_cols=23 Identities=39% Similarity=0.882 Sum_probs=17.5
Q ss_pred eeCCCChhhHHHHHHHhhCCCccccc
Q 033497 87 QVPCGHVFHATCISTWISLSNSCPVC 112 (118)
Q Consensus 87 ~~~C~H~f~~~Ci~~~~~~~~~CP~C 112 (118)
...|++.||..|+.. ....||.|
T Consensus 534 C~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 534 CSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred HHHHHHHHHHHHHhc---cCCCCCch
Confidence 345999999999755 33449999
No 118
>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=86.98 E-value=0.26 Score=25.85 Aligned_cols=42 Identities=21% Similarity=0.468 Sum_probs=20.2
Q ss_pred ccccccccccCC------Cceee-CCCChhhHHHHHHHhhCCCcccccC
Q 033497 72 CTVCMENFLQAF------PGKQV-PCGHVFHATCISTWISLSNSCPVCR 113 (118)
Q Consensus 72 C~IC~~~~~~~~------~~~~~-~C~H~f~~~Ci~~~~~~~~~CP~Cr 113 (118)
|.-|+..|.... ....- .|++.||.+|=.-.=+.-..||.|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 555666665521 11223 3999999999644334555799883
No 119
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=86.73 E-value=1 Score=36.41 Aligned_cols=49 Identities=12% Similarity=0.220 Sum_probs=33.3
Q ss_pred ccccccccccccccCC-CceeeC---CCChhhHHHHHHHhhC------CCcccccCccc
Q 033497 68 TEGRCTVCMENFLQAF-PGKQVP---CGHVFHATCISTWISL------SNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~-~~~~~~---C~H~f~~~Ci~~~~~~------~~~CP~Cr~~~ 116 (118)
....|.+|...+..+. ..-.++ |+|.||..||..|..+ +-.|++|..-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 3477888887776622 122333 9999999999999842 22478886544
No 120
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.90 E-value=0.42 Score=37.62 Aligned_cols=39 Identities=26% Similarity=0.726 Sum_probs=30.3
Q ss_pred cccccccccccc-CCCceeeCCCChhhHHHHHHHhhCCCccc
Q 033497 70 GRCTVCMENFLQ-AFPGKQVPCGHVFHATCISTWISLSNSCP 110 (118)
Q Consensus 70 ~~C~IC~~~~~~-~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP 110 (118)
..|+||+..|.. ...++.+-|||..|..|+....+ .+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 679999777654 34477788999999999988644 5677
No 121
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=85.62 E-value=0.5 Score=32.13 Aligned_cols=42 Identities=26% Similarity=0.672 Sum_probs=33.5
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccC
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCR 113 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr 113 (118)
..|-+|......+ .+.-.|+-.+|..|+..++++...||.|.
T Consensus 182 k~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchh
Confidence 6799998876551 33445888899999999999988899993
No 122
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.58 E-value=0.33 Score=38.89 Aligned_cols=44 Identities=27% Similarity=0.569 Sum_probs=31.1
Q ss_pred ccccccccccccccC----CCceeeCCCChhhHHHHHHHhhCCCccccc
Q 033497 68 TEGRCTVCMENFLQA----FPGKQVPCGHVFHATCISTWISLSNSCPVC 112 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~----~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~C 112 (118)
.+.+|..|++..... ...+.+.|+|.||..|+.....++. |..|
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 345899999886532 2356778999999999977654443 5444
No 123
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.41 E-value=0.76 Score=32.71 Aligned_cols=38 Identities=26% Similarity=0.471 Sum_probs=29.2
Q ss_pred CccccccccccccccCCCceeeCC----CChhhHHHHHHHhhCCC
Q 033497 67 ATEGRCTVCMENFLQAFPGKQVPC----GHVFHATCISTWISLSN 107 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~~C----~H~f~~~Ci~~~~~~~~ 107 (118)
..-+.|-+|.|.+.+ ...+.| .|.||.-|-++.++.+.
T Consensus 266 ~apLcCTLC~ERLED---THFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 266 SAPLCCTLCHERLED---THFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CCceeehhhhhhhcc---CceeecCCCcccceecccCHHHHHhhc
Confidence 344899999999887 444444 69999999999886543
No 124
>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=84.80 E-value=0.62 Score=25.69 Aligned_cols=12 Identities=33% Similarity=0.894 Sum_probs=8.6
Q ss_pred hhhHHHHHHHhh
Q 033497 93 VFHATCISTWIS 104 (118)
Q Consensus 93 ~f~~~Ci~~~~~ 104 (118)
.||+.|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999984
No 125
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.78 E-value=0.53 Score=34.91 Aligned_cols=43 Identities=23% Similarity=0.545 Sum_probs=29.6
Q ss_pred cccccccccccc--CCCceeeCCCChhhHHHHHHHhhCCCccccc
Q 033497 70 GRCTVCMENFLQ--AFPGKQVPCGHVFHATCISTWISLSNSCPVC 112 (118)
Q Consensus 70 ~~C~IC~~~~~~--~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~C 112 (118)
..|++|.-.+.. +-......|||.||..|...|...+..|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 568888665432 2122334599999999999998877766443
No 126
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.25 E-value=0.5 Score=32.95 Aligned_cols=34 Identities=18% Similarity=0.298 Sum_probs=30.0
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHHHhh
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS 104 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~ 104 (118)
.-..|+.|+.++.. +++.+=||+|+..||.+++.
T Consensus 42 ~FdcCsLtLqPc~d---Pvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRD---PVITPDGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccC---CccCCCCeeeeHHHHHHHHH
Confidence 34679999999988 99999999999999999874
No 127
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=84.04 E-value=0.67 Score=31.28 Aligned_cols=40 Identities=30% Similarity=0.708 Sum_probs=25.3
Q ss_pred cccccccccc-----cccCCCceeeCCCChhhHHHHHHHhhCCCcccccC
Q 033497 69 EGRCTVCMEN-----FLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCR 113 (118)
Q Consensus 69 ~~~C~IC~~~-----~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr 113 (118)
+..|-+|-.. |..+...+-..|+..||..|.. +..||.|.
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 3667777643 1221222333499999999975 26799993
No 128
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=83.02 E-value=0.71 Score=33.46 Aligned_cols=45 Identities=22% Similarity=0.426 Sum_probs=32.4
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
..|-.|.+........+.-.|.+.||.+|=.-.-..-..||.|..
T Consensus 331 ~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 331 RFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred cceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 558888777665444455569999999997655455567999964
No 129
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.46 E-value=1 Score=34.89 Aligned_cols=43 Identities=26% Similarity=0.939 Sum_probs=34.6
Q ss_pred CccccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 67 ATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
.....|.||+... . .+..+|. |..|+.+|...+..||.|+..+
T Consensus 477 ~~~~~~~~~~~~~-~---~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~ 519 (543)
T KOG0802|consen 477 EPNDVCAICYQEM-S---ARITPCS---HALCLRKWLYVQEVCPLCHTYM 519 (543)
T ss_pred cccCcchHHHHHH-H---hcccccc---chhHHHhhhhhccccCCCchhh
Confidence 3447799999887 3 6666777 7899999999999999997654
No 130
>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=80.62 E-value=0.44 Score=26.20 Aligned_cols=37 Identities=24% Similarity=0.544 Sum_probs=18.7
Q ss_pred CccccccccccccccCCCceee-CCCChhhHHHHHHHh
Q 033497 67 ATEGRCTVCMENFLQAFPGKQV-PCGHVFHATCISTWI 103 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~~~ 103 (118)
.+...|.+|...|..-.....- .||+.||..|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3457799999999663333333 399999999986544
No 131
>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 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=79.21 E-value=0.61 Score=34.60 Aligned_cols=28 Identities=36% Similarity=0.752 Sum_probs=0.0
Q ss_pred ceeeCCCChhhHHHHHHHhh------CCCcccccCcc
Q 033497 85 GKQVPCGHVFHATCISTWIS------LSNSCPVCRSG 115 (118)
Q Consensus 85 ~~~~~C~H~f~~~Ci~~~~~------~~~~CP~Cr~~ 115 (118)
-+-+.|||.+... .|-. ..+.||+||..
T Consensus 304 ~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 304 WVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp -------------------------------------
T ss_pred eeeccccceeeec---ccccccccccccccCCCcccc
Confidence 3457799986654 3532 24579999864
No 133
>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=78.23 E-value=0.32 Score=34.56 Aligned_cols=46 Identities=20% Similarity=0.394 Sum_probs=21.8
Q ss_pred cCccccccccccccccCCCceeeC-----CCChhhHHHHHHHhhCCCcccccCc
Q 033497 66 AATEGRCTVCMENFLQAFPGKQVP-----CGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~~~~~~-----C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
......||+|-..... ..+.. =.+.+|.-|-..|-..+..||.|-.
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 GWQRGYCPVCGSPPVL---SVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -TT-SS-TTT---EEE---EEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CccCCcCCCCCCcCce---EEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 3444789999776443 11111 1466888999999877888999954
No 134
>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=76.70 E-value=1.9 Score=22.56 Aligned_cols=35 Identities=26% Similarity=0.524 Sum_probs=24.5
Q ss_pred ccccccccccccCCCce-eeCCCChhhHHHHHHHhh
Q 033497 70 GRCTVCMENFLQAFPGK-QVPCGHVFHATCISTWIS 104 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~~~~ 104 (118)
..|.+|-..|....... -..||++||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 46889988776533222 235999999999877653
No 135
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=76.34 E-value=4.6 Score=28.55 Aligned_cols=47 Identities=23% Similarity=0.571 Sum_probs=31.7
Q ss_pred ccccccccccccCCCce-ee---CCCChhhHHHHHHHhh---------CCCcccccCccc
Q 033497 70 GRCTVCMENFLQAFPGK-QV---PCGHVFHATCISTWIS---------LSNSCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~-~~---~C~H~f~~~Ci~~~~~---------~~~~CP~Cr~~~ 116 (118)
..|.+|...+.+.+..+ .. .|+-.+|..|+...+. ....||.|++.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 58999999984432222 22 2899999999998442 122599998743
No 136
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=76.29 E-value=2.6 Score=29.78 Aligned_cols=42 Identities=19% Similarity=0.519 Sum_probs=27.5
Q ss_pred ccccccccccccCCCcee-eC-CCChhhHHHHHHH-hhCCCcccc
Q 033497 70 GRCTVCMENFLQAFPGKQ-VP-CGHVFHATCISTW-ISLSNSCPV 111 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~-~~-C~H~f~~~Ci~~~-~~~~~~CP~ 111 (118)
.-|.||++.-.++....- +. =.-.-|.+|+.+| +..+..||.
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPR 75 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCc
Confidence 569999988766543332 22 2224678999999 456777883
No 137
>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=75.87 E-value=0.61 Score=23.90 Aligned_cols=43 Identities=23% Similarity=0.418 Sum_probs=26.0
Q ss_pred cccccccccccCCCceeeCCCChhhHHHHHHHhh------CCCcccccC
Q 033497 71 RCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS------LSNSCPVCR 113 (118)
Q Consensus 71 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~------~~~~CP~Cr 113 (118)
.|.||......+..+.--.|+..||..|+..-.. ..-.||.|+
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 3788887333222222235999999999876542 133588775
No 138
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=74.82 E-value=3.7 Score=25.16 Aligned_cols=44 Identities=23% Similarity=0.344 Sum_probs=31.6
Q ss_pred ccccccccccccCC-----------CceeeCCCChhhHHHHHHHhhCCCcccccC
Q 033497 70 GRCTVCMENFLQAF-----------PGKQVPCGHVFHATCISTWISLSNSCPVCR 113 (118)
Q Consensus 70 ~~C~IC~~~~~~~~-----------~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr 113 (118)
..|--|+..|.... +-.-..|++.||.+|=..+-+.-..||.|-
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 45999988876421 011234999999999877777777899995
No 139
>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=73.20 E-value=3.2 Score=19.36 Aligned_cols=38 Identities=21% Similarity=0.428 Sum_probs=22.1
Q ss_pred cccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 71 RCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 71 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
.|..|-..+.... .....=+..||..| ..|..|+.+|.
T Consensus 1 ~C~~C~~~i~~~~-~~~~~~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGE-LVLRALGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCc-EEEEeCCccccccC--------CCCcccCCcCc
Confidence 3677777665431 22222466788877 46777776653
No 140
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.94 E-value=0.65 Score=32.91 Aligned_cols=47 Identities=23% Similarity=0.540 Sum_probs=35.9
Q ss_pred cccccccccccccc---CCCceeeC--------CCChhhHHHHHHHhhCC-CcccccCc
Q 033497 68 TEGRCTVCMENFLQ---AFPGKQVP--------CGHVFHATCISTWISLS-NSCPVCRS 114 (118)
Q Consensus 68 ~~~~C~IC~~~~~~---~~~~~~~~--------C~H~f~~~Ci~~~~~~~-~~CP~Cr~ 114 (118)
.+..|.||...+.. ...+.++. |+|..|..|+...+... ..||.|+.
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~ 264 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTW 264 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccc
Confidence 33679999988873 23455666 99999999999987533 57999986
No 141
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.46 E-value=0.87 Score=32.63 Aligned_cols=46 Identities=24% Similarity=0.626 Sum_probs=37.0
Q ss_pred CccccccccccccccCCCceee-CCCChhhHHHHHHHhhCCCcccccCcc
Q 033497 67 ATEGRCTVCMENFLQAFPGKQV-PCGHVFHATCISTWISLSNSCPVCRSG 115 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~-~C~H~f~~~Ci~~~~~~~~~CP~Cr~~ 115 (118)
.....|.||...+.. +... .|+|.|+..|...|....+.||-|+..
T Consensus 103 ~~~~~~~~~~g~l~v---pt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~ 149 (324)
T KOG0824|consen 103 QDHDICYICYGKLTV---PTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGK 149 (324)
T ss_pred CCccceeeeeeeEEe---cccccCceeeeeecCCchhhhhhhccchhhcC
Confidence 344779999988876 4443 499999999999999988889888764
No 142
>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=72.05 E-value=0.24 Score=27.70 Aligned_cols=39 Identities=21% Similarity=0.481 Sum_probs=16.4
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
..||.|..++.... +|.+|..|-.. +.....||-|..++
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHH
Confidence 45788876654311 45555555543 23333577776554
No 143
>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 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=70.36 E-value=3.1 Score=21.72 Aligned_cols=13 Identities=23% Similarity=0.552 Sum_probs=8.9
Q ss_pred ccccccccccccc
Q 033497 69 EGRCTVCMENFLQ 81 (118)
Q Consensus 69 ~~~C~IC~~~~~~ 81 (118)
.+.||.|.+.+..
T Consensus 2 ~f~CP~C~~~~~~ 14 (54)
T PF05605_consen 2 SFTCPYCGKGFSE 14 (54)
T ss_pred CcCCCCCCCccCH
Confidence 4678898875543
No 145
>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=70.04 E-value=9.5 Score=20.39 Aligned_cols=45 Identities=20% Similarity=0.512 Sum_probs=28.8
Q ss_pred cccccccccccCC-CceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 71 RCTVCMENFLQAF-PGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 71 ~C~IC~~~~~~~~-~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
.|-.|-..+..+. ...+.+=...||..|....+ +..||.|...|.
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccc
Confidence 4666666655433 23333322459999998876 578999976654
No 146
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.86 E-value=1.5 Score=27.77 Aligned_cols=50 Identities=20% Similarity=0.450 Sum_probs=27.7
Q ss_pred ccCccccccccccc-cccCCCceeeCCCChhhHHHHHHHhhC-CC---cccccCc
Q 033497 65 VAATEGRCTVCMEN-FLQAFPGKQVPCGHVFHATCISTWISL-SN---SCPVCRS 114 (118)
Q Consensus 65 ~~~~~~~C~IC~~~-~~~~~~~~~~~C~H~f~~~Ci~~~~~~-~~---~CP~Cr~ 114 (118)
....+..|.||+.. |.++..-...-|.-.||..|-.+...+ ++ .|.+|+.
T Consensus 61 Gv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred ccCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 34567899999754 322211122235556677776554322 33 3888875
No 147
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=69.23 E-value=5.4 Score=23.69 Aligned_cols=37 Identities=16% Similarity=0.231 Sum_probs=29.3
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHHHhhC
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISL 105 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~ 105 (118)
.+..|.||-..+..++.-...+ .-..|.+|+..-...
T Consensus 5 kewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~~ 41 (103)
T COG4847 5 KEWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKRK 41 (103)
T ss_pred ceeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHhc
Confidence 4567999999999988777777 556899999876543
No 148
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=68.65 E-value=3.5 Score=24.28 Aligned_cols=12 Identities=33% Similarity=0.905 Sum_probs=10.7
Q ss_pred hhhHHHHHHHhh
Q 033497 93 VFHATCISTWIS 104 (118)
Q Consensus 93 ~f~~~Ci~~~~~ 104 (118)
.||..|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999985
No 149
>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=68.47 E-value=2.1 Score=22.37 Aligned_cols=9 Identities=33% Similarity=1.165 Sum_probs=4.9
Q ss_pred cccccCccc
Q 033497 108 SCPVCRSGV 116 (118)
Q Consensus 108 ~CP~Cr~~~ 116 (118)
.||+|.++|
T Consensus 22 ~CPlC~r~l 30 (54)
T PF04423_consen 22 CCPLCGRPL 30 (54)
T ss_dssp E-TTT--EE
T ss_pred cCCCCCCCC
Confidence 799998776
No 150
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=68.09 E-value=9 Score=21.91 Aligned_cols=49 Identities=14% Similarity=0.283 Sum_probs=19.8
Q ss_pred Ccccccccccccccc---CCCcee-eCCCChhhHHHHHHHh-hCCCcccccCcc
Q 033497 67 ATEGRCTVCMENFLQ---AFPGKQ-VPCGHVFHATCISTWI-SLSNSCPVCRSG 115 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~---~~~~~~-~~C~H~f~~~Ci~~~~-~~~~~CP~Cr~~ 115 (118)
.....|.||-+.+-. ++.-+. -.|+--.|+.|..-=. ..++.||.|+..
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ 60 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTR 60 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCC
Confidence 345679999988643 221122 2388889999986544 366679999864
No 151
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=66.44 E-value=11 Score=26.58 Aligned_cols=47 Identities=19% Similarity=0.333 Sum_probs=33.4
Q ss_pred ccccccccccccccCCC-ceeeCCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 68 TEGRCTVCMENFLQAFP-GKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
..+.|+|=--+|....+ ..+.+|||.|-.+-+.+.. ...|++|.+.+
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y 157 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAY 157 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCcc
Confidence 44779887666654222 3456799999999888763 56799998765
No 152
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=65.56 E-value=4.1 Score=28.50 Aligned_cols=25 Identities=20% Similarity=0.379 Sum_probs=17.9
Q ss_pred ccccccccccccCCCceeeCCCChh
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVF 94 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f 94 (118)
+.||+|...+...........+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 5799999999764444444567887
No 153
>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=64.98 E-value=9.9 Score=22.95 Aligned_cols=24 Identities=25% Similarity=0.588 Sum_probs=17.9
Q ss_pred CChhhHHHHHHHhhC---------CCcccccCc
Q 033497 91 GHVFHATCISTWISL---------SNSCPVCRS 114 (118)
Q Consensus 91 ~H~f~~~Ci~~~~~~---------~~~CP~Cr~ 114 (118)
.-.||..||..++.. .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999888732 225999975
No 154
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=64.44 E-value=0.81 Score=19.79 Aligned_cols=6 Identities=50% Similarity=1.602 Sum_probs=2.6
Q ss_pred ccccCc
Q 033497 109 CPVCRS 114 (118)
Q Consensus 109 CP~Cr~ 114 (118)
||.|-.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 444433
No 155
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=64.25 E-value=8.5 Score=28.06 Aligned_cols=49 Identities=27% Similarity=0.633 Sum_probs=31.3
Q ss_pred ccccccccccccc-------------cC--CC-ceeeCCCChhhHHHHHHHhhC---------CCcccccCccc
Q 033497 68 TEGRCTVCMENFL-------------QA--FP-GKQVPCGHVFHATCISTWISL---------SNSCPVCRSGV 116 (118)
Q Consensus 68 ~~~~C~IC~~~~~-------------~~--~~-~~~~~C~H~f~~~Ci~~~~~~---------~~~CP~Cr~~~ 116 (118)
.+.+|++|+..=. .+ -. -..-||||..-.+-..-|.+. +..||+|-..+
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 4588999986511 00 00 123479998888888888642 22599996654
No 156
>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=63.62 E-value=1.4 Score=19.73 Aligned_cols=9 Identities=22% Similarity=0.685 Sum_probs=4.7
Q ss_pred ccccccccc
Q 033497 71 RCTVCMENF 79 (118)
Q Consensus 71 ~C~IC~~~~ 79 (118)
.|+-|...+
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 355565544
No 157
>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=58.45 E-value=1.5 Score=31.62 Aligned_cols=45 Identities=16% Similarity=0.398 Sum_probs=28.1
Q ss_pred cccccccccccccCCCcee----eCCCChhhHHHHHHHhhCCCcccccCc
Q 033497 69 EGRCTVCMENFLQAFPGKQ----VPCGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~----~~C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
...||+|-....... ++. -.=.+.+|.-|-..|-..+..||.|..
T Consensus 184 ~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 358999977643210 011 012355677888889877788999954
No 158
>PLN02189 cellulose synthase
Probab=57.34 E-value=11 Score=31.75 Aligned_cols=48 Identities=17% Similarity=0.356 Sum_probs=32.5
Q ss_pred cccccccccccccc---CCCceeeC-CCChhhHHHHHHHh-hCCCcccccCcc
Q 033497 68 TEGRCTVCMENFLQ---AFPGKQVP-CGHVFHATCISTWI-SLSNSCPVCRSG 115 (118)
Q Consensus 68 ~~~~C~IC~~~~~~---~~~~~~~~-C~H~f~~~Ci~~~~-~~~~~CP~Cr~~ 115 (118)
....|.||-+.+.. ++.-+... |+--.|..|..-=. ..++.||.|+..
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~ 85 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTR 85 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCc
Confidence 44579999999753 22223334 88889999984322 356679999864
No 159
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=57.13 E-value=5.5 Score=20.84 Aligned_cols=22 Identities=32% Similarity=0.803 Sum_probs=11.3
Q ss_pred CCChhhHHHHHHHhhCCCccccc
Q 033497 90 CGHVFHATCISTWISLSNSCPVC 112 (118)
Q Consensus 90 C~H~f~~~Ci~~~~~~~~~CP~C 112 (118)
|||.|-..=-.+. .....||.|
T Consensus 34 Cgh~w~~~v~~R~-~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKASVNDRT-RRGKGCPYC 55 (55)
T ss_pred CCCeeEccHhhhc-cCCCCCCCC
Confidence 5665444322221 445568887
No 160
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=56.63 E-value=6 Score=21.38 Aligned_cols=11 Identities=36% Similarity=1.165 Sum_probs=8.3
Q ss_pred CcccccCcccC
Q 033497 107 NSCPVCRSGVI 117 (118)
Q Consensus 107 ~~CP~Cr~~~~ 117 (118)
..||+|..++.
T Consensus 40 p~CPlC~s~M~ 50 (59)
T PF14169_consen 40 PVCPLCKSPMV 50 (59)
T ss_pred ccCCCcCCccc
Confidence 46999987653
No 161
>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=55.99 E-value=5.2 Score=20.68 Aligned_cols=30 Identities=13% Similarity=0.248 Sum_probs=16.2
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHH
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCIST 101 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~ 101 (118)
..|..|...+..+. ....=+..||..|..+
T Consensus 27 f~C~~C~~~l~~~~--~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 27 FKCSKCGKPLNDGD--FYEKDGKPYCKDCYQK 56 (58)
T ss_dssp SBETTTTCBTTTSS--EEEETTEEEEHHHHHH
T ss_pred cccCCCCCccCCCe--eEeECCEEECHHHHhh
Confidence 66777766665432 2223345566666544
No 162
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.77 E-value=9.5 Score=30.53 Aligned_cols=43 Identities=37% Similarity=0.654 Sum_probs=32.0
Q ss_pred cccccccccccCCCceeeCCCC-hhhHHHHHHHhh--C----CCcccccCccc
Q 033497 71 RCTVCMENFLQAFPGKQVPCGH-VFHATCISTWIS--L----SNSCPVCRSGV 116 (118)
Q Consensus 71 ~C~IC~~~~~~~~~~~~~~C~H-~f~~~Ci~~~~~--~----~~~CP~Cr~~~ 116 (118)
.|.||-..+.- ...-.||| ..|..|..+... . ...||.||..+
T Consensus 2 ~c~ic~~s~~~---~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~ 51 (669)
T KOG2231|consen 2 SCAICAFSPDF---VGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREV 51 (669)
T ss_pred CcceeecCccc---cccccccccccchhhhhhhhhhcccccccccCcccccce
Confidence 58999877655 66667999 799999988753 2 23479998754
No 163
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=54.65 E-value=6.8 Score=17.73 Aligned_cols=29 Identities=21% Similarity=0.494 Sum_probs=8.8
Q ss_pred cccccccccccCCCceeeCCCChhhHHHH
Q 033497 71 RCTVCMENFLQAFPGKQVPCGHVFHATCI 99 (118)
Q Consensus 71 ~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci 99 (118)
.|.+|......+..-.-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 47778776553111223348878888874
No 164
>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=54.43 E-value=11 Score=24.53 Aligned_cols=24 Identities=29% Similarity=0.623 Sum_probs=18.1
Q ss_pred CChhhHHHHHHHhhCCCcccccCcccC
Q 033497 91 GHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 91 ~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
.+.||.+|-.+.. ..||.|..++.
T Consensus 27 ~~~fC~kCG~~tI---~~Cp~C~~~Ir 50 (158)
T PF10083_consen 27 REKFCSKCGAKTI---TSCPNCSTPIR 50 (158)
T ss_pred HHHHHHHhhHHHH---HHCcCCCCCCC
Confidence 4679999987753 46999987764
No 165
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=53.40 E-value=14 Score=31.20 Aligned_cols=47 Identities=21% Similarity=0.500 Sum_probs=31.7
Q ss_pred cccccccccccccc---CCCceeeC-CCChhhHHHHHHHh--hCCCcccccCcc
Q 033497 68 TEGRCTVCMENFLQ---AFPGKQVP-CGHVFHATCISTWI--SLSNSCPVCRSG 115 (118)
Q Consensus 68 ~~~~C~IC~~~~~~---~~~~~~~~-C~H~f~~~Ci~~~~--~~~~~CP~Cr~~ 115 (118)
....|.||-+.+-. ++.-+... |+--.|..|. ++- ..++.||.|+..
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EYEr~eG~q~CPqCktr 68 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EYERKDGNQSCPQCKTK 68 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCc
Confidence 44579999998653 22223333 8888999998 443 356679999864
No 166
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=53.06 E-value=6.5 Score=24.79 Aligned_cols=22 Identities=23% Similarity=0.440 Sum_probs=14.6
Q ss_pred cccccccccCCCceeeCCCChhhHH
Q 033497 73 TVCMENFLQAFPGKQVPCGHVFHAT 97 (118)
Q Consensus 73 ~IC~~~~~~~~~~~~~~C~H~f~~~ 97 (118)
-||... +.++....|||.||..
T Consensus 61 fi~qs~---~~rv~rcecghsf~d~ 82 (165)
T COG4647 61 FICQSA---QKRVIRCECGHSFGDY 82 (165)
T ss_pred EEEecc---cccEEEEeccccccCh
Confidence 356544 2336677899999863
No 167
>PLN02436 cellulose synthase A
Probab=52.49 E-value=14 Score=31.22 Aligned_cols=48 Identities=17% Similarity=0.418 Sum_probs=32.3
Q ss_pred cccccccccccccc---CCCceeeC-CCChhhHHHHHHHh-hCCCcccccCcc
Q 033497 68 TEGRCTVCMENFLQ---AFPGKQVP-CGHVFHATCISTWI-SLSNSCPVCRSG 115 (118)
Q Consensus 68 ~~~~C~IC~~~~~~---~~~~~~~~-C~H~f~~~Ci~~~~-~~~~~CP~Cr~~ 115 (118)
....|.||-+.+-. ++.-+... |+--.|..|..-=. ..++.||.|+..
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~ 87 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTR 87 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCc
Confidence 44579999998643 23223344 88889999994322 355679999864
No 168
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=51.96 E-value=4.1 Score=29.49 Aligned_cols=45 Identities=20% Similarity=0.406 Sum_probs=29.2
Q ss_pred ccccccccccccccCCCceee--C--CCChhhHHHHHHHhhCCCcccccCc
Q 033497 68 TEGRCTVCMENFLQAFPGKQV--P--CGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~--~--C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
....||+|-...... ++.. . =.+.+|.-|-..|-..+..||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 457899997764321 1111 1 2355777888889877788999954
No 169
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=51.89 E-value=9.7 Score=26.81 Aligned_cols=41 Identities=24% Similarity=0.473 Sum_probs=29.0
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCC--ccccc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSN--SCPVC 112 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~--~CP~C 112 (118)
.+|||=...+.. .++.-.|||.|-++-|...+.... .||+=
T Consensus 177 ~rdPis~~~I~n--PviSkkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 177 NRDPISKKPIVN--PVISKKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred ccCchhhhhhhc--hhhhcCcCcchhhhhHHHHhccCceeecccc
Confidence 778876555544 234456999999999999886644 47763
No 170
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=50.84 E-value=14 Score=27.29 Aligned_cols=22 Identities=18% Similarity=0.442 Sum_probs=13.4
Q ss_pred ccccccccccccccCCCceeeCC
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPC 90 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C 90 (118)
.+..|++|-+...- -.-.++.|
T Consensus 14 l~ElCPVCGDkVSG-YHYGLLTC 35 (475)
T KOG4218|consen 14 LGELCPVCGDKVSG-YHYGLLTC 35 (475)
T ss_pred cccccccccCcccc-ceeeeeeh
Confidence 44679999888653 22334444
No 171
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=50.49 E-value=2.4 Score=22.50 Aligned_cols=18 Identities=28% Similarity=0.733 Sum_probs=14.1
Q ss_pred ceee-CCCChhhHHHHHHH
Q 033497 85 GKQV-PCGHVFHATCISTW 102 (118)
Q Consensus 85 ~~~~-~C~H~f~~~Ci~~~ 102 (118)
.+.. .|++.||..|...|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3444 58999999998877
No 172
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=50.41 E-value=13 Score=22.38 Aligned_cols=34 Identities=15% Similarity=0.174 Sum_probs=25.9
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhh
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS 104 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~ 104 (118)
..|.||-.++..++.-..++= -..|+.|+.+-..
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k-G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK-GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC-CcEeHHHHHHHHh
Confidence 469999999988776666655 4589999987553
No 173
>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=49.21 E-value=5.9 Score=24.28 Aligned_cols=46 Identities=24% Similarity=0.369 Sum_probs=27.0
Q ss_pred cccccccccccccc--CCCceeeCCCChhhHHHHHHHhhCCC--cccccCc
Q 033497 68 TEGRCTVCMENFLQ--AFPGKQVPCGHVFHATCISTWISLSN--SCPVCRS 114 (118)
Q Consensus 68 ~~~~C~IC~~~~~~--~~~~~~~~C~H~f~~~Ci~~~~~~~~--~CP~Cr~ 114 (118)
.+..|.+|...|.. +.......|+|.+|..|-.. ..... .|-+|.+
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 55689999987643 22233445999999999644 11111 3777743
No 174
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=49.20 E-value=7.8 Score=30.40 Aligned_cols=37 Identities=24% Similarity=0.561 Sum_probs=25.3
Q ss_pred CccccccccccccccC---C-------CceeeCCCChhhHHHHHHHh
Q 033497 67 ATEGRCTVCMENFLQA---F-------PGKQVPCGHVFHATCISTWI 103 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~---~-------~~~~~~C~H~f~~~Ci~~~~ 103 (118)
.....|+||.|.|..- + ..+-+.=|-+||..|+..-.
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 4558899999998651 0 12333358899999987653
No 175
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=48.58 E-value=17 Score=29.77 Aligned_cols=48 Identities=27% Similarity=0.454 Sum_probs=30.0
Q ss_pred ccCcccccccccccccc----CC----Cce-ee-CCCChhhHHHHHHHhhCCCcccccCccc
Q 033497 65 VAATEGRCTVCMENFLQ----AF----PGK-QV-PCGHVFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 65 ~~~~~~~C~IC~~~~~~----~~----~~~-~~-~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
++..+..|+-|...|.. +. ... +. .|.|..|..=|.+ .+.||+|-..+
T Consensus 1127 i~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1127 IDPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred CCccCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 45566788888877743 11 111 12 3888887766544 37899996644
No 176
>PRK01343 zinc-binding protein; Provisional
Probab=47.40 E-value=12 Score=20.06 Aligned_cols=11 Identities=27% Similarity=0.830 Sum_probs=6.7
Q ss_pred CCcccccCccc
Q 033497 106 SNSCPVCRSGV 116 (118)
Q Consensus 106 ~~~CP~Cr~~~ 116 (118)
...||+|++++
T Consensus 9 ~~~CP~C~k~~ 19 (57)
T PRK01343 9 TRPCPECGKPS 19 (57)
T ss_pred CCcCCCCCCcC
Confidence 34577776654
No 177
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.25 E-value=11 Score=30.29 Aligned_cols=40 Identities=18% Similarity=0.316 Sum_probs=28.3
Q ss_pred ccccccccccc-cCCCceeeCCCChhhHHHHHHHhhCCCccccc
Q 033497 70 GRCTVCMENFL-QAFPGKQVPCGHVFHATCISTWISLSNSCPVC 112 (118)
Q Consensus 70 ~~C~IC~~~~~-~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~C 112 (118)
..|.+|...-. .....+.+.|+..||.+|... -...||+|
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~---~~~~~~vC 695 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVACSLD---YASISEVC 695 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhhhhh---hhccCccc
Confidence 67889976643 233456677999999999544 44558888
No 178
>PLN02195 cellulose synthase A
Probab=46.00 E-value=21 Score=29.91 Aligned_cols=47 Identities=15% Similarity=0.270 Sum_probs=31.5
Q ss_pred ccccccccccccccC---CCceeeC-CCChhhHHHHHHHh--hCCCcccccCcc
Q 033497 68 TEGRCTVCMENFLQA---FPGKQVP-CGHVFHATCISTWI--SLSNSCPVCRSG 115 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~---~~~~~~~-C~H~f~~~Ci~~~~--~~~~~CP~Cr~~ 115 (118)
....|.||-+.+..+ +.-+... |+--.|+.|. ++- ..++.||.|+..
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~ 57 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGP 57 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCc
Confidence 345799999876542 2223333 8888999998 443 356679999764
No 179
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.56 E-value=18 Score=20.46 Aligned_cols=25 Identities=28% Similarity=0.664 Sum_probs=18.2
Q ss_pred CChhhHHHHHHHhhCCCcccccCcccC
Q 033497 91 GHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 91 ~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
.+.||.+|...- -...||.|-..++
T Consensus 28 EcTFCadCae~~--l~g~CPnCGGelv 52 (84)
T COG3813 28 ECTFCADCAENR--LHGLCPNCGGELV 52 (84)
T ss_pred eeehhHhHHHHh--hcCcCCCCCchhh
Confidence 477999998754 3467999966543
No 180
>PF14353 CpXC: CpXC protein
Probab=45.10 E-value=25 Score=21.62 Aligned_cols=12 Identities=25% Similarity=0.440 Sum_probs=8.0
Q ss_pred cccccccccccc
Q 033497 70 GRCTVCMENFLQ 81 (118)
Q Consensus 70 ~~C~IC~~~~~~ 81 (118)
.+|+-|...+..
T Consensus 2 itCP~C~~~~~~ 13 (128)
T PF14353_consen 2 ITCPHCGHEFEF 13 (128)
T ss_pred cCCCCCCCeeEE
Confidence 358888777654
No 181
>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=44.01 E-value=17 Score=21.42 Aligned_cols=37 Identities=22% Similarity=0.640 Sum_probs=26.1
Q ss_pred cccccccccccccCCCceeeCCCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
...|.||-..+.. =||.||..|. ..+..|.+|-+.++
T Consensus 44 ~~~C~~CK~~v~q--------~g~~YCq~CA----YkkGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVHQ--------PGAKYCQTCA----YKKGICAMCGKKIL 80 (90)
T ss_pred Ccccccccccccc--------CCCccChhhh----cccCcccccCCeec
Confidence 4579999655443 4678999994 34567999977663
No 182
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=42.85 E-value=10 Score=33.03 Aligned_cols=46 Identities=26% Similarity=0.431 Sum_probs=32.9
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhhCCC----cccccCcc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSN----SCPVCRSG 115 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~~~~----~CP~Cr~~ 115 (118)
..|.+|..............|.-.||..|++.-+..-. .||-||..
T Consensus 1109 ~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1109 ALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred hhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 77999988865533233344889999999999875332 59999863
No 183
>PLN02400 cellulose synthase
Probab=42.06 E-value=20 Score=30.45 Aligned_cols=47 Identities=15% Similarity=0.397 Sum_probs=31.4
Q ss_pred cccccccccccccc---CCCceee-CCCChhhHHHHHHHh--hCCCcccccCcc
Q 033497 68 TEGRCTVCMENFLQ---AFPGKQV-PCGHVFHATCISTWI--SLSNSCPVCRSG 115 (118)
Q Consensus 68 ~~~~C~IC~~~~~~---~~~~~~~-~C~H~f~~~Ci~~~~--~~~~~CP~Cr~~ 115 (118)
....|.||-+.+-. ++.-+.. -|+--.|+.|. ++- ..++.||.|+..
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY-EYERkeGnq~CPQCkTr 87 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCY-EYERKDGTQCCPQCKTR 87 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchh-heecccCCccCcccCCc
Confidence 44579999998643 2222233 38888999998 432 355579999864
No 184
>PRK11595 DNA utilization protein GntX; Provisional
Probab=40.19 E-value=26 Score=23.94 Aligned_cols=8 Identities=25% Similarity=0.605 Sum_probs=4.1
Q ss_pred cccccccc
Q 033497 71 RCTVCMEN 78 (118)
Q Consensus 71 ~C~IC~~~ 78 (118)
.|.+|-..
T Consensus 7 ~C~~C~~~ 14 (227)
T PRK11595 7 LCWLCRMP 14 (227)
T ss_pred cCccCCCc
Confidence 35555443
No 185
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=39.93 E-value=13 Score=17.77 Aligned_cols=11 Identities=18% Similarity=0.634 Sum_probs=7.1
Q ss_pred ccccccccccc
Q 033497 71 RCTVCMENFLQ 81 (118)
Q Consensus 71 ~C~IC~~~~~~ 81 (118)
+|+-|...|..
T Consensus 4 ~Cp~C~~~y~i 14 (36)
T PF13717_consen 4 TCPNCQAKYEI 14 (36)
T ss_pred ECCCCCCEEeC
Confidence 47777766654
No 186
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=39.61 E-value=15 Score=17.64 Aligned_cols=11 Identities=27% Similarity=0.703 Sum_probs=7.3
Q ss_pred ccccccccccc
Q 033497 71 RCTVCMENFLQ 81 (118)
Q Consensus 71 ~C~IC~~~~~~ 81 (118)
+|+-|...|..
T Consensus 4 ~CP~C~~~f~v 14 (37)
T PF13719_consen 4 TCPNCQTRFRV 14 (37)
T ss_pred ECCCCCceEEc
Confidence 47777776654
No 187
>PF12773 DZR: Double zinc ribbon
Probab=39.18 E-value=20 Score=18.07 Aligned_cols=8 Identities=38% Similarity=1.078 Sum_probs=3.9
Q ss_pred cccccCcc
Q 033497 108 SCPVCRSG 115 (118)
Q Consensus 108 ~CP~Cr~~ 115 (118)
.||.|...
T Consensus 31 ~C~~Cg~~ 38 (50)
T PF12773_consen 31 ICPNCGAE 38 (50)
T ss_pred CCcCCcCC
Confidence 35555443
No 188
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=38.88 E-value=38 Score=24.82 Aligned_cols=42 Identities=14% Similarity=-0.021 Sum_probs=30.8
Q ss_pred cccccccccccccCCCceeeCCCCh-hhHHHHHHHhhCCCcccccCcc
Q 033497 69 EGRCTVCMENFLQAFPGKQVPCGHV-FHATCISTWISLSNSCPVCRSG 115 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~~~C~H~-f~~~Ci~~~~~~~~~CP~Cr~~ 115 (118)
.+.|-.|-+.+.. ....+|+|. ||-+|.. +....+||.|...
T Consensus 343 ~~~~~~~~~~~~s---t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 343 SLKGTSAGFGLLS---TIWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred hcccccccCceee---eEeecCCcccChhhhhh--cccCCcccccccc
Confidence 3778888777655 567789987 8999876 3445679999653
No 189
>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=38.85 E-value=29 Score=16.54 Aligned_cols=19 Identities=26% Similarity=0.658 Sum_probs=9.8
Q ss_pred hHHHHHHHhhCC--------CcccccC
Q 033497 95 HATCISTWISLS--------NSCPVCR 113 (118)
Q Consensus 95 ~~~Ci~~~~~~~--------~~CP~Cr 113 (118)
|..|+.++.... .+|+.|-
T Consensus 2 C~~C~~Ey~~p~~RR~~~~~isC~~CG 28 (35)
T PF07503_consen 2 CDDCLKEYFDPSNRRFHYQFISCTNCG 28 (35)
T ss_dssp -HHHHHHHCSTTSTTTT-TT--BTTCC
T ss_pred CHHHHHHHcCCCCCcccCcCccCCCCC
Confidence 567777765321 2588873
No 190
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=38.79 E-value=5 Score=28.75 Aligned_cols=35 Identities=26% Similarity=0.714 Sum_probs=24.8
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhh
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS 104 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~ 104 (118)
..|.+|++.+..+.......|...||..|+..|+.
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLT 249 (288)
T ss_pred eecHHHHHHHhcccccchhhccccccccccccccc
Confidence 37889988887544445555555788888888874
No 191
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=38.78 E-value=23 Score=27.21 Aligned_cols=34 Identities=24% Similarity=0.395 Sum_probs=23.7
Q ss_pred cccccccccccc-CCCceee-CCCChhhHHHHHHHh
Q 033497 70 GRCTVCMENFLQ-AFPGKQV-PCGHVFHATCISTWI 103 (118)
Q Consensus 70 ~~C~IC~~~~~~-~~~~~~~-~C~H~f~~~Ci~~~~ 103 (118)
..|.+|+.-... .++++.. .|+..||..|.....
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i 204 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLI 204 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccCCC
Confidence 569999966543 2333333 489999999987765
No 192
>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=38.38 E-value=26 Score=24.29 Aligned_cols=23 Identities=17% Similarity=0.463 Sum_probs=16.3
Q ss_pred hhhHHHHHHHhhCCCcccccCcc
Q 033497 93 VFHATCISTWISLSNSCPVCRSG 115 (118)
Q Consensus 93 ~f~~~Ci~~~~~~~~~CP~Cr~~ 115 (118)
.-|.+|-...=+....||+|+..
T Consensus 195 K~C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 195 KTCQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred chhHhHHHHHhcCCCCCcccccc
Confidence 35677776655566689999865
No 193
>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=37.34 E-value=16 Score=16.12 Aligned_cols=8 Identities=50% Similarity=1.248 Sum_probs=4.4
Q ss_pred cccccCcc
Q 033497 108 SCPVCRSG 115 (118)
Q Consensus 108 ~CP~Cr~~ 115 (118)
.||+|.+.
T Consensus 3 ~CPiC~~~ 10 (26)
T smart00734 3 QCPVCFRE 10 (26)
T ss_pred cCCCCcCc
Confidence 46666443
No 194
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=36.63 E-value=11 Score=27.05 Aligned_cols=31 Identities=16% Similarity=0.381 Sum_probs=20.3
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHH
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCIS 100 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~ 100 (118)
..|.||..+..+++.+..--|...||.-|..
T Consensus 315 ~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVG 345 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHLFCDVCDRGPHTLCVG 345 (381)
T ss_pred HhhhccCCcccchheeccccccCCCCccccc
Confidence 5677887776665544444577777777753
No 195
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=36.45 E-value=41 Score=28.56 Aligned_cols=48 Identities=21% Similarity=0.425 Sum_probs=31.8
Q ss_pred cccccccccccccc---CCCceeeC-CCChhhHHHHHHHh-hCCCcccccCcc
Q 033497 68 TEGRCTVCMENFLQ---AFPGKQVP-CGHVFHATCISTWI-SLSNSCPVCRSG 115 (118)
Q Consensus 68 ~~~~C~IC~~~~~~---~~~~~~~~-C~H~f~~~Ci~~~~-~~~~~CP~Cr~~ 115 (118)
....|.||-+..-. ++.-+... |+--.|..|..-=. ..++.||.|+..
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~ 66 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTR 66 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCc
Confidence 45679999988653 22223333 88889999993322 355679999764
No 196
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=36.13 E-value=4.9 Score=28.59 Aligned_cols=45 Identities=22% Similarity=0.340 Sum_probs=28.4
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHhh----CCCcccccCc
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS----LSNSCPVCRS 114 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~~----~~~~CP~Cr~ 114 (118)
..|+||-..-.+++....-.|...||..|+.+-+. ..-+|.+|-.
T Consensus 282 k~csicgtsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~ 330 (336)
T KOG1244|consen 282 KYCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLE 330 (336)
T ss_pred ceeccccCcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHH
Confidence 56788876644432223335889999999987653 2235888743
No 197
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 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 zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=35.33 E-value=25 Score=18.81 Aligned_cols=26 Identities=19% Similarity=0.611 Sum_probs=17.9
Q ss_pred eeeCCCChhhHHHHHHHhhC-CCcccccCcccC
Q 033497 86 KQVPCGHVFHATCISTWISL-SNSCPVCRSGVI 117 (118)
Q Consensus 86 ~~~~C~H~f~~~Ci~~~~~~-~~~CP~Cr~~~~ 117 (118)
--+.||-++|. .+. ...||+|..++.
T Consensus 20 NCl~CGkIiC~------~Eg~~~pC~fCg~~l~ 46 (57)
T PF06221_consen 20 NCLNCGKIICE------QEGPLGPCPFCGTPLL 46 (57)
T ss_pred cccccChhhcc------cccCcCcCCCCCCccc
Confidence 34568888776 334 467999987765
No 198
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=34.54 E-value=14 Score=19.40 Aligned_cols=6 Identities=50% Similarity=1.874 Sum_probs=1.6
Q ss_pred ccccCc
Q 033497 109 CPVCRS 114 (118)
Q Consensus 109 CP~Cr~ 114 (118)
||.|..
T Consensus 27 CP~C~a 32 (54)
T PF09237_consen 27 CPICGA 32 (54)
T ss_dssp -TTT--
T ss_pred CCcchh
Confidence 555544
No 199
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=33.92 E-value=36 Score=23.75 Aligned_cols=24 Identities=17% Similarity=0.444 Sum_probs=17.5
Q ss_pred ChhhHHHHHHHhhCCCcccccCcc
Q 033497 92 HVFHATCISTWISLSNSCPVCRSG 115 (118)
Q Consensus 92 H~f~~~Ci~~~~~~~~~CP~Cr~~ 115 (118)
...|.+|....-+....||+|+..
T Consensus 249 MK~ClsChqqIHRNAPiCPlCKaK 272 (286)
T KOG4451|consen 249 MKVCLSCHQQIHRNAPICPLCKAK 272 (286)
T ss_pred chHHHHHHHHHhcCCCCCcchhhc
Confidence 346777777765667789999865
No 200
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=33.41 E-value=22 Score=24.89 Aligned_cols=40 Identities=18% Similarity=0.357 Sum_probs=28.4
Q ss_pred cccccccccccccCCCcee-eCCCChhhHHHHHHHhh--CCCcccc
Q 033497 69 EGRCTVCMENFLQAFPGKQ-VPCGHVFHATCISTWIS--LSNSCPV 111 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~~~-~~C~H~f~~~Ci~~~~~--~~~~CP~ 111 (118)
+.+|+|=+.++.- +.+ ..|+|.|-.+-|...++ ..+.||.
T Consensus 189 ~nrCpitl~p~~~---pils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFY---PILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchh---HHHHhhhcccccHHHHHHHhcCCceeecch
Confidence 3789987666443 333 35999999999999887 4445764
No 201
>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=32.63 E-value=39 Score=19.78 Aligned_cols=18 Identities=17% Similarity=0.523 Sum_probs=14.0
Q ss_pred HHHhhCCCcccccCcccC
Q 033497 100 STWISLSNSCPVCRSGVI 117 (118)
Q Consensus 100 ~~~~~~~~~CP~Cr~~~~ 117 (118)
-.|+..+..|..|+++++
T Consensus 52 ~S~l~lrGrCr~C~~~I~ 69 (92)
T PF06750_consen 52 LSYLLLRGRCRYCGAPIP 69 (92)
T ss_pred HHHHHhCCCCcccCCCCC
Confidence 356677889999998875
No 202
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=32.31 E-value=17 Score=27.82 Aligned_cols=36 Identities=19% Similarity=0.407 Sum_probs=26.5
Q ss_pred CccccccccccccccCCCceeeC-CCChhhHHHHHHH
Q 033497 67 ATEGRCTVCMENFLQAFPGKQVP-CGHVFHATCISTW 102 (118)
Q Consensus 67 ~~~~~C~IC~~~~~~~~~~~~~~-C~H~f~~~Ci~~~ 102 (118)
.....|++|-..|....+..... ||.+.|.+|....
T Consensus 178 s~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~i 214 (505)
T KOG1842|consen 178 SSVQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKFI 214 (505)
T ss_pred CcccccccccchhhhHHHhhhhhhcchHHHHHHHHhc
Confidence 34478999999998744333333 9999999998654
No 203
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=31.86 E-value=40 Score=19.99 Aligned_cols=33 Identities=24% Similarity=0.372 Sum_probs=21.6
Q ss_pred ccccccccccccccCCCceee--CCCChhhHHHHHHH
Q 033497 68 TEGRCTVCMENFLQAFPGKQV--PCGHVFHATCISTW 102 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~--~C~H~f~~~Ci~~~ 102 (118)
....|.||....- -.+.-. .|...||-.|....
T Consensus 54 ~~~~C~iC~~~~G--~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSGG--ACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCCc--eeEEcCCCCCCcCCCHHHHHHC
Confidence 4578999987621 112222 28889999998664
No 204
>PLN02248 cellulose synthase-like protein
Probab=31.42 E-value=47 Score=28.50 Aligned_cols=27 Identities=22% Similarity=0.605 Sum_probs=23.8
Q ss_pred CCCChhhHHHHHHHhhCCCcccccCcc
Q 033497 89 PCGHVFHATCISTWISLSNSCPVCRSG 115 (118)
Q Consensus 89 ~C~H~f~~~Ci~~~~~~~~~CP~Cr~~ 115 (118)
.|+...|++|...-++....||-|+.+
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 175 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEP 175 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCccc
Confidence 488999999999988888889999865
No 205
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=31.09 E-value=32 Score=20.94 Aligned_cols=29 Identities=24% Similarity=0.545 Sum_probs=16.2
Q ss_pred ccccccccccccc-CCCceeeC-CCChhhHH
Q 033497 69 EGRCTVCMENFLQ-AFPGKQVP-CGHVFHAT 97 (118)
Q Consensus 69 ~~~C~IC~~~~~~-~~~~~~~~-C~H~f~~~ 97 (118)
...|+-|-..|.. ...+++.| ||..|...
T Consensus 9 KR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 3567777766654 22344444 77766654
No 206
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=30.31 E-value=31 Score=17.21 Aligned_cols=22 Identities=27% Similarity=0.341 Sum_probs=13.3
Q ss_pred ccccccccccCCCceeeCCCChhhH
Q 033497 72 CTVCMENFLQAFPGKQVPCGHVFHA 96 (118)
Q Consensus 72 C~IC~~~~~~~~~~~~~~C~H~f~~ 96 (118)
|..|...-. ..+-|.|+|.+|.
T Consensus 2 C~~C~~~~~---l~~CL~C~~~~c~ 23 (50)
T smart00290 2 CSVCGTIEN---LWLCLTCGQVGCG 23 (50)
T ss_pred cccCCCcCC---eEEecCCCCcccC
Confidence 666664322 2456678888774
No 207
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=30.28 E-value=36 Score=15.96 Aligned_cols=7 Identities=43% Similarity=1.611 Sum_probs=3.8
Q ss_pred cccccCc
Q 033497 108 SCPVCRS 114 (118)
Q Consensus 108 ~CP~Cr~ 114 (118)
.||+|..
T Consensus 20 ~CP~Cg~ 26 (34)
T cd00729 20 KCPICGA 26 (34)
T ss_pred cCcCCCC
Confidence 5666543
No 208
>PF15353 HECA: Headcase protein family homologue
Probab=30.07 E-value=43 Score=20.37 Aligned_cols=15 Identities=33% Similarity=0.992 Sum_probs=12.7
Q ss_pred CCCChhhHHHHHHHh
Q 033497 89 PCGHVFHATCISTWI 103 (118)
Q Consensus 89 ~C~H~f~~~Ci~~~~ 103 (118)
|.++.+|..|+..|-
T Consensus 39 p~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 39 PFGQYMHRECFEKWE 53 (107)
T ss_pred CCCCchHHHHHHHHH
Confidence 347889999999995
No 209
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=30.04 E-value=5.9 Score=18.26 Aligned_cols=11 Identities=27% Similarity=0.447 Sum_probs=3.8
Q ss_pred ChhhHHHHHHH
Q 033497 92 HVFHATCISTW 102 (118)
Q Consensus 92 H~f~~~Ci~~~ 102 (118)
|.||..|-.+.
T Consensus 3 ~rfC~~CG~~t 13 (32)
T PF09297_consen 3 HRFCGRCGAPT 13 (32)
T ss_dssp TSB-TTT--BE
T ss_pred CcccCcCCccc
Confidence 44555554443
No 210
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=28.91 E-value=72 Score=16.47 Aligned_cols=11 Identities=18% Similarity=0.552 Sum_probs=6.4
Q ss_pred ccccccccccc
Q 033497 71 RCTVCMENFLQ 81 (118)
Q Consensus 71 ~C~IC~~~~~~ 81 (118)
.|.+|...+..
T Consensus 3 ~C~~CgyiYd~ 13 (50)
T cd00730 3 ECRICGYIYDP 13 (50)
T ss_pred CCCCCCeEECC
Confidence 46666655553
No 211
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=28.43 E-value=16 Score=30.10 Aligned_cols=33 Identities=18% Similarity=0.522 Sum_probs=23.4
Q ss_pred ccccccccccccCCCceeeCCCChhhHHHHHHHh
Q 033497 70 GRCTVCMENFLQAFPGKQVPCGHVFHATCISTWI 103 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~~~ 103 (118)
.-|..|...... ...+...|++.+|..|++.|.
T Consensus 230 ~mC~~C~~tlfn-~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 230 EMCDRCETTLFN-IHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred hhhhhhcccccc-eeEEccccCCeeeecchhhcc
Confidence 568888765432 013344599999999999995
No 212
>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=28.39 E-value=2.9 Score=22.12 Aligned_cols=32 Identities=25% Similarity=0.545 Sum_probs=16.8
Q ss_pred cccc--cccccccCCC--c--eeeC-CCChhhHHHHHHH
Q 033497 71 RCTV--CMENFLQAFP--G--KQVP-CGHVFHATCISTW 102 (118)
Q Consensus 71 ~C~I--C~~~~~~~~~--~--~~~~-C~H~f~~~Ci~~~ 102 (118)
-|+- |-..+..... . +.-+ |++.||..|-..|
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 5665 6555543221 2 3344 9999999997766
No 213
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=27.97 E-value=22 Score=28.32 Aligned_cols=38 Identities=24% Similarity=0.413 Sum_probs=27.7
Q ss_pred cCcc-ccccccccccccCCCce-eeCCCChhhHHHHHHHh
Q 033497 66 AATE-GRCTVCMENFLQAFPGK-QVPCGHVFHATCISTWI 103 (118)
Q Consensus 66 ~~~~-~~C~IC~~~~~~~~~~~-~~~C~H~f~~~Ci~~~~ 103 (118)
++.+ ..|..|.-.|..-.+-. ...||-+||..|-...+
T Consensus 161 dW~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~ 200 (634)
T KOG1818|consen 161 DWIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSL 200 (634)
T ss_pred ccccccccceeeeeeeeccccccccccchhhccCcccccc
Confidence 4444 88999999987644333 34599999999987665
No 214
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=27.62 E-value=24 Score=15.28 Aligned_cols=7 Identities=43% Similarity=1.493 Sum_probs=3.3
Q ss_pred ccccCcc
Q 033497 109 CPVCRSG 115 (118)
Q Consensus 109 CP~Cr~~ 115 (118)
||.|...
T Consensus 5 C~~CgR~ 11 (25)
T PF13913_consen 5 CPICGRK 11 (25)
T ss_pred CCCCCCE
Confidence 5555433
No 215
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=27.38 E-value=28 Score=18.85 Aligned_cols=10 Identities=40% Similarity=1.178 Sum_probs=6.5
Q ss_pred CcccccCccc
Q 033497 107 NSCPVCRSGV 116 (118)
Q Consensus 107 ~~CP~Cr~~~ 116 (118)
-.||.||.++
T Consensus 9 LaCP~~kg~L 18 (60)
T COG2835 9 LACPVCKGPL 18 (60)
T ss_pred eeccCcCCcc
Confidence 3577777654
No 216
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=27.18 E-value=66 Score=15.49 Aligned_cols=34 Identities=21% Similarity=0.424 Sum_probs=22.5
Q ss_pred cccccccccccccCC-CceeeCCCChhhHHHHHHH
Q 033497 69 EGRCTVCMENFLQAF-PGKQVPCGHVFHATCISTW 102 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~-~~~~~~C~H~f~~~Ci~~~ 102 (118)
...|.+|.+.+.... ...-..|+-..|.+|....
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~v 45 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEKV 45 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhhc
Confidence 345999988876422 1222348888999998763
No 217
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 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 zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=26.15 E-value=24 Score=15.81 Aligned_cols=8 Identities=63% Similarity=1.493 Sum_probs=3.0
Q ss_pred ccccCccc
Q 033497 109 CPVCRSGV 116 (118)
Q Consensus 109 CP~Cr~~~ 116 (118)
||.|...+
T Consensus 2 CP~C~s~l 9 (28)
T PF03119_consen 2 CPVCGSKL 9 (28)
T ss_dssp -TTT--BE
T ss_pred cCCCCCEe
Confidence 66665544
No 218
>PRK11827 hypothetical protein; Provisional
Probab=26.00 E-value=22 Score=19.24 Aligned_cols=10 Identities=40% Similarity=1.122 Sum_probs=5.7
Q ss_pred CcccccCccc
Q 033497 107 NSCPVCRSGV 116 (118)
Q Consensus 107 ~~CP~Cr~~~ 116 (118)
-.||.|+.++
T Consensus 9 LaCP~ckg~L 18 (60)
T PRK11827 9 IACPVCNGKL 18 (60)
T ss_pred eECCCCCCcC
Confidence 3466666543
No 219
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=25.60 E-value=27 Score=27.35 Aligned_cols=33 Identities=21% Similarity=0.481 Sum_probs=22.3
Q ss_pred cccccccccccccCCCc-eeeCCCChhhHHHHHH
Q 033497 69 EGRCTVCMENFLQAFPG-KQVPCGHVFHATCIST 101 (118)
Q Consensus 69 ~~~C~IC~~~~~~~~~~-~~~~C~H~f~~~Ci~~ 101 (118)
...|-.|...|..-.+. ..-.||.+||..|-..
T Consensus 901 a~~cmacq~pf~afrrrhhcrncggifcg~cs~a 934 (990)
T KOG1819|consen 901 AEQCMACQMPFNAFRRRHHCRNCGGIFCGKCSCA 934 (990)
T ss_pred chhhhhccCcHHHHHHhhhhcccCceeecccccC
Confidence 36788888887652212 2345999999998544
No 220
>KOG3475 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=25.59 E-value=45 Score=19.38 Aligned_cols=26 Identities=15% Similarity=0.318 Sum_probs=19.2
Q ss_pred CCChhhHHHHHHHhh-CCCcccccCcc
Q 033497 90 CGHVFHATCISTWIS-LSNSCPVCRSG 115 (118)
Q Consensus 90 C~H~f~~~Ci~~~~~-~~~~CP~Cr~~ 115 (118)
=.|..|..|-.+.+- ++.+|..|-.+
T Consensus 14 kshtlC~RCG~~syH~QKstC~~CGYp 40 (92)
T KOG3475|consen 14 KSHTLCRRCGRRSYHIQKSTCSSCGYP 40 (92)
T ss_pred cchHHHHHhCchhhhhhcccccccCCc
Confidence 358889999888874 55578888654
No 221
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=25.32 E-value=38 Score=24.20 Aligned_cols=9 Identities=44% Similarity=1.128 Sum_probs=7.1
Q ss_pred cccccCccc
Q 033497 108 SCPVCRSGV 116 (118)
Q Consensus 108 ~CP~Cr~~~ 116 (118)
.||.|++.|
T Consensus 217 ~C~hC~kAF 225 (279)
T KOG2462|consen 217 SCPHCGKAF 225 (279)
T ss_pred cCCcccchh
Confidence 599998765
No 222
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=25.09 E-value=47 Score=25.40 Aligned_cols=33 Identities=24% Similarity=0.497 Sum_probs=20.1
Q ss_pred ccccccccccccCCCc-eee---CCCChhhHHHHHHHh
Q 033497 70 GRCTVCMENFLQAFPG-KQV---PCGHVFHATCISTWI 103 (118)
Q Consensus 70 ~~C~IC~~~~~~~~~~-~~~---~C~H~f~~~Ci~~~~ 103 (118)
=.|.||.- |.....+ ..+ -|||+-|.+|..+-.
T Consensus 129 C~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr~~ 165 (446)
T PF07227_consen 129 CMCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALRHE 165 (446)
T ss_pred CCccccCC-cccCCCCeeEEeccCCCceehhhhhcccc
Confidence 45677754 4332222 222 399999999987643
No 223
>PRK04023 DNA polymerase II large subunit; Validated
Probab=24.70 E-value=41 Score=28.59 Aligned_cols=47 Identities=19% Similarity=0.458 Sum_probs=30.3
Q ss_pred ccCccccccccccccccCCCceeeC-CCC-----hhhHHHHHHHhhCCCcccccCcccC
Q 033497 65 VAATEGRCTVCMENFLQAFPGKQVP-CGH-----VFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 65 ~~~~~~~C~IC~~~~~~~~~~~~~~-C~H-----~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
+......|+-|-.... ....| ||. .||..|-.. .....||.|...+.
T Consensus 622 VEVg~RfCpsCG~~t~----~frCP~CG~~Te~i~fCP~CG~~--~~~y~CPKCG~El~ 674 (1121)
T PRK04023 622 VEIGRRKCPSCGKETF----YRRCPFCGTHTEPVYRCPRCGIE--VEEDECEKCGREPT 674 (1121)
T ss_pred ecccCccCCCCCCcCC----cccCCCCCCCCCcceeCccccCc--CCCCcCCCCCCCCC
Confidence 4455578999977642 23444 874 599999433 34456999977553
No 224
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=24.45 E-value=12 Score=26.51 Aligned_cols=26 Identities=31% Similarity=0.750 Sum_probs=18.7
Q ss_pred CC-ChhhHHHHHHHhhCCC--cccccCcc
Q 033497 90 CG-HVFHATCISTWISLSN--SCPVCRSG 115 (118)
Q Consensus 90 C~-H~f~~~Ci~~~~~~~~--~CP~Cr~~ 115 (118)
|. -+||..|+.--...+. -||.|+..
T Consensus 240 C~~eWFH~~CVGL~~~PkgkWyC~~C~~~ 268 (274)
T KOG1973|consen 240 CPIEWFHFTCVGLKTKPKGKWYCPRCKAE 268 (274)
T ss_pred CCcceEEEeccccccCCCCcccchhhhhh
Confidence 87 8899999865543333 49999764
No 225
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.04 E-value=37 Score=21.40 Aligned_cols=21 Identities=29% Similarity=0.858 Sum_probs=12.7
Q ss_pred hhhHHHHHHHhhCCCcccccCccc
Q 033497 93 VFHATCISTWISLSNSCPVCRSGV 116 (118)
Q Consensus 93 ~f~~~Ci~~~~~~~~~CP~Cr~~~ 116 (118)
.||.+|-..-+ ..||.|..++
T Consensus 29 afcskcgeati---~qcp~csasi 49 (160)
T COG4306 29 AFCSKCGEATI---TQCPICSASI 49 (160)
T ss_pred HHHhhhchHHH---hcCCccCCcc
Confidence 47777765532 3477776654
No 226
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=23.70 E-value=54 Score=26.74 Aligned_cols=30 Identities=30% Similarity=0.444 Sum_probs=22.3
Q ss_pred ceeeCCCChhhHHHHHHHhhCCCcccccCc
Q 033497 85 GKQVPCGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 85 ~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
++.+|=|.+||++|-.+--..+..|-+|-.
T Consensus 41 IvqVPtGpWfCrKCesqeraarvrCeLCP~ 70 (900)
T KOG0956|consen 41 IVQVPTGPWFCRKCESQERAARVRCELCPH 70 (900)
T ss_pred eEecCCCchhhhhhhhhhhhccceeecccC
Confidence 456678999999998776555667877743
No 227
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=23.43 E-value=31 Score=19.55 Aligned_cols=34 Identities=18% Similarity=0.479 Sum_probs=20.6
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHH
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCIST 101 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~ 101 (118)
....|.+|-...--...-..-.|...||..|...
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 3467999976521100011224889999999865
No 228
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=23.28 E-value=7 Score=29.53 Aligned_cols=11 Identities=18% Similarity=0.534 Sum_probs=7.5
Q ss_pred ccccccccccc
Q 033497 70 GRCTVCMENFL 80 (118)
Q Consensus 70 ~~C~IC~~~~~ 80 (118)
++|..|...+.
T Consensus 303 FtC~~C~r~L~ 313 (468)
T KOG1701|consen 303 FTCRTCRRQLA 313 (468)
T ss_pred eehHhhhhhhc
Confidence 77778766553
No 229
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=22.88 E-value=88 Score=18.74 Aligned_cols=27 Identities=26% Similarity=0.593 Sum_probs=14.9
Q ss_pred CCChhhHHHHHHHhhCCCcccccCcccC
Q 033497 90 CGHVFHATCISTWISLSNSCPVCRSGVI 117 (118)
Q Consensus 90 C~H~f~~~Ci~~~~~~~~~CP~Cr~~~~ 117 (118)
||+--+.--+.++ ..-.+||.|+.++.
T Consensus 65 CGvC~~~LT~~EY-~~~~~Cp~C~spFN 91 (105)
T COG4357 65 CGVCRKLLTRAEY-GMCGSCPYCQSPFN 91 (105)
T ss_pred hhhhhhhhhHHHH-hhcCCCCCcCCCCC
Confidence 5543333333333 22346999998874
No 230
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=22.88 E-value=34 Score=27.90 Aligned_cols=26 Identities=27% Similarity=0.719 Sum_probs=16.4
Q ss_pred CCChhhHHHHHHHhhCCCcccccCcc
Q 033497 90 CGHVFHATCISTWISLSNSCPVCRSG 115 (118)
Q Consensus 90 C~H~f~~~Ci~~~~~~~~~CP~Cr~~ 115 (118)
|...||.+=..-...++..||+||..
T Consensus 1050 C~~~F~~eDFEl~vLqKGHCPFCrTS 1075 (1081)
T KOG1538|consen 1050 CFQMFHSEDFELLVLQKGHCPFCRTS 1075 (1081)
T ss_pred HHhhhccchhhHHHHhcCCCCccccc
Confidence 44455555444444567789999864
No 231
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.75 E-value=65 Score=23.42 Aligned_cols=48 Identities=27% Similarity=0.513 Sum_probs=33.0
Q ss_pred cCccccccccccccccCCC-ceeeCCCChhhHHHHHHHhhCCCcccccCc
Q 033497 66 AATEGRCTVCMENFLQAFP-GKQVPCGHVFHATCISTWISLSNSCPVCRS 114 (118)
Q Consensus 66 ~~~~~~C~IC~~~~~~~~~-~~~~~C~H~f~~~Ci~~~~~~~~~CP~Cr~ 114 (118)
......|..|-+.|..... .....|...||..|- +.-..-++|-.||.
T Consensus 41 ~~~~p~ckacg~~f~~~~~k~~c~dckk~fc~tcs-~v~~~lr~c~~c~r 89 (350)
T KOG4275|consen 41 SSQAPHCKACGEEFEDAQSKSDCEDCKKEFCATCS-RVSISLRTCTSCRR 89 (350)
T ss_pred ccccchhhhhchhHhhhhhhhhhhhhhHHHHHHHH-HhcccchhhhHHHH
Confidence 3344579999988876332 234458889999997 55556667888864
No 232
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=22.55 E-value=50 Score=21.88 Aligned_cols=14 Identities=21% Similarity=0.802 Sum_probs=10.7
Q ss_pred eCCCChhhHHHHHH
Q 033497 88 VPCGHVFHATCIST 101 (118)
Q Consensus 88 ~~C~H~f~~~Ci~~ 101 (118)
..|.-.||..||..
T Consensus 21 QGCs~sYHk~CLG~ 34 (175)
T PF15446_consen 21 QGCSSSYHKACLGP 34 (175)
T ss_pred CccChHHHhhhcCC
Confidence 34888899999854
No 233
>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=22.44 E-value=34 Score=13.84 Aligned_cols=6 Identities=50% Similarity=1.818 Sum_probs=2.5
Q ss_pred ccccCc
Q 033497 109 CPVCRS 114 (118)
Q Consensus 109 CP~Cr~ 114 (118)
||.|.+
T Consensus 3 C~~C~~ 8 (23)
T PF00096_consen 3 CPICGK 8 (23)
T ss_dssp ETTTTE
T ss_pred CCCCCC
Confidence 444433
No 234
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=21.83 E-value=34 Score=26.42 Aligned_cols=12 Identities=17% Similarity=0.359 Sum_probs=6.8
Q ss_pred cccccccccccc
Q 033497 70 GRCTVCMENFLQ 81 (118)
Q Consensus 70 ~~C~IC~~~~~~ 81 (118)
.-|+-|++.+..
T Consensus 27 ~yCp~CL~~~p~ 38 (483)
T PF05502_consen 27 YYCPNCLFEVPS 38 (483)
T ss_pred eECccccccCCh
Confidence 456666666543
No 235
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=21.58 E-value=67 Score=15.87 Aligned_cols=15 Identities=33% Similarity=0.953 Sum_probs=7.4
Q ss_pred HHhhCCCcccccCcc
Q 033497 101 TWISLSNSCPVCRSG 115 (118)
Q Consensus 101 ~~~~~~~~CP~Cr~~ 115 (118)
-|.--...||.|..+
T Consensus 12 G~~ML~~~Cp~C~~P 26 (41)
T PF06677_consen 12 GWTMLDEHCPDCGTP 26 (41)
T ss_pred hHhHhcCccCCCCCe
Confidence 343344556666444
No 236
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=21.31 E-value=12 Score=19.50 Aligned_cols=34 Identities=18% Similarity=0.343 Sum_probs=22.1
Q ss_pred ccccccccccccccCCCceeeCCCChhhHHHHHH
Q 033497 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCIST 101 (118)
Q Consensus 68 ~~~~C~IC~~~~~~~~~~~~~~C~H~f~~~Ci~~ 101 (118)
....|..|.+.+...+-....-||..-|.+|+..
T Consensus 6 sry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~d 39 (57)
T PF14445_consen 6 SRYSCDLCNSSHPISELRQCVLCGRWACNSCWQD 39 (57)
T ss_pred hhHhHHhhcccCcHHHHHHHhhhchhhhhhhhhh
Confidence 3467888987765533223334999888888544
No 237
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=20.64 E-value=54 Score=22.32 Aligned_cols=20 Identities=45% Similarity=0.931 Sum_probs=12.3
Q ss_pred HHHHHHHhh-CCCcccccCcc
Q 033497 96 ATCISTWIS-LSNSCPVCRSG 115 (118)
Q Consensus 96 ~~Ci~~~~~-~~~~CP~Cr~~ 115 (118)
..||.+--. ..+-||+||..
T Consensus 97 ktCIrkn~~~~gnpCPICRDe 117 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDE 117 (239)
T ss_pred hHHHhhcCeecCCCCCccccc
Confidence 467766432 33459999964
No 238
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=20.41 E-value=35 Score=27.41 Aligned_cols=26 Identities=35% Similarity=1.105 Sum_probs=19.7
Q ss_pred CCCChhhHHHHHHHhhCC-----CcccccCc
Q 033497 89 PCGHVFHATCISTWISLS-----NSCPVCRS 114 (118)
Q Consensus 89 ~C~H~f~~~Ci~~~~~~~-----~~CP~Cr~ 114 (118)
.|+-.||..|..-|+... -.||-||.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 489999999999998532 24887764
Done!