Query 043807
Match_columns 242
No_of_seqs 300 out of 1559
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 08:29:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043807.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043807hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 2.5E-17 5.3E-22 149.9 9.4 79 37-119 203-282 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 9.4E-15 2E-19 95.4 1.6 44 67-111 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.3 1.1E-12 2.3E-17 114.7 4.8 79 37-116 146-228 (238)
4 COG5243 HRD1 HRD ubiquitin lig 99.3 3.5E-12 7.5E-17 116.0 7.1 71 42-118 268-348 (491)
5 PF12678 zf-rbx1: RING-H2 zinc 99.3 2.4E-12 5.1E-17 93.2 3.9 48 64-111 17-73 (73)
6 COG5540 RING-finger-containing 99.2 1.3E-11 2.9E-16 109.6 4.8 52 64-116 321-373 (374)
7 PF12861 zf-Apc11: Anaphase-pr 99.0 3.1E-10 6.7E-15 83.8 3.8 52 65-116 20-83 (85)
8 KOG0317 Predicted E3 ubiquitin 99.0 3.9E-10 8.4E-15 99.8 4.0 50 64-117 237-286 (293)
9 PF13920 zf-C3HC4_3: Zinc fing 99.0 3.8E-10 8.3E-15 75.5 2.7 46 66-115 2-48 (50)
10 PLN03208 E3 ubiquitin-protein 98.9 7.2E-10 1.6E-14 93.7 4.4 50 64-117 16-81 (193)
11 PF13923 zf-C3HC4_2: Zinc fing 98.9 5.5E-10 1.2E-14 70.9 2.6 39 69-110 1-39 (39)
12 cd00162 RING RING-finger (Real 98.9 9.2E-10 2E-14 70.2 3.4 44 68-114 1-45 (45)
13 KOG0823 Predicted E3 ubiquitin 98.9 1E-09 2.2E-14 94.5 3.8 50 64-117 45-97 (230)
14 KOG0320 Predicted E3 ubiquitin 98.9 1.5E-09 3.2E-14 90.1 3.1 54 61-116 126-179 (187)
15 PHA02926 zinc finger-like prot 98.8 1.9E-09 4.1E-14 92.6 3.3 54 64-117 168-232 (242)
16 PF15227 zf-C3HC4_4: zinc fing 98.8 4.2E-09 9.1E-14 68.2 3.0 38 69-110 1-42 (42)
17 PF00097 zf-C3HC4: Zinc finger 98.7 7.9E-09 1.7E-13 66.0 2.8 39 69-110 1-41 (41)
18 COG5194 APC11 Component of SCF 98.7 7.7E-09 1.7E-13 75.0 2.9 53 65-117 19-83 (88)
19 KOG4445 Uncharacterized conser 98.7 9.2E-09 2E-13 91.6 3.8 114 64-191 113-249 (368)
20 PF14634 zf-RING_5: zinc-RING 98.7 1.1E-08 2.3E-13 66.7 3.0 44 68-112 1-44 (44)
21 KOG0802 E3 ubiquitin ligase [P 98.7 7.8E-09 1.7E-13 100.6 3.2 51 64-115 289-341 (543)
22 smart00504 Ubox Modified RING 98.7 2.3E-08 4.9E-13 69.4 3.8 45 67-115 2-46 (63)
23 smart00184 RING Ring finger. E 98.6 2.8E-08 6E-13 61.1 3.0 38 69-110 1-39 (39)
24 KOG1493 Anaphase-promoting com 98.6 1.1E-08 2.5E-13 73.5 0.4 54 62-115 16-81 (84)
25 TIGR00599 rad18 DNA repair pro 98.5 7.3E-08 1.6E-12 90.1 3.8 50 64-117 24-73 (397)
26 KOG2930 SCF ubiquitin ligase, 98.5 4.2E-08 9E-13 74.5 1.7 67 51-117 31-110 (114)
27 KOG0828 Predicted E3 ubiquitin 98.4 2.2E-07 4.7E-12 87.7 4.5 52 64-116 569-635 (636)
28 COG5574 PEX10 RING-finger-cont 98.4 1.8E-07 3.9E-12 82.2 2.8 49 65-117 214-264 (271)
29 KOG1734 Predicted RING-contain 98.3 1.5E-07 3.3E-12 82.8 0.4 52 64-116 222-282 (328)
30 PF13445 zf-RING_UBOX: RING-ty 98.2 6.3E-07 1.4E-11 58.3 2.3 38 69-108 1-43 (43)
31 KOG0311 Predicted E3 ubiquitin 98.2 3.3E-07 7.1E-12 83.4 0.8 61 64-132 41-102 (381)
32 KOG2164 Predicted E3 ubiquitin 98.2 6E-07 1.3E-11 85.2 2.6 47 66-116 186-237 (513)
33 smart00744 RINGv The RING-vari 98.2 1.6E-06 3.4E-11 58.0 2.9 42 68-111 1-49 (49)
34 KOG0287 Postreplication repair 98.1 6.7E-07 1.5E-11 81.1 1.2 49 65-117 22-70 (442)
35 PF11793 FANCL_C: FANCL C-term 98.1 4.5E-07 9.9E-12 65.0 -0.5 50 66-115 2-66 (70)
36 TIGR00570 cdk7 CDK-activating 98.1 2.4E-06 5.2E-11 77.3 3.6 53 65-118 2-57 (309)
37 COG5432 RAD18 RING-finger-cont 98.1 1.5E-06 3.2E-11 77.5 2.0 48 65-116 24-71 (391)
38 PF04564 U-box: U-box domain; 98.1 2.6E-06 5.6E-11 61.4 2.5 48 65-116 3-51 (73)
39 KOG2177 Predicted E3 ubiquitin 98.0 1.6E-06 3.4E-11 75.2 1.5 44 64-111 11-54 (386)
40 COG5219 Uncharacterized conser 98.0 1.2E-06 2.5E-11 88.0 0.2 52 64-115 1467-1523(1525)
41 KOG0827 Predicted E3 ubiquitin 97.9 4.6E-06 9.9E-11 76.9 2.7 47 66-112 4-53 (465)
42 KOG4265 Predicted E3 ubiquitin 97.9 1.3E-05 2.7E-10 73.4 3.8 48 65-116 289-337 (349)
43 KOG0804 Cytoplasmic Zn-finger 97.7 1E-05 2.3E-10 75.7 1.3 48 65-115 174-222 (493)
44 KOG4172 Predicted E3 ubiquitin 97.6 1.3E-05 2.9E-10 54.2 0.4 46 66-115 7-54 (62)
45 KOG1039 Predicted E3 ubiquitin 97.6 4.3E-05 9.2E-10 70.4 3.1 53 65-117 160-223 (344)
46 PF14835 zf-RING_6: zf-RING of 97.5 1.9E-05 4.1E-10 55.4 0.1 47 66-117 7-53 (65)
47 KOG0825 PHD Zn-finger protein 97.4 2.5E-05 5.4E-10 77.5 -0.9 50 66-116 123-172 (1134)
48 KOG0824 Predicted E3 ubiquitin 97.3 0.00015 3.2E-09 65.1 2.2 48 66-117 7-55 (324)
49 KOG1645 RING-finger-containing 97.2 0.00023 4.9E-09 66.3 3.2 48 66-113 4-54 (463)
50 KOG0978 E3 ubiquitin ligase in 97.2 0.0001 2.2E-09 73.1 1.0 48 65-116 642-690 (698)
51 KOG3970 Predicted E3 ubiquitin 97.2 0.00032 7E-09 60.7 3.5 54 64-119 48-109 (299)
52 KOG1785 Tyrosine kinase negati 97.1 0.00017 3.7E-09 67.0 0.8 46 67-116 370-417 (563)
53 KOG0297 TNF receptor-associate 97.0 0.00033 7.1E-09 65.9 2.4 51 64-117 19-69 (391)
54 KOG4159 Predicted E3 ubiquitin 97.0 0.0003 6.5E-09 66.1 2.0 49 64-116 82-130 (398)
55 PF11789 zf-Nse: Zinc-finger o 96.9 0.00039 8.4E-09 47.9 1.2 42 65-109 10-53 (57)
56 KOG2660 Locus-specific chromos 96.9 0.00024 5.2E-09 64.5 0.0 51 64-117 13-63 (331)
57 KOG2879 Predicted E3 ubiquitin 96.7 0.0029 6.3E-08 56.3 5.4 50 63-115 236-287 (298)
58 KOG1571 Predicted E3 ubiquitin 96.7 0.0012 2.7E-08 60.6 3.1 46 63-115 302-347 (355)
59 KOG4692 Predicted E3 ubiquitin 96.6 0.0011 2.4E-08 60.8 2.3 67 46-116 402-468 (489)
60 KOG1002 Nucleotide excision re 96.6 0.0013 2.7E-08 63.3 2.6 55 63-121 533-592 (791)
61 KOG1941 Acetylcholine receptor 96.5 0.00078 1.7E-08 62.5 0.6 49 65-114 364-415 (518)
62 PF05883 Baculo_RING: Baculovi 96.5 0.0011 2.3E-08 53.2 1.1 38 66-104 26-69 (134)
63 KOG0801 Predicted E3 ubiquitin 96.5 0.0012 2.6E-08 54.5 1.3 41 50-94 164-204 (205)
64 KOG1952 Transcription factor N 96.3 0.0024 5.2E-08 64.3 2.8 51 64-114 189-246 (950)
65 PF12906 RINGv: RING-variant d 96.3 0.0026 5.6E-08 42.0 1.8 40 69-110 1-47 (47)
66 PHA02862 5L protein; Provision 96.2 0.0046 1E-07 50.1 3.4 46 67-117 3-55 (156)
67 COG5152 Uncharacterized conser 96.2 0.0018 3.8E-08 55.2 1.0 44 67-114 197-240 (259)
68 KOG3039 Uncharacterized conser 96.1 0.0072 1.6E-07 53.1 4.4 53 65-117 220-272 (303)
69 KOG1428 Inhibitor of type V ad 96.0 0.0063 1.4E-07 64.4 3.8 69 45-116 3467-3545(3738)
70 PF10367 Vps39_2: Vacuolar sor 95.9 0.003 6.6E-08 47.8 1.0 33 64-98 76-108 (109)
71 KOG1814 Predicted E3 ubiquitin 95.9 0.0061 1.3E-07 57.0 2.9 48 65-113 183-238 (445)
72 KOG1813 Predicted E3 ubiquitin 95.8 0.0033 7.2E-08 56.5 0.9 45 67-115 242-286 (313)
73 PF14570 zf-RING_4: RING/Ubox 95.5 0.0079 1.7E-07 39.9 1.7 45 69-114 1-47 (48)
74 PHA03096 p28-like protein; Pro 95.4 0.0081 1.8E-07 54.2 1.7 46 67-112 179-231 (284)
75 KOG0826 Predicted E3 ubiquitin 95.3 0.017 3.8E-07 52.6 3.6 48 63-113 297-344 (357)
76 PHA02825 LAP/PHD finger-like p 95.2 0.023 5E-07 46.9 3.7 50 64-117 6-61 (162)
77 PF04641 Rtf2: Rtf2 RING-finge 95.1 0.034 7.3E-07 49.5 4.8 52 64-116 111-162 (260)
78 KOG3268 Predicted E3 ubiquitin 95.0 0.015 3.3E-07 48.8 2.3 31 87-117 189-230 (234)
79 COG5236 Uncharacterized conser 94.8 0.028 6E-07 51.8 3.6 70 42-117 39-110 (493)
80 PF08746 zf-RING-like: RING-li 94.4 0.021 4.6E-07 36.9 1.4 41 69-110 1-43 (43)
81 KOG4185 Predicted E3 ubiquitin 94.4 0.028 6.2E-07 50.4 2.7 47 67-114 4-54 (296)
82 KOG4739 Uncharacterized protei 94.1 0.018 3.8E-07 50.5 0.7 47 68-118 5-51 (233)
83 PF14446 Prok-RING_1: Prokaryo 94.1 0.053 1.1E-06 36.8 2.8 41 65-109 4-44 (54)
84 KOG2034 Vacuolar sorting prote 94.0 0.028 6.1E-07 57.1 1.8 36 64-101 815-850 (911)
85 PF14447 Prok-RING_4: Prokaryo 93.8 0.044 9.6E-07 37.3 1.9 46 66-117 7-52 (55)
86 KOG2114 Vacuolar assembly/sort 93.7 0.035 7.7E-07 56.2 1.9 41 66-112 840-880 (933)
87 COG5222 Uncharacterized conser 93.4 0.044 9.5E-07 49.6 1.8 43 67-112 275-318 (427)
88 COG5175 MOT2 Transcriptional r 93.3 0.056 1.2E-06 49.7 2.4 52 65-117 13-66 (480)
89 KOG4275 Predicted E3 ubiquitin 93.2 0.014 3E-07 52.5 -1.6 42 66-115 300-342 (350)
90 KOG1940 Zn-finger protein [Gen 93.0 0.053 1.1E-06 48.7 1.7 46 66-112 158-204 (276)
91 PF03854 zf-P11: P-11 zinc fin 92.5 0.05 1.1E-06 35.9 0.6 43 68-116 4-47 (50)
92 PF07800 DUF1644: Protein of u 91.0 0.22 4.8E-06 41.1 3.0 34 66-102 2-47 (162)
93 KOG0827 Predicted E3 ubiquitin 90.9 0.012 2.6E-07 54.7 -4.8 51 65-116 195-246 (465)
94 PF10272 Tmpp129: Putative tra 90.9 0.34 7.5E-06 45.1 4.6 28 88-115 311-351 (358)
95 KOG0309 Conserved WD40 repeat- 90.8 0.16 3.5E-06 51.1 2.5 41 67-109 1029-1069(1081)
96 KOG1001 Helicase-like transcri 90.7 0.089 1.9E-06 52.9 0.6 45 67-116 455-501 (674)
97 COG5183 SSM4 Protein involved 90.1 0.29 6.3E-06 49.7 3.5 55 62-118 8-69 (1175)
98 KOG2932 E3 ubiquitin ligase in 89.3 0.18 3.8E-06 45.9 1.3 43 67-114 91-133 (389)
99 PF05290 Baculo_IE-1: Baculovi 88.3 0.38 8.2E-06 38.7 2.4 52 65-116 79-133 (140)
100 KOG2817 Predicted E3 ubiquitin 87.9 0.42 9.1E-06 44.8 2.8 47 65-112 333-382 (394)
101 KOG0298 DEAD box-containing he 87.5 0.15 3.2E-06 54.0 -0.5 48 65-115 1152-1199(1394)
102 KOG3053 Uncharacterized conser 87.2 0.24 5.1E-06 44.0 0.7 56 64-120 18-87 (293)
103 COG5220 TFB3 Cdk activating ki 86.7 0.3 6.6E-06 43.0 1.1 48 65-112 9-61 (314)
104 KOG1609 Protein involved in mR 85.9 0.49 1.1E-05 42.3 2.1 51 66-117 78-136 (323)
105 KOG1100 Predicted E3 ubiquitin 84.9 0.45 9.8E-06 41.1 1.3 38 69-114 161-199 (207)
106 KOG3899 Uncharacterized conser 84.9 0.5 1.1E-05 42.8 1.6 28 88-115 325-365 (381)
107 KOG3002 Zn finger protein [Gen 84.8 0.71 1.5E-05 42.1 2.6 46 65-116 47-92 (299)
108 KOG1812 Predicted E3 ubiquitin 82.5 0.47 1E-05 44.7 0.4 37 65-102 145-182 (384)
109 KOG3800 Predicted E3 ubiquitin 82.1 1.1 2.4E-05 40.4 2.6 48 68-115 2-51 (300)
110 KOG4367 Predicted Zn-finger pr 81.1 0.91 2E-05 43.3 1.8 34 65-102 3-36 (699)
111 KOG0269 WD40 repeat-containing 80.2 1.5 3.4E-05 44.3 3.1 44 67-112 780-825 (839)
112 KOG3161 Predicted E3 ubiquitin 78.7 0.65 1.4E-05 46.2 0.0 41 66-108 11-51 (861)
113 KOG1829 Uncharacterized conser 78.1 0.9 1.9E-05 44.9 0.8 45 64-112 509-558 (580)
114 KOG4718 Non-SMC (structural ma 76.5 1.3 2.8E-05 38.4 1.2 46 67-115 182-227 (235)
115 PF07975 C1_4: TFIIH C1-like d 75.7 2.4 5.1E-05 28.5 2.1 43 69-111 2-50 (51)
116 KOG4362 Transcriptional regula 75.6 0.71 1.5E-05 46.3 -0.7 46 66-115 21-69 (684)
117 PF10571 UPF0547: Uncharacteri 75.6 1.3 2.8E-05 25.5 0.7 23 68-92 2-24 (26)
118 KOG3113 Uncharacterized conser 74.7 4.5 9.8E-05 36.0 4.1 50 66-117 111-160 (293)
119 KOG2807 RNA polymerase II tran 74.3 3.7 8.1E-05 37.8 3.6 62 49-112 314-375 (378)
120 TIGR00622 ssl1 transcription f 73.1 4.1 8.8E-05 31.9 3.1 46 66-111 55-110 (112)
121 PLN02189 cellulose synthase 72.1 8.2 0.00018 40.8 5.9 52 65-116 33-88 (1040)
122 KOG0825 PHD Zn-finger protein 70.3 2.4 5.1E-05 43.3 1.5 49 65-114 95-153 (1134)
123 PF02891 zf-MIZ: MIZ/SP-RING z 69.3 4.3 9.3E-05 26.9 2.2 43 67-113 3-50 (50)
124 KOG0802 E3 ubiquitin ligase [P 68.1 2.8 6.1E-05 41.1 1.6 47 64-118 477-523 (543)
125 PLN02638 cellulose synthase A 67.8 5.9 0.00013 41.9 3.9 51 65-115 16-70 (1079)
126 smart00132 LIM Zinc-binding do 66.8 6 0.00013 23.4 2.4 36 69-114 2-37 (39)
127 PF13901 DUF4206: Domain of un 66.7 4.2 9E-05 34.8 2.2 42 65-112 151-197 (202)
128 KOG1812 Predicted E3 ubiquitin 66.4 2.9 6.2E-05 39.5 1.2 72 40-112 279-353 (384)
129 PF14569 zf-UDP: Zinc-binding 66.1 6.7 0.00014 28.7 2.7 51 65-115 8-62 (80)
130 PLN02400 cellulose synthase 65.5 8.5 0.00018 40.8 4.4 51 65-115 35-89 (1085)
131 KOG1815 Predicted E3 ubiquitin 65.5 3.5 7.6E-05 39.4 1.6 37 64-103 68-104 (444)
132 smart00249 PHD PHD zinc finger 64.2 4.3 9.4E-05 25.0 1.4 30 69-99 2-31 (47)
133 PLN02436 cellulose synthase A 62.2 12 0.00025 39.8 4.7 52 65-116 35-90 (1094)
134 PF06844 DUF1244: Protein of u 58.9 5.7 0.00012 28.1 1.3 11 92-102 12-22 (68)
135 KOG2068 MOT2 transcription fac 58.8 8.9 0.00019 35.3 2.9 49 67-115 250-298 (327)
136 KOG2066 Vacuolar assembly/sort 57.1 4 8.7E-05 41.6 0.4 44 65-110 783-830 (846)
137 PF00628 PHD: PHD-finger; Int 56.9 5.1 0.00011 25.9 0.8 43 68-111 1-49 (51)
138 PF01363 FYVE: FYVE zinc finge 55.9 4.7 0.0001 27.9 0.5 37 65-101 8-44 (69)
139 PF04710 Pellino: Pellino; In 54.9 2.9 6.3E-05 39.4 -0.9 72 43-117 254-341 (416)
140 COG5109 Uncharacterized conser 53.5 9.1 0.0002 35.2 2.0 45 66-111 336-383 (396)
141 PF13719 zinc_ribbon_5: zinc-r 53.2 7.7 0.00017 23.9 1.1 26 68-93 4-36 (37)
142 KOG3005 GIY-YIG type nuclease 53.0 7.2 0.00016 35.0 1.3 48 67-114 183-242 (276)
143 PLN02915 cellulose synthase A 52.5 13 0.00029 39.3 3.3 51 65-115 14-68 (1044)
144 KOG3039 Uncharacterized conser 50.7 13 0.00029 33.0 2.6 34 65-102 42-75 (303)
145 cd00065 FYVE FYVE domain; Zinc 48.8 12 0.00026 24.7 1.6 35 67-101 3-37 (57)
146 PF06906 DUF1272: Protein of u 47.8 29 0.00063 23.8 3.3 46 67-117 6-54 (57)
147 COG3813 Uncharacterized protei 46.1 13 0.00027 26.9 1.4 60 68-130 7-67 (84)
148 PLN02195 cellulose synthase A 44.8 28 0.0006 36.7 4.2 51 65-115 5-59 (977)
149 PF00412 LIM: LIM domain; Int 44.4 16 0.00034 23.9 1.7 38 69-116 1-38 (58)
150 KOG3842 Adaptor protein Pellin 43.8 23 0.00049 32.8 3.0 51 65-116 340-415 (429)
151 smart00064 FYVE Protein presen 43.7 18 0.00039 24.8 1.9 36 66-101 10-45 (68)
152 PF13717 zinc_ribbon_4: zinc-r 42.6 17 0.00036 22.4 1.4 12 68-79 4-15 (36)
153 PF08693 SKG6: Transmembrane a 42.5 7.4 0.00016 24.8 -0.2 15 4-18 24-38 (40)
154 KOG2041 WD40 repeat protein [G 42.2 18 0.0004 37.0 2.3 31 81-115 1155-1185(1189)
155 KOG3579 Predicted E3 ubiquitin 40.3 25 0.00054 32.0 2.7 38 65-103 267-305 (352)
156 KOG0824 Predicted E3 ubiquitin 39.0 13 0.00029 33.9 0.8 52 63-117 102-153 (324)
157 COG4847 Uncharacterized protei 38.4 40 0.00087 25.6 3.1 36 65-102 5-40 (103)
158 smart00647 IBR In Between Ring 37.7 8.8 0.00019 25.7 -0.5 20 81-100 39-58 (64)
159 PF09943 DUF2175: Uncharacteri 37.4 34 0.00074 26.2 2.7 34 67-102 3-36 (101)
160 PF07191 zinc-ribbons_6: zinc- 36.6 8.3 0.00018 27.6 -0.7 40 67-115 2-41 (70)
161 COG3492 Uncharacterized protei 34.9 19 0.00042 27.1 0.9 12 92-103 43-54 (104)
162 PF11023 DUF2614: Protein of u 34.7 42 0.00092 26.2 2.8 30 84-119 71-100 (114)
163 PF14311 DUF4379: Domain of un 34.4 32 0.0007 22.8 1.9 23 87-110 33-55 (55)
164 PF04710 Pellino: Pellino; In 33.1 14 0.00031 34.9 0.0 49 66-115 328-401 (416)
165 KOG2789 Putative Zn-finger pro 32.7 45 0.00098 31.7 3.2 32 67-100 75-106 (482)
166 PF12273 RCR: Chitin synthesis 32.0 44 0.00096 26.2 2.7 19 3-21 6-24 (130)
167 PF07649 C1_3: C1-like domain; 30.7 32 0.00068 19.9 1.2 29 68-97 2-30 (30)
168 PF10497 zf-4CXXC_R1: Zinc-fin 30.5 51 0.0011 25.3 2.7 24 89-112 37-69 (105)
169 KOG4185 Predicted E3 ubiquitin 30.5 9.8 0.00021 34.0 -1.5 49 66-114 207-266 (296)
170 PF09538 FYDLN_acid: Protein o 30.1 45 0.00097 25.8 2.3 13 105-117 27-39 (108)
171 PF04216 FdhE: Protein involve 29.3 7.1 0.00015 35.1 -2.6 48 65-113 171-220 (290)
172 PF14169 YdjO: Cold-inducible 27.6 30 0.00066 23.9 0.9 14 104-117 39-52 (59)
173 PF07282 OrfB_Zn_ribbon: Putat 26.7 45 0.00096 22.9 1.7 34 66-99 28-63 (69)
174 KOG2231 Predicted E3 ubiquitin 26.4 60 0.0013 33.0 3.0 49 68-120 2-57 (669)
175 PF02439 Adeno_E3_CR2: Adenovi 26.3 57 0.0012 20.5 1.9 12 7-18 21-32 (38)
176 PF02318 FYVE_2: FYVE-type zin 26.3 37 0.00081 26.3 1.3 34 65-99 53-88 (118)
177 PF13832 zf-HC5HC2H_2: PHD-zin 25.8 44 0.00096 25.1 1.6 33 65-99 54-87 (110)
178 PF04423 Rad50_zn_hook: Rad50 25.3 20 0.00044 23.7 -0.3 11 105-115 21-31 (54)
179 PRK05978 hypothetical protein; 25.1 52 0.0011 27.0 2.0 28 87-119 38-67 (148)
180 PRK11088 rrmA 23S rRNA methylt 24.8 41 0.0009 29.5 1.5 26 67-93 3-28 (272)
181 PF09723 Zn-ribbon_8: Zinc rib 24.7 19 0.00041 22.8 -0.5 25 87-112 10-34 (42)
182 PF06750 DiS_P_DiS: Bacterial 24.0 45 0.00097 24.9 1.3 40 65-117 32-71 (92)
183 KOG2071 mRNA cleavage and poly 23.9 36 0.00079 33.8 1.0 34 65-100 512-556 (579)
184 smart00531 TFIIE Transcription 23.4 65 0.0014 25.9 2.3 14 104-117 123-136 (147)
185 COG1545 Predicted nucleic-acid 22.0 58 0.0013 26.2 1.7 21 86-114 33-53 (140)
186 PF13771 zf-HC5HC2H: PHD-like 21.9 57 0.0012 23.4 1.5 34 65-99 35-68 (90)
187 TIGR00686 phnA alkylphosphonat 21.7 42 0.0009 26.1 0.7 10 68-77 4-13 (109)
188 KOG1815 Predicted E3 ubiquitin 21.0 28 0.00061 33.3 -0.4 36 67-103 227-267 (444)
189 KOG4323 Polycomb-like PHD Zn-f 20.9 66 0.0014 31.2 2.1 49 66-114 168-225 (464)
190 PF14991 MLANA: Protein melan- 20.6 33 0.00072 26.9 0.0 13 7-19 38-50 (118)
191 KOG2113 Predicted RNA binding 20.4 77 0.0017 29.4 2.3 44 65-114 342-386 (394)
192 PF10083 DUF2321: Uncharacteri 20.2 54 0.0012 27.1 1.2 45 70-117 8-52 (158)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.71 E-value=2.5e-17 Score=149.92 Aligned_cols=79 Identities=32% Similarity=0.799 Sum_probs=67.2
Q ss_pred hcCCCCHHHHhcCCceeeecccccccccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCC-CCCCCCcCCC
Q 043807 37 FAKGIEEKVLLTIPILAYSAKDCKLFRVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHT-ICPVCRSPVA 115 (242)
Q Consensus 37 ~~~gl~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~-~CP~CR~~i~ 115 (242)
...++.+..++++|...|...+... .. ..|+||+|+|..|++++.|| |+|.||..||+.||..+. .||+|+..+.
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~--~~-~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDED--AT-DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccC--CC-ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 4557889999999999999987332 12 69999999999999999999 999999999999998875 5999999886
Q ss_pred CCCC
Q 043807 116 DQPK 119 (242)
Q Consensus 116 ~~~~ 119 (242)
....
T Consensus 279 ~~~~ 282 (348)
T KOG4628|consen 279 TDSG 282 (348)
T ss_pred CCCC
Confidence 5543
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.48 E-value=9.4e-15 Score=95.38 Aligned_cols=44 Identities=59% Similarity=1.232 Sum_probs=40.0
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCR 111 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR 111 (242)
++|+||++.|..++.+..++ |+|.||.+||..|++.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 37999999998888899998 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.33 E-value=1.1e-12 Score=114.74 Aligned_cols=79 Identities=32% Similarity=0.633 Sum_probs=60.7
Q ss_pred hcCCCCHHHHhcCCceeeecccccccccCCceeeeecccccCCc----eeeecCCCCccccHhHHHHHHhcCCCCCCCCc
Q 043807 37 FAKGIEEKVLLTIPILAYSAKDCKLFRVDQSECVICLGELEDGE----MVRLLPSCRHAFHVQCIGNWLLGHTICPVCRS 112 (242)
Q Consensus 37 ~~~gl~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~ 112 (242)
...|.....++.+|.+........ ....+.+|+||++.+.+++ .+.+++.|+|.||..||.+|+..+.+||+||.
T Consensus 146 ~k~~~~~~~i~~lp~vl~~~e~~~-~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~ 224 (238)
T PHA02929 146 KKGKNYKKFLKTIPSVLSEYEKLY-NRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224 (238)
T ss_pred HhcchhHHHHHhcchhhhhhhhhh-cCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCC
Confidence 356778999999999875544321 1234679999999987643 13355569999999999999999999999999
Q ss_pred CCCC
Q 043807 113 PVAD 116 (242)
Q Consensus 113 ~i~~ 116 (242)
.+..
T Consensus 225 ~~~~ 228 (238)
T PHA02929 225 PFIS 228 (238)
T ss_pred EeeE
Confidence 8753
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=3.5e-12 Score=115.96 Aligned_cols=71 Identities=28% Similarity=0.679 Sum_probs=52.2
Q ss_pred CHHHHhcCCceeeecccccccccCCceeeeeccc-ccCC---------ceeeecCCCCccccHhHHHHHHhcCCCCCCCC
Q 043807 42 EEKVLLTIPILAYSAKDCKLFRVDQSECVICLGE-LEDG---------EMVRLLPSCRHAFHVQCIGNWLLGHTICPVCR 111 (242)
Q Consensus 42 ~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~-~~~~---------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR 111 (242)
.++.-+.+|.+..... ..++..|.||+++ |..+ .++..+| |||+||..|+..|++++.+||+||
T Consensus 268 ~kdl~~~~~t~t~eql-----~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr 341 (491)
T COG5243 268 TKDLNAMYPTATEEQL-----TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICR 341 (491)
T ss_pred hhHHHhhcchhhhhhh-----cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCccc
Confidence 3444445554443333 2467899999999 4443 2567888 999999999999999999999999
Q ss_pred cCCCCCC
Q 043807 112 SPVADQP 118 (242)
Q Consensus 112 ~~i~~~~ 118 (242)
.++..+.
T Consensus 342 ~p~ifd~ 348 (491)
T COG5243 342 RPVIFDQ 348 (491)
T ss_pred Ccccccc
Confidence 9954443
No 5
>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=99.29 E-value=2.4e-12 Score=93.20 Aligned_cols=48 Identities=40% Similarity=0.955 Sum_probs=36.7
Q ss_pred cCCceeeeecccccCC---------ceeeecCCCCccccHhHHHHHHhcCCCCCCCC
Q 043807 64 VDQSECVICLGELEDG---------EMVRLLPSCRHAFHVQCIGNWLLGHTICPVCR 111 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~---------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR 111 (242)
..+..|+||++.|.+. +....+..|||.||..||.+||+.+.+||+||
T Consensus 17 ~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 17 IADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3456799999999432 23333434999999999999999999999997
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=1.3e-11 Score=109.65 Aligned_cols=52 Identities=40% Similarity=1.016 Sum_probs=46.9
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHh-cCCCCCCCCcCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL-GHTICPVCRSPVAD 116 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~CR~~i~~ 116 (242)
....+|+|||+.|..++.++++| |.|.||..|+++|+. -+..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 34578999999999999999999 999999999999998 46789999999864
No 7
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.00 E-value=3.1e-10 Score=83.85 Aligned_cols=52 Identities=31% Similarity=0.744 Sum_probs=41.5
Q ss_pred CCceeeeecccccC---------CceeeecCCCCccccHhHHHHHHhc---CCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELED---------GEMVRLLPSCRHAFHVQCIGNWLLG---HTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~~---------~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~CR~~i~~ 116 (242)
.++.|.||...|.. ++...++..|+|.||..||.+|+.. +..||+||+++..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 47899999999863 2334455569999999999999984 5789999998753
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=3.9e-10 Score=99.84 Aligned_cols=50 Identities=28% Similarity=0.711 Sum_probs=43.2
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
.....|.+||+...++ ..+| |||+||..||..|......||+||..+.+.
T Consensus 237 ~a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 3457899999998774 4666 999999999999999999999999988654
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.96 E-value=3.8e-10 Score=75.48 Aligned_cols=46 Identities=41% Similarity=0.948 Sum_probs=39.2
Q ss_pred CceeeeecccccCCceeeecCCCCcc-ccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHA-FHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
+..|.||++.... +.++| |||. ||..|+..|+.....||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4589999999765 67777 9999 999999999999999999999874
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.94 E-value=7.2e-10 Score=93.72 Aligned_cols=50 Identities=34% Similarity=0.789 Sum_probs=40.6
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhc----------------CCCCCCCCcCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG----------------HTICPVCRSPVADQ 117 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----------------~~~CP~CR~~i~~~ 117 (242)
.++.+|+||++.+.++ ++++ |||.||..||..|+.. ...||+||..+...
T Consensus 16 ~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 16 GGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 3567899999998764 4566 9999999999999852 35799999998653
No 11
>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=98.93 E-value=5.5e-10 Score=70.94 Aligned_cols=39 Identities=49% Similarity=1.070 Sum_probs=32.7
Q ss_pred eeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCC
Q 043807 69 CVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVC 110 (242)
Q Consensus 69 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C 110 (242)
|+||++.+.+ .+..++ |||.||..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999886 245666 99999999999999999999998
No 12
>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=98.92 E-value=9.2e-10 Score=70.24 Aligned_cols=44 Identities=52% Similarity=1.206 Sum_probs=36.2
Q ss_pred eeeeecccccCCceeeecCCCCccccHhHHHHHHhc-CCCCCCCCcCC
Q 043807 68 ECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG-HTICPVCRSPV 114 (242)
Q Consensus 68 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~CR~~i 114 (242)
.|+||++.+. +.+...+ |+|.||..|+..|+.. +..||+|+..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999983 2344555 9999999999999987 77899998764
No 13
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=1e-09 Score=94.52 Aligned_cols=50 Identities=32% Similarity=0.669 Sum_probs=41.3
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhc---CCCCCCCCcCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG---HTICPVCRSPVADQ 117 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~CR~~i~~~ 117 (242)
....+|.|||+.-+++ +++. |||.||..||.+||.. ...||+|+..+...
T Consensus 45 ~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 4668999999998874 4555 9999999999999974 45799999988554
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.5e-09 Score=90.10 Aligned_cols=54 Identities=31% Similarity=0.696 Sum_probs=44.0
Q ss_pred ccccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 61 LFRVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 61 ~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
........|+|||+.+... +.+-.+|||+||..||..-++....||+|++.|..
T Consensus 126 ~~~~~~~~CPiCl~~~sek--~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 126 LRKEGTYKCPICLDSVSEK--VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred cccccccCCCceecchhhc--cccccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 3444567899999999864 33434699999999999999999999999987753
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=98.84 E-value=1.9e-09 Score=92.58 Aligned_cols=54 Identities=31% Similarity=0.734 Sum_probs=41.6
Q ss_pred cCCceeeeecccccC-----CceeeecCCCCccccHhHHHHHHhcC------CCCCCCCcCCCCC
Q 043807 64 VDQSECVICLGELED-----GEMVRLLPSCRHAFHVQCIGNWLLGH------TICPVCRSPVADQ 117 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~-----~~~~~~lp~C~H~Fh~~Ci~~wl~~~------~~CP~CR~~i~~~ 117 (242)
..+.+|+||++..-+ +....+++.|+|.||..||..|...+ .+||+||..+...
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 356789999998633 22345677799999999999999743 4599999987544
No 16
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.79 E-value=4.2e-09 Score=68.19 Aligned_cols=38 Identities=37% Similarity=0.830 Sum_probs=28.9
Q ss_pred eeeecccccCCceeeecCCCCccccHhHHHHHHhcC----CCCCCC
Q 043807 69 CVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGH----TICPVC 110 (242)
Q Consensus 69 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~----~~CP~C 110 (242)
|+||++.|.+ .+.++ |||.||..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999988 45676 99999999999999753 469987
No 17
>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=98.72 E-value=7.9e-09 Score=65.95 Aligned_cols=39 Identities=51% Similarity=1.209 Sum_probs=33.5
Q ss_pred eeeecccccCCceeeecCCCCccccHhHHHHHHh--cCCCCCCC
Q 043807 69 CVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL--GHTICPVC 110 (242)
Q Consensus 69 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~C 110 (242)
|+||++.+..+ ..+++ |||.||..||.+|+. ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998864 34666 999999999999998 56789998
No 18
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.72 E-value=7.7e-09 Score=74.99 Aligned_cols=53 Identities=30% Similarity=0.599 Sum_probs=41.6
Q ss_pred CCceeeeecccccC------------CceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 65 DQSECVICLGELED------------GEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 65 ~~~~C~ICl~~~~~------------~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
.-+.|+||...|.+ ++.+.+...|.|.||..||.+||..+..||++|+++...
T Consensus 19 ~id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 19 PIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred ccchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 34678888776632 344555556999999999999999999999999988543
No 19
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.71 E-value=9.2e-09 Score=91.57 Aligned_cols=114 Identities=23% Similarity=0.466 Sum_probs=79.6
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhc-----------------------CCCCCCCCcCCCCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG-----------------------HTICPVCRSPVADQPKS 120 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----------------------~~~CP~CR~~i~~~~~~ 120 (242)
....+|+|||..|.+++.+.+++ |.|.||..|+..+|.. ...||+||..|.....
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~- 190 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN- 190 (368)
T ss_pred CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc-
Confidence 45678999999999999888887 9999999999876631 2369999999965533
Q ss_pred CCcccCCCCCCcccccccccccccccchHHHHHHHHhhhhcccccCCCceeEEEeccCCcccccccCCCCC
Q 043807 121 TSGEAANLPNYKIMITSCLDVVSLATSIEDKQQLLATTLKRSLSMDECSNYVIVRLQNHDHIMCKQEGDDD 191 (242)
Q Consensus 121 ~~~~~~~~p~~~~~~~~~~~~~s~~~~~e~~q~~~~~~~~Rs~s~~~~~~~~i~d~~~~~~~~~~~~~~d~ 191 (242)
..+.+..|.+....... ...++..++..+ ..+.|+.+-|. |||+++++.-+..+++..|
T Consensus 191 -slk~a~~Pt~~l~~~~~-----~~eslrq~~~r~-~ly~~qk~rg~-----iid~~ae~~a~~~ies~~d 249 (368)
T KOG4445|consen 191 -SLKIAEFPTYPMELYQP-----SAESLRQQEERK-RLYQRQQERGG-----IIDLEAERPAPAEPESAVD 249 (368)
T ss_pred -ceeccCCCccccccCcc-----cHHHHHHHHHHH-HHHHHHhhcCc-----eEeeeccCCCCCCchhHHH
Confidence 34455566665544322 111233344445 77777777776 9999998766666665544
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.71 E-value=1.1e-08 Score=66.73 Aligned_cols=44 Identities=30% Similarity=0.737 Sum_probs=37.3
Q ss_pred eeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCc
Q 043807 68 ECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRS 112 (242)
Q Consensus 68 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~ 112 (242)
.|.||++.|.+.....+++ |||+||..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4899999995555677776 9999999999999866789999984
No 21
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=7.8e-09 Score=100.64 Aligned_cols=51 Identities=37% Similarity=0.949 Sum_probs=44.2
Q ss_pred cCCceeeeecccccCCce--eeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 64 VDQSECVICLGELEDGEM--VRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~--~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
..+..|+||++.+..+.. +..++ |+|+||..|+..|+++..+||+||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 346789999999987654 67887 9999999999999999999999999543
No 22
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.66 E-value=2.3e-08 Score=69.40 Aligned_cols=45 Identities=31% Similarity=0.614 Sum_probs=39.8
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
..|+||++.+.++ ++++ |||+|+..||..|+..+.+||+|+.++.
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 5799999999874 4666 9999999999999998899999998874
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.62 E-value=2.8e-08 Score=61.10 Aligned_cols=38 Identities=50% Similarity=1.205 Sum_probs=32.0
Q ss_pred eeeecccccCCceeeecCCCCccccHhHHHHHHh-cCCCCCCC
Q 043807 69 CVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL-GHTICPVC 110 (242)
Q Consensus 69 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~C 110 (242)
|+||++... ....++ |+|.||..|+..|+. .+..||+|
T Consensus 1 C~iC~~~~~---~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999843 366776 999999999999998 66789987
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=1.1e-08 Score=73.51 Aligned_cols=54 Identities=30% Similarity=0.692 Sum_probs=42.1
Q ss_pred cccCCceeeeecccccC---------CceeeecCCCCccccHhHHHHHHhc---CCCCCCCCcCCC
Q 043807 62 FRVDQSECVICLGELED---------GEMVRLLPSCRHAFHVQCIGNWLLG---HTICPVCRSPVA 115 (242)
Q Consensus 62 ~~~~~~~C~ICl~~~~~---------~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~CR~~i~ 115 (242)
-...++.|.||...|.. ++.+.++..|.|.||..||.+|+.. +..||+||..+.
T Consensus 16 W~~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 16 WDAPDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred EcCCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 34566799999999853 3444555569999999999999964 567999999874
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.51 E-value=7.3e-08 Score=90.10 Aligned_cols=50 Identities=28% Similarity=0.599 Sum_probs=42.6
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
.....|+||++.|..+ ++++ |||.||..||..|+.....||+|+..+...
T Consensus 24 e~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 24 DTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred ccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 4567899999999764 4566 999999999999999888999999988643
No 26
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=4.2e-08 Score=74.53 Aligned_cols=67 Identities=25% Similarity=0.550 Sum_probs=48.8
Q ss_pred ceeeecccccccccCCceeeeecccc-------------cCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 51 ILAYSAKDCKLFRVDQSECVICLGEL-------------EDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 51 ~~~~~~~~~~~~~~~~~~C~ICl~~~-------------~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
..++.....-.-+...+.|+||..-+ ..++.++....|.|.||..||.+||+.+..||+|.+++..+
T Consensus 31 lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~q 110 (114)
T KOG2930|consen 31 LKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQ 110 (114)
T ss_pred EeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEe
Confidence 33444444334445567899987654 23455666667999999999999999999999999887544
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.42 E-value=2.2e-07 Score=87.67 Aligned_cols=52 Identities=40% Similarity=0.969 Sum_probs=39.9
Q ss_pred cCCceeeeecccccC---C-----------ceeeecCCCCccccHhHHHHHHhc-CCCCCCCCcCCCC
Q 043807 64 VDQSECVICLGELED---G-----------EMVRLLPSCRHAFHVQCIGNWLLG-HTICPVCRSPVAD 116 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~---~-----------~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~CR~~i~~ 116 (242)
....+|+||+..+.- + ....+.| |.|+||..|+.+|+.. +-.||+||.++++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 345689999998742 1 1133456 9999999999999994 5599999999864
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=1.8e-07 Score=82.17 Aligned_cols=49 Identities=33% Similarity=0.743 Sum_probs=40.7
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHH-HHhcCCC-CCCCCcCCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGN-WLLGHTI-CPVCRSPVADQ 117 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~-wl~~~~~-CP~CR~~i~~~ 117 (242)
.+..|+||++.... ...++ |||+||..||.. |-..+.. ||+||+...++
T Consensus 214 ~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 214 ADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred cccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 46789999999876 45666 999999999999 9877665 99999987654
No 29
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=1.5e-07 Score=82.78 Aligned_cols=52 Identities=29% Similarity=0.718 Sum_probs=42.0
Q ss_pred cCCceeeeecccccCCc-------eeeecCCCCccccHhHHHHHHh--cCCCCCCCCcCCCC
Q 043807 64 VDQSECVICLGELEDGE-------MVRLLPSCRHAFHVQCIGNWLL--GHTICPVCRSPVAD 116 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~-------~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~CR~~i~~ 116 (242)
.++..|+||-..+.... ..-.+. |+|+||..||..|.. .+++||.|++.+.-
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 46678999999875443 456676 999999999999975 57899999988743
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.25 E-value=6.3e-07 Score=58.27 Aligned_cols=38 Identities=29% Similarity=0.669 Sum_probs=22.3
Q ss_pred eeeecccccCC-ceeeecCCCCccccHhHHHHHHhcC----CCCC
Q 043807 69 CVICLGELEDG-EMVRLLPSCRHAFHVQCIGNWLLGH----TICP 108 (242)
Q Consensus 69 C~ICl~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~~----~~CP 108 (242)
|+||.+ |..+ ....+|+ |||+|+.+||.+|+..+ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 7554 4567788 99999999999999743 3566
No 31
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=3.3e-07 Score=83.42 Aligned_cols=61 Identities=31% Similarity=0.562 Sum_probs=46.4
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHh-cCCCCCCCCcCCCCCCCCCCcccCCCCCCc
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL-GHTICPVCRSPVADQPKSTSGEAANLPNYK 132 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~CR~~i~~~~~~~~~~~~~~p~~~ 132 (242)
..+..|+|||+.+... +..+.|.|.||.+||..-++ .+..||.||..+... ..+...|+++
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk-----rsLr~Dp~fd 102 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK-----RSLRIDPNFD 102 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc-----ccCCCCccHH
Confidence 4567899999999763 44457999999999988776 578999999988655 3334455554
No 32
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=6e-07 Score=85.16 Aligned_cols=47 Identities=30% Similarity=0.575 Sum_probs=38.0
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhc-----CCCCCCCCcCCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG-----HTICPVCRSPVAD 116 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~CR~~i~~ 116 (242)
+..|+|||+..... ..+ .|||+||..||.++|.. ...||+|+..|..
T Consensus 186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 67899999997653 233 49999999999998863 3579999998865
No 33
>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=98.16 E-value=1.6e-06 Score=57.97 Aligned_cols=42 Identities=31% Similarity=0.793 Sum_probs=32.3
Q ss_pred eeeeecccccCCceeeecCCCC-----ccccHhHHHHHHhc--CCCCCCCC
Q 043807 68 ECVICLGELEDGEMVRLLPSCR-----HAFHVQCIGNWLLG--HTICPVCR 111 (242)
Q Consensus 68 ~C~ICl~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~--~~~CP~CR 111 (242)
.|.||++.. .++...+.| |. |.+|..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~~~-~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEG-DEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCC-CCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 489999933 344455777 85 89999999999964 45899995
No 34
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.15 E-value=6.7e-07 Score=81.05 Aligned_cols=49 Identities=31% Similarity=0.677 Sum_probs=41.9
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
.-..|.||.+.|..+ .++| |+|.||.-||..+|..+..||.|+.++.+.
T Consensus 22 ~lLRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES 70 (442)
T ss_pred HHHHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence 346799999999863 4556 999999999999999999999999887543
No 35
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.11 E-value=4.5e-07 Score=65.02 Aligned_cols=50 Identities=40% Similarity=0.943 Sum_probs=23.5
Q ss_pred Cceeeeeccccc-CCce-eeecC--CCCccccHhHHHHHHhc---C--------CCCCCCCcCCC
Q 043807 66 QSECVICLGELE-DGEM-VRLLP--SCRHAFHVQCIGNWLLG---H--------TICPVCRSPVA 115 (242)
Q Consensus 66 ~~~C~ICl~~~~-~~~~-~~~lp--~C~H~Fh~~Ci~~wl~~---~--------~~CP~CR~~i~ 115 (242)
+.+|.||+..+. .++. ..+.+ .|++.||..||.+||.. . ..||.|+.+|.
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 458999999876 3322 22332 69999999999999962 1 25999998774
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=98.09 E-value=2.4e-06 Score=77.29 Aligned_cols=53 Identities=21% Similarity=0.552 Sum_probs=38.5
Q ss_pred CCceeeeeccc-ccCCc-eeeecCCCCccccHhHHHHHH-hcCCCCCCCCcCCCCCC
Q 043807 65 DQSECVICLGE-LEDGE-MVRLLPSCRHAFHVQCIGNWL-LGHTICPVCRSPVADQP 118 (242)
Q Consensus 65 ~~~~C~ICl~~-~~~~~-~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~CR~~i~~~~ 118 (242)
++..|+||... +..++ .+.+. .|||.||..|++..+ .....||.|+..+....
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 34689999995 33333 33333 499999999999965 45668999998886544
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.08 E-value=1.5e-06 Score=77.49 Aligned_cols=48 Identities=29% Similarity=0.603 Sum_probs=40.6
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
.-..|.||-+.|..+ ++..|||.||.-||..+|..+..||+||.+..+
T Consensus 24 s~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 24 SMLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred hHHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence 346799999999853 444599999999999999999999999987644
No 38
>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=98.06 E-value=2.6e-06 Score=61.45 Aligned_cols=48 Identities=27% Similarity=0.496 Sum_probs=37.2
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhc-CCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG-HTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~CR~~i~~ 116 (242)
+...|+|+.+.+.+ .++++ +||.|.+.||..|+.. +.+||+|+.++..
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 45789999999988 45677 9999999999999998 8899999988753
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=1.6e-06 Score=75.19 Aligned_cols=44 Identities=39% Similarity=0.841 Sum_probs=39.0
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCR 111 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR 111 (242)
.+...|+||++.|..+ .+++ |+|.||..|+..|+.....||.||
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 4677999999999986 6777 999999999999988667899999
No 40
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.02 E-value=1.2e-06 Score=88.04 Aligned_cols=52 Identities=29% Similarity=0.821 Sum_probs=39.2
Q ss_pred cCCceeeeecccccCCc---eeeecCCCCccccHhHHHHHHh--cCCCCCCCCcCCC
Q 043807 64 VDQSECVICLGELEDGE---MVRLLPSCRHAFHVQCIGNWLL--GHTICPVCRSPVA 115 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~CR~~i~ 115 (242)
.+..+|+||+..+..-+ .-...+.|.|.||..|+.+|++ .+.+||+||..++
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 35678999999875211 1123346999999999999997 4678999998774
No 41
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=4.6e-06 Score=76.87 Aligned_cols=47 Identities=30% Similarity=0.868 Sum_probs=36.0
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhc---CCCCCCCCc
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG---HTICPVCRS 112 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~CR~ 112 (242)
...|.||.+.+.....+.-+..|||+||..|+.+|+.. +..||+|+-
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence 35899996655544444444459999999999999984 468999993
No 42
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=1.3e-05 Score=73.36 Aligned_cols=48 Identities=40% Similarity=0.914 Sum_probs=41.5
Q ss_pred CCceeeeecccccCCceeeecCCCCcc-ccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHA-FHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
...+|.||+.+..+ +.+|| |-|. .|..|.+...-++..||+||.++..
T Consensus 289 ~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 289 SGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred CCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 35689999999876 77898 9997 9999999877778899999999854
No 43
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.74 E-value=1e-05 Score=75.74 Aligned_cols=48 Identities=29% Similarity=0.822 Sum_probs=38.2
Q ss_pred CCceeeeecccccCCc-eeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 65 DQSECVICLGELEDGE-MVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
+-.+|+|||+-+.... .++... |.|.||..|+..|.. .+||+||....
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeee-cccccchHHHhhccc--CcChhhhhhcC
Confidence 4568999999987653 344555 999999999999964 68999997654
No 44
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=1.3e-05 Score=54.24 Aligned_cols=46 Identities=33% Similarity=0.710 Sum_probs=35.9
Q ss_pred CceeeeecccccCCceeeecCCCCcc-ccHhHHHHHHh-cCCCCCCCCcCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHA-FHVQCIGNWLL-GHTICPVCRSPVA 115 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~-~~~~CP~CR~~i~ 115 (242)
+.+|.||++.-.+. ++-.|||. .|..|-.+.++ .+..||+||+++.
T Consensus 7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 37899999986653 33349997 88899776555 7889999999874
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.59 E-value=4.3e-05 Score=70.45 Aligned_cols=53 Identities=32% Similarity=0.852 Sum_probs=40.6
Q ss_pred CCceeeeecccccCCc----eeeecCCCCccccHhHHHHHHh--c-----CCCCCCCCcCCCCC
Q 043807 65 DQSECVICLGELEDGE----MVRLLPSCRHAFHVQCIGNWLL--G-----HTICPVCRSPVADQ 117 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~----~~~~lp~C~H~Fh~~Ci~~wl~--~-----~~~CP~CR~~i~~~ 117 (242)
.+..|.||++.+.+.. ....+|+|.|.||..||..|-. + .+.||.||......
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 4678999999876532 1334577999999999999983 3 57899999876443
No 46
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.55 E-value=1.9e-05 Score=55.38 Aligned_cols=47 Identities=34% Similarity=0.721 Sum_probs=23.9
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
-..|++|.+.+..+ +.+..|.|+||..||..-+. ..||+|+.+...+
T Consensus 7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q 53 (65)
T PF14835_consen 7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ 53 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence 35799999999874 33446999999999988554 4599998876443
No 47
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.41 E-value=2.5e-05 Score=77.46 Aligned_cols=50 Identities=26% Similarity=0.534 Sum_probs=40.9
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
...|++|+..+.+.......+ |+|+||..||..|-+.-.+||+||..+..
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 456888888887665444555 99999999999999999999999987643
No 48
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=0.00015 Score=65.15 Aligned_cols=48 Identities=31% Similarity=0.609 Sum_probs=37.9
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHh-cCCCCCCCCcCCCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL-GHTICPVCRSPVADQ 117 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~CR~~i~~~ 117 (242)
..+|+||+....-+ +.++ |+|.||..||..-.+ ...+|++||.+|...
T Consensus 7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 45899999986553 4555 999999999987655 456799999998653
No 49
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.00023 Score=66.28 Aligned_cols=48 Identities=33% Similarity=0.764 Sum_probs=37.8
Q ss_pred CceeeeecccccC-CceeeecCCCCccccHhHHHHHHhc--CCCCCCCCcC
Q 043807 66 QSECVICLGELED-GEMVRLLPSCRHAFHVQCIGNWLLG--HTICPVCRSP 113 (242)
Q Consensus 66 ~~~C~ICl~~~~~-~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~CR~~ 113 (242)
...|+||++.+.. ++...+.+.|||.|-..||.+||.+ ...||.|...
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 4689999998864 4555556679999999999999953 3579999753
No 50
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.22 E-value=0.0001 Score=73.10 Aligned_cols=48 Identities=21% Similarity=0.641 Sum_probs=39.0
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHh-cCCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL-GHTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~CR~~i~~ 116 (242)
.-..|++|-..+.+ + +++.|||+||..|+...+. ++..||.|.+.|..
T Consensus 642 ~~LkCs~Cn~R~Kd---~-vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD---A-VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCchhh---H-HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 34689999987775 3 4446999999999999886 57899999998854
No 51
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.19 E-value=0.00032 Score=60.71 Aligned_cols=54 Identities=26% Similarity=0.621 Sum_probs=44.7
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhc--------CCCCCCCCcCCCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG--------HTICPVCRSPVADQPK 119 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~CR~~i~~~~~ 119 (242)
+....|..|-..+..++.+++. |.|.||.+|+++|-.. ...||.|..+|++...
T Consensus 48 DY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N 109 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN 109 (299)
T ss_pred CCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence 3556799999999999988764 9999999999999752 3579999999976543
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.08 E-value=0.00017 Score=66.96 Aligned_cols=46 Identities=30% Similarity=0.816 Sum_probs=37.3
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhc--CCCCCCCCcCCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG--HTICPVCRSPVAD 116 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~CR~~i~~ 116 (242)
.-|-||-+.-++ +..-| |||..|..|+..|-.. ..+||.||..|--
T Consensus 370 eLCKICaendKd---vkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAENDKD---VKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhccCCC---ccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 359999887544 67777 9999999999999843 5789999998743
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.04 E-value=0.00033 Score=65.93 Aligned_cols=51 Identities=31% Similarity=0.664 Sum_probs=42.6
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
..+..|++|...+.++-. .. .|||.||..|+..|+..+..||.|+..+...
T Consensus 19 ~~~l~C~~C~~vl~~p~~--~~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQ--TT-TCGHRFCAGCLLESLSNHQKCPVCRQELTQA 69 (391)
T ss_pred cccccCccccccccCCCC--CC-CCCCcccccccchhhccCcCCcccccccchh
Confidence 466899999999988622 12 5999999999999999999999998877544
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.03 E-value=0.0003 Score=66.11 Aligned_cols=49 Identities=31% Similarity=0.736 Sum_probs=42.3
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
..+..|.||+..+..+ +++| |||.||..||++-+.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 4567899999998764 4666 99999999999988888999999999875
No 55
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.91 E-value=0.00039 Score=47.87 Aligned_cols=42 Identities=33% Similarity=0.628 Sum_probs=27.7
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHh--cCCCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL--GHTICPV 109 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~ 109 (242)
-...|+|.+..|.++ ++-. .|+|.|-+..|.+|+. ....||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 456899999999875 4444 4999999999999994 3557998
No 56
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.88 E-value=0.00024 Score=64.46 Aligned_cols=51 Identities=27% Similarity=0.621 Sum_probs=42.3
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
.....|.+|-..|-+... .+.|-|.||+.||..+|..+..||.|...+-..
T Consensus 13 n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 355689999999987533 336999999999999999999999999877544
No 57
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.0029 Score=56.28 Aligned_cols=50 Identities=24% Similarity=0.495 Sum_probs=38.6
Q ss_pred ccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHh--cCCCCCCCCcCCC
Q 043807 63 RVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL--GHTICPVCRSPVA 115 (242)
Q Consensus 63 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~CR~~i~ 115 (242)
...+.+|++|.+.-..+ .... +|+|+||..||..-+. ...+||.|..+..
T Consensus 236 ~t~~~~C~~Cg~~PtiP--~~~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIP--HVIG-KCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccCCceeeccCCCCCCC--eeec-cccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 35678999999987665 2333 4999999999987654 3579999988775
No 58
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.0012 Score=60.58 Aligned_cols=46 Identities=30% Similarity=0.650 Sum_probs=34.2
Q ss_pred ccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 63 RVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 63 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
......|.||+++..+ ...+| |||.-| |..-. +....||+||..|.
T Consensus 302 ~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred cCCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 3456789999999876 66777 999966 66543 23456999998774
No 59
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.63 E-value=0.0011 Score=60.85 Aligned_cols=67 Identities=22% Similarity=0.422 Sum_probs=47.7
Q ss_pred HhcCCceeeecccccccccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 46 LLTIPILAYSAKDCKLFRVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 46 i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
+..+|..+...........++..|+||+..--. .+..| |+|.-|..||.+.+.+.+.|=.|+..+..
T Consensus 402 ~~~l~~~~~~~~~~~lp~sEd~lCpICyA~pi~---Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 402 SSQLPERKEESFNKDLPDSEDNLCPICYAGPIN---AVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred HhhcchhhHHhhcCCCCCcccccCcceecccch---hhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 334444333333322334567889999876432 45666 99999999999999999999999988764
No 60
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.61 E-value=0.0013 Score=63.32 Aligned_cols=55 Identities=25% Similarity=0.551 Sum_probs=41.9
Q ss_pred ccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHh-----cCCCCCCCCcCCCCCCCCC
Q 043807 63 RVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL-----GHTICPVCRSPVADQPKST 121 (242)
Q Consensus 63 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-----~~~~CP~CR~~i~~~~~~~ 121 (242)
+.+...|.+|.+.-++ ..... |.|.||+-||.++.. .+.+||.|...+.-....+
T Consensus 533 nk~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~ 592 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEP 592 (791)
T ss_pred ccCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccccccch
Confidence 3456789999998765 33444 999999999988875 3679999998886654433
No 61
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.52 E-value=0.00078 Score=62.54 Aligned_cols=49 Identities=31% Similarity=0.703 Sum_probs=38.8
Q ss_pred CCceeeeecccccC-CceeeecCCCCccccHhHHHHHHhcC--CCCCCCCcCC
Q 043807 65 DQSECVICLGELED-GEMVRLLPSCRHAFHVQCIGNWLLGH--TICPVCRSPV 114 (242)
Q Consensus 65 ~~~~C~ICl~~~~~-~~~~~~lp~C~H~Fh~~Ci~~wl~~~--~~CP~CR~~i 114 (242)
-+..|..|-+.+.. ++..--+| |.|+||..|+...|.++ .+||.||+-.
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crklr 415 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLR 415 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence 35679999998754 34566787 99999999999999754 6899999433
No 62
>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=96.48 E-value=0.0011 Score=53.23 Aligned_cols=38 Identities=21% Similarity=0.528 Sum_probs=30.7
Q ss_pred CceeeeecccccCCceeeecCCCC------ccccHhHHHHHHhcC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCR------HAFHVQCIGNWLLGH 104 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~------H~Fh~~Ci~~wl~~~ 104 (242)
..+|+||++.+...+.++.++ || |.||..|+.+|-+.+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhc
Confidence 568999999998855577776 76 889999999995433
No 63
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.48 E-value=0.0012 Score=54.53 Aligned_cols=41 Identities=41% Similarity=0.886 Sum_probs=31.9
Q ss_pred CceeeecccccccccCCceeeeecccccCCceeeecCCCCccccH
Q 043807 50 PILAYSAKDCKLFRVDQSECVICLGELEDGEMVRLLPSCRHAFHV 94 (242)
Q Consensus 50 p~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~ 94 (242)
|.+.|..+. ...+..+|.|||+++..++.+..|| |-.+||+
T Consensus 164 PrlsYNdDV---L~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 164 PRLSYNDDV---LKDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccccccch---hcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 444454443 2245678999999999999999999 9999996
No 64
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.33 E-value=0.0024 Score=64.26 Aligned_cols=51 Identities=33% Similarity=0.716 Sum_probs=39.3
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhc-------CCCCCCCCcCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG-------HTICPVCRSPV 114 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-------~~~CP~CR~~i 114 (242)
....+|.||++.+.....+.-...|.|+||..||..|-+. .-.||.|....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 3567899999999876555444469999999999999864 22599998433
No 65
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.26 E-value=0.0026 Score=42.00 Aligned_cols=40 Identities=38% Similarity=0.978 Sum_probs=27.1
Q ss_pred eeeecccccCCceeeecCCCC-----ccccHhHHHHHHh--cCCCCCCC
Q 043807 69 CVICLGELEDGEMVRLLPSCR-----HAFHVQCIGNWLL--GHTICPVC 110 (242)
Q Consensus 69 C~ICl~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~--~~~~CP~C 110 (242)
|-||++.-.+++ ..+.| |. ...|..|+..|+. .+..|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999877655 33455 65 3789999999997 45679887
No 66
>PHA02862 5L protein; Provisional
Probab=96.23 E-value=0.0046 Score=50.15 Aligned_cols=46 Identities=20% Similarity=0.559 Sum_probs=35.3
Q ss_pred ceeeeecccccCCceeeecCCCC-----ccccHhHHHHHHh--cCCCCCCCCcCCCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCR-----HAFHVQCIGNWLL--GHTICPVCRSPVADQ 117 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~--~~~~CP~CR~~i~~~ 117 (242)
..|-||+++-.++ ..| |. ...|..|+.+|++ ++..|++|+.++.-.
T Consensus 3 diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 3 DICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 5799999986443 344 65 4699999999997 456899999887543
No 67
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.22 E-value=0.0018 Score=55.21 Aligned_cols=44 Identities=25% Similarity=0.455 Sum_probs=37.8
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPV 114 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i 114 (242)
..|.||-.+|..+ ++. .|||.||..|...-++....|-+|.+..
T Consensus 197 F~C~iCKkdy~sp---vvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESP---VVT-ECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccch---hhh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence 5799999999874 344 4999999999999999999999998754
No 68
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.13 E-value=0.0072 Score=53.14 Aligned_cols=53 Identities=17% Similarity=0.368 Sum_probs=45.7
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
....|+||.+.+.......+|..|||+|+.+|..+.+..-..||+|-.++.+.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR 272 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence 34679999999988776777767999999999999999999999998888554
No 69
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.98 E-value=0.0063 Score=64.45 Aligned_cols=69 Identities=25% Similarity=0.512 Sum_probs=46.8
Q ss_pred HHhcCCceeeecccccccccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhc----------CCCCCCCCcCC
Q 043807 45 VLLTIPILAYSAKDCKLFRVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG----------HTICPVCRSPV 114 (242)
Q Consensus 45 ~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----------~~~CP~CR~~i 114 (242)
...-||-+..+.... ..+.++.|.||..+--.......+. |+|+||..|...-|.+ --.||+|..+|
T Consensus 3467 EE~CLPCl~Cdks~t--kQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3467 EEHCLPCLHCDKSAT--KQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred hhhcccccccChhhh--hcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 334467766554442 3456778999998765444455665 9999999999765432 13699999887
Q ss_pred CC
Q 043807 115 AD 116 (242)
Q Consensus 115 ~~ 116 (242)
..
T Consensus 3544 nH 3545 (3738)
T KOG1428|consen 3544 NH 3545 (3738)
T ss_pred hh
Confidence 43
No 70
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=95.92 E-value=0.003 Score=47.78 Aligned_cols=33 Identities=27% Similarity=0.784 Sum_probs=27.4
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHH
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIG 98 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~ 98 (242)
.++..|++|...+.. ..+.+.| |||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 355689999999977 5677777 99999999975
No 71
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.86 E-value=0.0061 Score=57.03 Aligned_cols=48 Identities=25% Similarity=0.618 Sum_probs=39.0
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhc--------CCCCCCCCcC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG--------HTICPVCRSP 113 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~CR~~ 113 (242)
.-..|.||+++.........+| |+|+||+.|+..++.. .-.||-+...
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 4468999999998778888998 9999999999999852 2358776543
No 72
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.82 E-value=0.0033 Score=56.46 Aligned_cols=45 Identities=22% Similarity=0.373 Sum_probs=38.5
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
..|-||...|..+ ++. .|+|.||..|...-++....|++|...+.
T Consensus 242 f~c~icr~~f~~p---Vvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred ccccccccccccc---hhh-cCCceeehhhhccccccCCcceecccccc
Confidence 4699999999875 344 49999999999999998899999987663
No 73
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.52 E-value=0.0079 Score=39.92 Aligned_cols=45 Identities=27% Similarity=0.555 Sum_probs=22.3
Q ss_pred eeeecccccCCc-eeeecCCCCccccHhHHHHHHh-cCCCCCCCCcCC
Q 043807 69 CVICLGELEDGE-MVRLLPSCRHAFHVQCIGNWLL-GHTICPVCRSPV 114 (242)
Q Consensus 69 C~ICl~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~CR~~i 114 (242)
|++|.+++...+ .+.-- .|++.+|..|...-+. .+..||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 788999884433 22223 4999999999888775 578999999864
No 74
>PHA03096 p28-like protein; Provisional
Probab=95.36 E-value=0.0081 Score=54.24 Aligned_cols=46 Identities=26% Similarity=0.596 Sum_probs=33.5
Q ss_pred ceeeeecccccC----CceeeecCCCCccccHhHHHHHHhc---CCCCCCCCc
Q 043807 67 SECVICLGELED----GEMVRLLPSCRHAFHVQCIGNWLLG---HTICPVCRS 112 (242)
Q Consensus 67 ~~C~ICl~~~~~----~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~CR~ 112 (242)
-.|.||++.... +.....++.|.|.||..|+..|... ..+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 479999998653 2245577789999999999999863 234555543
No 75
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.29 E-value=0.017 Score=52.61 Aligned_cols=48 Identities=25% Similarity=0.514 Sum_probs=37.8
Q ss_pred ccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcC
Q 043807 63 RVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSP 113 (242)
Q Consensus 63 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~ 113 (242)
..+...|+||+.....+.. +. .-|-+||..||..++..+..||+=..+
T Consensus 297 ~~~~~~CpvClk~r~Nptv--l~-vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTV--LE-VSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred CCccccChhHHhccCCCce--EE-ecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 3456789999999887632 22 279999999999999999999985443
No 76
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.17 E-value=0.023 Score=46.86 Aligned_cols=50 Identities=22% Similarity=0.636 Sum_probs=35.9
Q ss_pred cCCceeeeecccccCCceeeecC-CCCc---cccHhHHHHHHhc--CCCCCCCCcCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLP-SCRH---AFHVQCIGNWLLG--HTICPVCRSPVADQ 117 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp-~C~H---~Fh~~Ci~~wl~~--~~~CP~CR~~i~~~ 117 (242)
..+..|-||.++-.. . ..| .|.. ..|..|+..|+.. ...|++|+.++...
T Consensus 6 ~~~~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 356789999988542 1 234 2434 5799999999974 56899999987544
No 77
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.09 E-value=0.034 Score=49.47 Aligned_cols=52 Identities=19% Similarity=0.411 Sum_probs=40.8
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
.....|+|...+|.....++.+-+|||+|...+|.+-- ....||+|-.++..
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTE 162 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCcccc
Confidence 45678999999996555555554599999999999963 35679999998863
No 78
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.04 E-value=0.015 Score=48.79 Aligned_cols=31 Identities=39% Similarity=1.006 Sum_probs=25.3
Q ss_pred CCCccccHhHHHHHHhcC-----------CCCCCCCcCCCCC
Q 043807 87 SCRHAFHVQCIGNWLLGH-----------TICPVCRSPVADQ 117 (242)
Q Consensus 87 ~C~H~Fh~~Ci~~wl~~~-----------~~CP~CR~~i~~~ 117 (242)
.||.-||.-|+..||+.- ..||+|..++.-+
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 499999999999999741 2599999888544
No 79
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.83 E-value=0.028 Score=51.78 Aligned_cols=70 Identities=26% Similarity=0.456 Sum_probs=47.3
Q ss_pred CHHHHhcCCceeeecccccccccCCceeeeecccccCCceeeecCCCCccccHhHHHHH--HhcCCCCCCCCcCCCCC
Q 043807 42 EEKVLLTIPILAYSAKDCKLFRVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNW--LLGHTICPVCRSPVADQ 117 (242)
Q Consensus 42 ~~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~w--l~~~~~CP~CR~~i~~~ 117 (242)
.+..+..-|.+.-+.++ ..+++...|.||-+.+.- ..++| |+|..|.-|.-.. |-....||+||..+...
T Consensus 39 kKNnlsaEPnlttsSad--dtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V 110 (493)
T COG5236 39 KKNNLSAEPNLTTSSAD--DTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEAV 110 (493)
T ss_pred cccccccCCcccccccc--ccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccceE
Confidence 33444445554444443 233455679999998754 56777 9999999998643 34678999999887543
No 80
>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=94.43 E-value=0.021 Score=36.92 Aligned_cols=41 Identities=22% Similarity=0.629 Sum_probs=22.9
Q ss_pred eeeecccccCCceeeecCCCCccccHhHHHHHHhcCC--CCCCC
Q 043807 69 CVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHT--ICPVC 110 (242)
Q Consensus 69 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~--~CP~C 110 (242)
|.+|.+.+..|...... .|+=.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 66777777766333222 4888999999999998654 79987
No 81
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.41 E-value=0.028 Score=50.45 Aligned_cols=47 Identities=30% Similarity=0.758 Sum_probs=37.8
Q ss_pred ceeeeecccccCCc---eeeecCCCCccccHhHHHHHHhc-CCCCCCCCcCC
Q 043807 67 SECVICLGELEDGE---MVRLLPSCRHAFHVQCIGNWLLG-HTICPVCRSPV 114 (242)
Q Consensus 67 ~~C~ICl~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~CR~~i 114 (242)
..|-||-++|...+ .++++. |||.||..|+...+.. ...||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 57999999997653 455565 9999999999887764 45799999985
No 82
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.13 E-value=0.018 Score=50.45 Aligned_cols=47 Identities=23% Similarity=0.592 Sum_probs=33.6
Q ss_pred eeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCCC
Q 043807 68 ECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQP 118 (242)
Q Consensus 68 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~~ 118 (242)
.|-.|..--. ++...++. |+|+||..|...- ....||+|+.++....
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQ 51 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeee
Confidence 5777766554 55666665 9999999998652 2338999999875443
No 83
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.10 E-value=0.053 Score=36.85 Aligned_cols=41 Identities=22% Similarity=0.622 Sum_probs=32.9
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPV 109 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~ 109 (242)
....|.+|-+.|.+++.+++.|.|+-.+|+.|... ...|-.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 34689999999987777888899999999999654 345544
No 84
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.97 E-value=0.028 Score=57.11 Aligned_cols=36 Identities=28% Similarity=0.523 Sum_probs=28.7
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHH
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWL 101 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 101 (242)
..+..|.+|...+... ...+-| |||.||.+||.+-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 4567899999988653 455667 99999999998754
No 85
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.76 E-value=0.044 Score=37.32 Aligned_cols=46 Identities=26% Similarity=0.516 Sum_probs=32.9
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
...|..|...-.. -.++| |+|..+..|...+ +-.-||+|..++...
T Consensus 7 ~~~~~~~~~~~~~---~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 7 EQPCVFCGFVGTK---GTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD 52 (55)
T ss_pred ceeEEEccccccc---ccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence 3457666655332 45677 9999999998764 456799999988543
No 86
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.70 E-value=0.035 Score=56.20 Aligned_cols=41 Identities=29% Similarity=0.699 Sum_probs=33.2
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCc
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRS 112 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~ 112 (242)
...|..|-..+.-+ .+.-. |||.||..|+. .....||.|+.
T Consensus 840 ~skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 840 VSKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccch
Confidence 36899999998875 44444 99999999998 45678999976
No 87
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.37 E-value=0.044 Score=49.57 Aligned_cols=43 Identities=35% Similarity=0.753 Sum_probs=35.1
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHh-cCCCCCCCCc
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL-GHTICPVCRS 112 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~CR~ 112 (242)
..|+.|...+..+ ..++.|+|.||..||..-|. .-..||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6899999988774 33467999999999987665 5678999976
No 88
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.28 E-value=0.056 Score=49.70 Aligned_cols=52 Identities=21% Similarity=0.485 Sum_probs=37.4
Q ss_pred CCceeeeecccccCCc-eeeecCCCCccccHhHHHHHHh-cCCCCCCCCcCCCCC
Q 043807 65 DQSECVICLGELEDGE-MVRLLPSCRHAFHVQCIGNWLL-GHTICPVCRSPVADQ 117 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~CR~~i~~~ 117 (242)
+++-|+.|++++...+ ...-.+ ||-..|..|...--+ .+..||.||....+.
T Consensus 13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 3445999999987655 344455 999888888765432 367899999977544
No 89
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.22 E-value=0.014 Score=52.53 Aligned_cols=42 Identities=29% Similarity=0.714 Sum_probs=31.9
Q ss_pred CceeeeecccccCCceeeecCCCCcc-ccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHA-FHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
+.-|+||++...+ ...|+ |||. -|..|-.. -..||+||+-+.
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhccc----cccCchHHHHHH
Confidence 5679999998765 67887 9996 67777544 348999998653
No 90
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=92.99 E-value=0.053 Score=48.73 Aligned_cols=46 Identities=26% Similarity=0.562 Sum_probs=37.4
Q ss_pred CceeeeecccccCCc-eeeecCCCCccccHhHHHHHHhcCCCCCCCCc
Q 043807 66 QSECVICLGELEDGE-MVRLLPSCRHAFHVQCIGNWLLGHTICPVCRS 112 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~ 112 (242)
...|+||.+.+.... .+.+++ |||..|..|+......+.+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 345999999876554 345565 9999999999998887899999988
No 91
>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=92.47 E-value=0.05 Score=35.94 Aligned_cols=43 Identities=26% Similarity=0.677 Sum_probs=25.1
Q ss_pred eeeeecccccCCceeeecCCCC-ccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 68 ECVICLGELEDGEMVRLLPSCR-HAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 68 ~C~ICl~~~~~~~~~~~lp~C~-H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
.|--|+-.... +.. |. |..|..|+...+.....||+|..+++.
T Consensus 4 nCKsCWf~~k~-----Li~-C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCWFANKG-----LIK-CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS-S--SS-----EEE--SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhhhcCCC-----eee-ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 45556554432 222 66 999999999999999999999998864
No 92
>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=90.99 E-value=0.22 Score=41.13 Aligned_cols=34 Identities=24% Similarity=0.565 Sum_probs=22.2
Q ss_pred CceeeeecccccCCceeeecC------C-----CCc-cccHhHHHHHHh
Q 043807 66 QSECVICLGELEDGEMVRLLP------S-----CRH-AFHVQCIGNWLL 102 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp------~-----C~H-~Fh~~Ci~~wl~ 102 (242)
+..|+|||+--.+ .++|. . |+- .-|..|++++-+
T Consensus 2 d~~CpICme~PHN---AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHN---AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCc---eEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 5689999998654 22333 0 442 357899998754
No 93
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.93 E-value=0.012 Score=54.73 Aligned_cols=51 Identities=22% Similarity=0.539 Sum_probs=41.8
Q ss_pred CCceeeeecccccCC-ceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELEDG-EMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
-...|+||...+... +.+..+. |||.+|.+||.+||.....||.|+..+..
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 345799999998765 4455554 99999999999999988899999988753
No 94
>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=90.92 E-value=0.34 Score=45.14 Aligned_cols=28 Identities=36% Similarity=1.155 Sum_probs=21.2
Q ss_pred CCccccHhHHHHHHh-------------cCCCCCCCCcCCC
Q 043807 88 CRHAFHVQCIGNWLL-------------GHTICPVCRSPVA 115 (242)
Q Consensus 88 C~H~Fh~~Ci~~wl~-------------~~~~CP~CR~~i~ 115 (242)
|.-.+|.+|+.+|+. ++..||+||+.+.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 445678899999874 3457999999874
No 95
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.80 E-value=0.16 Score=51.09 Aligned_cols=41 Identities=24% Similarity=0.580 Sum_probs=30.3
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPV 109 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~ 109 (242)
..|+||.-.+.. ....... |+|+.|.+|...|+.....||.
T Consensus 1029 ~~C~~C~l~V~g-ss~~Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVRG-SSNFCGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeeEeeEeec-cchhhcc-ccccccHHHHHHHHhcCCcCCC
Confidence 346666555543 2233444 9999999999999999999997
No 96
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=90.73 E-value=0.089 Score=52.93 Aligned_cols=45 Identities=29% Similarity=0.736 Sum_probs=34.6
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhc--CCCCCCCCcCCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG--HTICPVCRSPVAD 116 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~CR~~i~~ 116 (242)
..|.||++ . +.+...+ |+|.||..|+..-+.. ...||+||..+..
T Consensus 455 ~~c~ic~~-~---~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc-c---ccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 79999999 2 3355555 9999999999887753 3469999987643
No 97
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.05 E-value=0.29 Score=49.71 Aligned_cols=55 Identities=22% Similarity=0.568 Sum_probs=40.5
Q ss_pred cccCCceeeeecccccCCceeeecCCCC-----ccccHhHHHHHHhc--CCCCCCCCcCCCCCC
Q 043807 62 FRVDQSECVICLGELEDGEMVRLLPSCR-----HAFHVQCIGNWLLG--HTICPVCRSPVADQP 118 (242)
Q Consensus 62 ~~~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~--~~~CP~CR~~i~~~~ 118 (242)
.++++..|.||..+-..++.. ..| |. ...|.+|+.+|+.. ...|-+|+.++..+.
T Consensus 8 mN~d~~~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 8 MNEDKRSCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred CCccchhceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 345668999999987665533 444 65 35999999999973 567999998875443
No 98
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.34 E-value=0.18 Score=45.94 Aligned_cols=43 Identities=30% Similarity=0.724 Sum_probs=30.4
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPV 114 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i 114 (242)
-.|--|--.+.. .-+.+| |.|+||.+|... ..-+.||.|-..+
T Consensus 91 HfCd~Cd~PI~I--YGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIAI--YGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCccee--eecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 347777665542 346777 999999999854 2356899997665
No 99
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=88.26 E-value=0.38 Score=38.66 Aligned_cols=52 Identities=21% Similarity=0.492 Sum_probs=37.4
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHh---cCCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL---GHTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~---~~~~CP~CR~~i~~ 116 (242)
.-.+|-||.+.-.+..-..--..||-..|.-|....|+ .+..||+|+.++-.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 34689999998765321111114999999999987765 47889999998843
No 100
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.87 E-value=0.42 Score=44.80 Aligned_cols=47 Identities=17% Similarity=0.311 Sum_probs=37.3
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcC---CCCCCCCc
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGH---TICPVCRS 112 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~CR~ 112 (242)
.-..|||=.+.-.+.+.+..+. |||+..++-|.+..++. ..||+|-.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 3467999888777777788887 99999999999977643 47999943
No 101
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=87.48 E-value=0.15 Score=53.99 Aligned_cols=48 Identities=29% Similarity=0.666 Sum_probs=38.4
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
....|.||++.+..-..+ . .|||.+|..|+..|+..+..||.|.....
T Consensus 1152 ~~~~c~ic~dil~~~~~I--~-~cgh~~c~~c~~~~l~~~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGI--A-GCGHEPCCRCDELWLYASSRCPICKSIKG 1199 (1394)
T ss_pred cccchHHHHHHHHhcCCe--e-eechhHhhhHHHHHHHHhccCcchhhhhh
Confidence 345899999998742222 2 49999999999999999999999985443
No 102
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.18 E-value=0.24 Score=44.00 Aligned_cols=56 Identities=25% Similarity=0.576 Sum_probs=39.3
Q ss_pred cCCceeeeecccccCCcee-eecCCCC-----ccccHhHHHHHHhc--------CCCCCCCCcCCCCCCCC
Q 043807 64 VDQSECVICLGELEDGEMV-RLLPSCR-----HAFHVQCIGNWLLG--------HTICPVCRSPVADQPKS 120 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~-~~lp~C~-----H~Fh~~Ci~~wl~~--------~~~CP~CR~~i~~~~~~ 120 (242)
+.+..|-||+..=++.... -+.| |- |..|..|+..|+.. ...||.|+.......+.
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~ 87 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQ 87 (293)
T ss_pred ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccc
Confidence 4566799999986654322 3445 64 78999999999952 23699999987555443
No 103
>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=86.73 E-value=0.3 Score=43.00 Aligned_cols=48 Identities=19% Similarity=0.601 Sum_probs=35.8
Q ss_pred CCceeeeeccc-ccCCc-eeeecCCCCccccHhHHHHHHhc-CCCCC--CCCc
Q 043807 65 DQSECVICLGE-LEDGE-MVRLLPSCRHAFHVQCIGNWLLG-HTICP--VCRS 112 (242)
Q Consensus 65 ~~~~C~ICl~~-~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP--~CR~ 112 (242)
.+..|+||..+ |-.++ .+.+-|.|.|..|..|++.-+.. ...|| -|-.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 45689999986 33344 55555679999999999998864 56799 5754
No 104
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.93 E-value=0.49 Score=42.31 Aligned_cols=51 Identities=27% Similarity=0.686 Sum_probs=37.1
Q ss_pred CceeeeecccccCCce-eeecCCCC-----ccccHhHHHHHHh--cCCCCCCCCcCCCCC
Q 043807 66 QSECVICLGELEDGEM-VRLLPSCR-----HAFHVQCIGNWLL--GHTICPVCRSPVADQ 117 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~-~~~lp~C~-----H~Fh~~Ci~~wl~--~~~~CP~CR~~i~~~ 117 (242)
+..|-||..+...... ....| |. +..|..|+..|+. .+..|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4689999998754321 23444 65 5689999999997 677899998866443
No 105
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.93 E-value=0.45 Score=41.08 Aligned_cols=38 Identities=45% Similarity=0.878 Sum_probs=28.5
Q ss_pred eeeecccccCCceeeecCCCCcc-ccHhHHHHHHhcCCCCCCCCcCC
Q 043807 69 CVICLGELEDGEMVRLLPSCRHA-FHVQCIGNWLLGHTICPVCRSPV 114 (242)
Q Consensus 69 C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~CR~~i 114 (242)
|-+|.+.= ..+.++| |.|. +|..|-.. -..||+|+.+.
T Consensus 161 Cr~C~~~~---~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLP-CRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcCC---ceEEeec-ccceEeccccccc----CccCCCCcChh
Confidence 77777663 3488888 9986 89999754 35699998765
No 106
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.93 E-value=0.5 Score=42.76 Aligned_cols=28 Identities=29% Similarity=0.870 Sum_probs=22.2
Q ss_pred CCccccHhHHHHHHh-------------cCCCCCCCCcCCC
Q 043807 88 CRHAFHVQCIGNWLL-------------GHTICPVCRSPVA 115 (242)
Q Consensus 88 C~H~Fh~~Ci~~wl~-------------~~~~CP~CR~~i~ 115 (242)
|.-.+|..|+.+|+. ++-+||+||+.+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 556788999998874 3558999999874
No 107
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=84.84 E-value=0.71 Score=42.09 Aligned_cols=46 Identities=24% Similarity=0.550 Sum_probs=33.7
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
+-.+|+||.+.+..+ +.... =||..|..|-.+ ....||.||.++..
T Consensus 47 ~lleCPvC~~~l~~P--i~QC~-nGHlaCssC~~~---~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPP--IFQCD-NGHLACSSCRTK---VSNKCPTCRLPIGN 92 (299)
T ss_pred hhccCchhhccCccc--ceecC-CCcEehhhhhhh---hcccCCcccccccc
Confidence 456899999999876 22222 368888888653 46789999988864
No 108
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.46 E-value=0.47 Score=44.67 Aligned_cols=37 Identities=32% Similarity=0.686 Sum_probs=27.5
Q ss_pred CCceeeeecccc-cCCceeeecCCCCccccHhHHHHHHh
Q 043807 65 DQSECVICLGEL-EDGEMVRLLPSCRHAFHVQCIGNWLL 102 (242)
Q Consensus 65 ~~~~C~ICl~~~-~~~~~~~~lp~C~H~Fh~~Ci~~wl~ 102 (242)
....|.||..+. ...+...+. .|+|.||.+|+.+.+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhh
Confidence 456899999544 443445445 4999999999998886
No 109
>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=82.12 E-value=1.1 Score=40.44 Aligned_cols=48 Identities=19% Similarity=0.554 Sum_probs=34.5
Q ss_pred eeeeeccc-ccCCceeeecCCCCccccHhHHHHHHh-cCCCCCCCCcCCC
Q 043807 68 ECVICLGE-LEDGEMVRLLPSCRHAFHVQCIGNWLL-GHTICPVCRSPVA 115 (242)
Q Consensus 68 ~C~ICl~~-~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~CR~~i~ 115 (242)
.|++|-.. |..++-......|+|..|..|++..+. +...||.|-..+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 48888764 444443333335999999999999886 4568999976653
No 110
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=81.11 E-value=0.91 Score=43.30 Aligned_cols=34 Identities=26% Similarity=0.656 Sum_probs=28.1
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHh
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL 102 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~ 102 (242)
++..|+||..-|.++ ..+| |+|..|..|...-+.
T Consensus 3 eelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYREP---IILP-CSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccCc---eEee-cccHHHHHHHHhhcc
Confidence 567899999999874 5777 999999999876543
No 111
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=80.19 E-value=1.5 Score=44.28 Aligned_cols=44 Identities=18% Similarity=0.470 Sum_probs=33.7
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCC--CCc
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPV--CRS 112 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~--CR~ 112 (242)
..|.+|-..+..- ....+.|+|.-|..|+..|+..+..||. |-.
T Consensus 780 ~~CtVC~~vi~G~--~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~ 825 (839)
T KOG0269|consen 780 AKCTVCDLVIRGV--DVWCQVCGHGGHDSHLKSWFFKASPCAKSICPH 825 (839)
T ss_pred cCceeecceeeee--EeecccccccccHHHHHHHHhcCCCCccccCCc
Confidence 4689998877642 2233469999999999999998888877 543
No 112
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.74 E-value=0.65 Score=46.18 Aligned_cols=41 Identities=22% Similarity=0.431 Sum_probs=30.1
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICP 108 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP 108 (242)
-..|.||+..|....-..+.+.|||..|..|+...++ .+||
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 3579999988865443333335999999999988654 5788
No 113
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=78.09 E-value=0.9 Score=44.89 Aligned_cols=45 Identities=24% Similarity=0.598 Sum_probs=29.0
Q ss_pred cCCceeeeeccc-----ccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCc
Q 043807 64 VDQSECVICLGE-----LEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRS 112 (242)
Q Consensus 64 ~~~~~C~ICl~~-----~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~ 112 (242)
.....|.+|... |.. +.++....|+++||..|+.. .+..||.|-.
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~-~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFET-RNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred cCeeeeeeccCCCccccccc-ccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 345678888442 332 23333335999999999654 4455999943
No 114
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=76.51 E-value=1.3 Score=38.40 Aligned_cols=46 Identities=30% Similarity=0.689 Sum_probs=36.7
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
..|.+|..-.-.+ ++.- .|+-.+|..|+..++.....||.|..-+.
T Consensus 182 k~Cn~Ch~LvIqg--~rCg-~c~i~~h~~c~qty~q~~~~cphc~d~w~ 227 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCG-SCNIQYHRGCIQTYLQRRDICPHCGDLWT 227 (235)
T ss_pred HHHhHhHHHhhee--eccC-cccchhhhHHHHHHhcccCcCCchhcccC
Confidence 4699999987654 3333 48888999999999999999999965553
No 115
>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=75.68 E-value=2.4 Score=28.51 Aligned_cols=43 Identities=26% Similarity=0.527 Sum_probs=21.3
Q ss_pred eeeecccccCC------ceeeecCCCCccccHhHHHHHHhcCCCCCCCC
Q 043807 69 CVICLGELEDG------EMVRLLPSCRHAFHVQCIGNWLLGHTICPVCR 111 (242)
Q Consensus 69 C~ICl~~~~~~------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR 111 (242)
|.-|+..|..+ .....-|.|++.||.+|=.---..-.+||-|-
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 55566666554 23455667999999999533222335799883
No 116
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=75.63 E-value=0.71 Score=46.28 Aligned_cols=46 Identities=30% Similarity=0.736 Sum_probs=35.7
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhc---CCCCCCCCcCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG---HTICPVCRSPVA 115 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~CR~~i~ 115 (242)
..+|+||...+..+ ..+ .|.|.|+..|+..-+.. ...||+|+..+.
T Consensus 21 ~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 46899999998875 234 59999999999875543 457999996654
No 117
>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=75.55 E-value=1.3 Score=25.49 Aligned_cols=23 Identities=26% Similarity=0.699 Sum_probs=12.5
Q ss_pred eeeeecccccCCceeeecCCCCccc
Q 043807 68 ECVICLGELEDGEMVRLLPSCRHAF 92 (242)
Q Consensus 68 ~C~ICl~~~~~~~~~~~lp~C~H~F 92 (242)
.|+-|...+... ....|.|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 366666665432 33445566665
No 118
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.69 E-value=4.5 Score=36.01 Aligned_cols=50 Identities=16% Similarity=0.328 Sum_probs=37.5
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
...|+|---+|...-....+-.|||+|-..-+.+. ...+|++|.+.+...
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 45799988887765555555569999998887773 367899999887544
No 119
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=74.30 E-value=3.7 Score=37.81 Aligned_cols=62 Identities=23% Similarity=0.383 Sum_probs=40.1
Q ss_pred CCceeeecccccccccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCc
Q 043807 49 IPILAYSAKDCKLFRVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRS 112 (242)
Q Consensus 49 lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~ 112 (242)
+|...|.+..... ......|-.|.++.......+.- .|.|.||.+|-.---..-..||-|-.
T Consensus 314 ~PL~~F~Eip~~~-~~~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 314 FPLKPFVEIPETE-YNGSRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred cCCcchhhccccc-cCCCcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 4555555544222 22445699998887766555544 49999999996443334467999963
No 120
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=73.08 E-value=4.1 Score=31.85 Aligned_cols=46 Identities=22% Similarity=0.405 Sum_probs=34.0
Q ss_pred CceeeeecccccCC----------ceeeecCCCCccccHhHHHHHHhcCCCCCCCC
Q 043807 66 QSECVICLGELEDG----------EMVRLLPSCRHAFHVQCIGNWLLGHTICPVCR 111 (242)
Q Consensus 66 ~~~C~ICl~~~~~~----------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR 111 (242)
...|.-|+..|... .....-+.|.+.||.+|=.-+-..-.+||-|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 34699999988643 11233556999999999877777667899985
No 121
>PLN02189 cellulose synthase
Probab=72.15 E-value=8.2 Score=40.76 Aligned_cols=52 Identities=25% Similarity=0.535 Sum_probs=38.4
Q ss_pred CCceeeeeccccc---CCceeeecCCCCccccHhHHHH-HHhcCCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELE---DGEMVRLLPSCRHAFHVQCIGN-WLLGHTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~---~~~~~~~lp~C~H~Fh~~Ci~~-wl~~~~~CP~CR~~i~~ 116 (242)
....|.||.+++. +|+..+....|+--.|+.|.+- .-..+..||.|+.....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 4458999999974 4555555556888899999943 22357899999988753
No 122
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=70.34 E-value=2.4 Score=43.31 Aligned_cols=49 Identities=14% Similarity=0.190 Sum_probs=33.7
Q ss_pred CCceeeeecccccCCc----eeeecCCCCccccHhHHHHHHhc------CCCCCCCCcCC
Q 043807 65 DQSECVICLGELEDGE----MVRLLPSCRHAFHVQCIGNWLLG------HTICPVCRSPV 114 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~----~~~~lp~C~H~Fh~~Ci~~wl~~------~~~CP~CR~~i 114 (242)
....|.||.-++..++ ...+. .|+|.||..||..|..+ +-.|++|.+-|
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 ESDTSPVCEKEHSPDVDSSNICPVQ-THVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchh-hhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 3456888888777622 22222 49999999999999853 44678887654
No 123
>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=69.29 E-value=4.3 Score=26.88 Aligned_cols=43 Identities=23% Similarity=0.556 Sum_probs=19.5
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhc-----CCCCCCCCcC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG-----HTICPVCRSP 113 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~CR~~ 113 (242)
..|+|....+..+ ++... |.|.-|.+ +..|+.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 3688888777654 55554 99985433 3455542 2369999763
No 124
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.07 E-value=2.8 Score=41.14 Aligned_cols=47 Identities=30% Similarity=0.894 Sum_probs=37.8
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCCC
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQP 118 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~~ 118 (242)
.....|.||+.+. ..+..+ |. |..|+.+|+..+..||+|+..+....
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDD 523 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccc
Confidence 4567899999998 244555 87 89999999999999999998775543
No 125
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=67.82 E-value=5.9 Score=41.90 Aligned_cols=51 Identities=24% Similarity=0.490 Sum_probs=37.7
Q ss_pred CCceeeeeccccc---CCceeeecCCCCccccHhHHH-HHHhcCCCCCCCCcCCC
Q 043807 65 DQSECVICLGELE---DGEMVRLLPSCRHAFHVQCIG-NWLLGHTICPVCRSPVA 115 (242)
Q Consensus 65 ~~~~C~ICl~~~~---~~~~~~~lp~C~H~Fh~~Ci~-~wl~~~~~CP~CR~~i~ 115 (242)
....|.||-+++. +|+-.+....|+--.|+.|.+ +.-..++.||.|+...-
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3458999999874 455555555688889999994 23346889999998775
No 126
>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=66.84 E-value=6 Score=23.43 Aligned_cols=36 Identities=28% Similarity=0.665 Sum_probs=23.9
Q ss_pred eeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCC
Q 043807 69 CVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPV 114 (242)
Q Consensus 69 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i 114 (242)
|..|...+...+..... =+..||..| ..|..|..+|
T Consensus 2 C~~C~~~i~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRA--LGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEe--CCccccccC--------CCCcccCCcC
Confidence 77888888765333222 367788877 4688887766
No 127
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=66.73 E-value=4.2 Score=34.83 Aligned_cols=42 Identities=26% Similarity=0.695 Sum_probs=29.5
Q ss_pred CCceeeeeccc-----ccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCc
Q 043807 65 DQSECVICLGE-----LEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRS 112 (242)
Q Consensus 65 ~~~~C~ICl~~-----~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~ 112 (242)
....|-||-+. |.. +.+...+.|+-+||..|... ..||-|-.
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 35678888753 333 24556667999999999752 67999953
No 128
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.41 E-value=2.9 Score=39.45 Aligned_cols=72 Identities=18% Similarity=0.269 Sum_probs=42.5
Q ss_pred CCCHHHHhcCCceeeeccccc-ccccCCceeeeecccccCCc--eeeecCCCCccccHhHHHHHHhcCCCCCCCCc
Q 043807 40 GIEEKVLLTIPILAYSAKDCK-LFRVDQSECVICLGELEDGE--MVRLLPSCRHAFHVQCIGNWLLGHTICPVCRS 112 (242)
Q Consensus 40 gl~~~~i~~lp~~~~~~~~~~-~~~~~~~~C~ICl~~~~~~~--~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~ 112 (242)
+++=+..+.+....+...... .....-..|++|.-.+.... ...... |||.||..|...|...+..|..|-.
T Consensus 279 ~~sC~eykk~~~~~~~d~~~~~~la~~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~~r 353 (384)
T KOG1812|consen 279 NLSCEEYKKLNPEEYVDDITLKYLAKRWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYECCR 353 (384)
T ss_pred CCCHHHHHHhCCcccccHHHHHHHHHhcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCccc
Confidence 355555555544333321110 00122347888887764332 334445 9999999999999988887766533
No 129
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=66.09 E-value=6.7 Score=28.68 Aligned_cols=51 Identities=22% Similarity=0.530 Sum_probs=21.6
Q ss_pred CCceeeeeccccc---CCceeeecCCCCccccHhHHHHHH-hcCCCCCCCCcCCC
Q 043807 65 DQSECVICLGELE---DGEMVRLLPSCRHAFHVQCIGNWL-LGHTICPVCRSPVA 115 (242)
Q Consensus 65 ~~~~C~ICl~~~~---~~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~CR~~i~ 115 (242)
....|.||-+++. +++..+..-.|+--.|+.|..-=. ..+..||.|+....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 4568999999874 344444334588889999986433 46789999997764
No 130
>PLN02400 cellulose synthase
Probab=65.50 E-value=8.5 Score=40.82 Aligned_cols=51 Identities=20% Similarity=0.498 Sum_probs=36.9
Q ss_pred CCceeeeeccccc---CCceeeecCCCCccccHhHHH-HHHhcCCCCCCCCcCCC
Q 043807 65 DQSECVICLGELE---DGEMVRLLPSCRHAFHVQCIG-NWLLGHTICPVCRSPVA 115 (242)
Q Consensus 65 ~~~~C~ICl~~~~---~~~~~~~lp~C~H~Fh~~Ci~-~wl~~~~~CP~CR~~i~ 115 (242)
....|.||-+++. +|+-.+....|+--.|+.|.+ +.-..++.||.|+...-
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3458999999974 455555444588889999994 22235789999998775
No 131
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.47 E-value=3.5 Score=39.45 Aligned_cols=37 Identities=24% Similarity=0.510 Sum_probs=29.4
Q ss_pred cCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhc
Q 043807 64 VDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG 103 (242)
Q Consensus 64 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~ 103 (242)
.....|-||.+.+.. ....+. |+|.||..|+...+..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 356789999999875 344454 9999999999998864
No 132
>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 PLN02436 cellulose synthase A
Probab=62.24 E-value=12 Score=39.79 Aligned_cols=52 Identities=25% Similarity=0.495 Sum_probs=38.1
Q ss_pred CCceeeeecccc---cCCceeeecCCCCccccHhHHHHHH-hcCCCCCCCCcCCCC
Q 043807 65 DQSECVICLGEL---EDGEMVRLLPSCRHAFHVQCIGNWL-LGHTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~---~~~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~CR~~i~~ 116 (242)
....|.||-+++ .+|+..+-...|+--.|+.|.+-=. ..+..||.|+.....
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 345899999997 3456555555688889999994322 357899999988753
No 134
>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=58.85 E-value=5.7 Score=28.08 Aligned_cols=11 Identities=27% Similarity=0.966 Sum_probs=8.5
Q ss_pred ccHhHHHHHHh
Q 043807 92 FHVQCIGNWLL 102 (242)
Q Consensus 92 Fh~~Ci~~wl~ 102 (242)
||+.|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999996
No 135
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=58.76 E-value=8.9 Score=35.33 Aligned_cols=49 Identities=27% Similarity=0.523 Sum_probs=36.2
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
..|+||.+.....+...+--.|++..|..|+..-...+..||.||.+..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 5799999987444332222148888888888888888999999996553
No 136
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=57.12 E-value=4 Score=41.60 Aligned_cols=44 Identities=23% Similarity=0.534 Sum_probs=31.1
Q ss_pred CCceeeeecccccC-C---ceeeecCCCCccccHhHHHHHHhcCCCCCCC
Q 043807 65 DQSECVICLGELED-G---EMVRLLPSCRHAFHVQCIGNWLLGHTICPVC 110 (242)
Q Consensus 65 ~~~~C~ICl~~~~~-~---~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C 110 (242)
.+..|.-|.+.... + +.+.+.- |+|+||..|+..-+.++. |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 34579999997652 1 4566775 999999999977665544 5444
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=56.94 E-value=5.1 Score=25.91 Aligned_cols=43 Identities=35% Similarity=0.785 Sum_probs=27.9
Q ss_pred eeeeecccccCCceeeecCCCCccccHhHHHHHHh------cCCCCCCCC
Q 043807 68 ECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL------GHTICPVCR 111 (242)
Q Consensus 68 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~------~~~~CP~CR 111 (242)
.|.||......++.+ .-..|+..||..|+..-.. ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i-~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMI-QCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEE-EBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeE-EcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 378898854444444 4445999999999864332 244677774
No 138
>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=55.91 E-value=4.7 Score=27.94 Aligned_cols=37 Identities=16% Similarity=0.344 Sum_probs=18.5
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHH
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWL 101 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 101 (242)
+...|.+|...|..-..-..-..||++||..|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4568999999996543333334699999998876543
No 139
>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=54.91 E-value=2.9 Score=39.43 Aligned_cols=72 Identities=18% Similarity=0.258 Sum_probs=7.9
Q ss_pred HHHHhcCCceeeecccccccccCCceeeeecccccCC----------ceeeecCCCCccccHhHHHHHHh------cCCC
Q 043807 43 EKVLLTIPILAYSAKDCKLFRVDQSECVICLGELEDG----------EMVRLLPSCRHAFHVQCIGNWLL------GHTI 106 (242)
Q Consensus 43 ~~~i~~lp~~~~~~~~~~~~~~~~~~C~ICl~~~~~~----------~~~~~lp~C~H~Fh~~Ci~~wl~------~~~~ 106 (242)
.+-+...|....-+......+....+|+|=|..+.-+ ....+...|||++-. ..|-. ...+
T Consensus 254 a~gL~~~Pt~~~Le~~~~~lNa~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~---h~Wg~~~~~~~~~r~ 330 (416)
T PF04710_consen 254 AEGLAHSPTKKHLEALRQELNAGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGY---HNWGQDSDRDPRSRT 330 (416)
T ss_dssp HHHHHHS-CCHHHHHHCHHSS-----------------------------------------------------------
T ss_pred hhhhhcCCcHHHHHHHHHHHhhcCCCCCcCCCccccccccccccccccCceeeccccceeee---ccccccccccccccc
Confidence 3344444544333333333445567899887766432 122233359998653 35753 2468
Q ss_pred CCCCCcCCCCC
Q 043807 107 CPVCRSPVADQ 117 (242)
Q Consensus 107 CP~CR~~i~~~ 117 (242)
||+||..=+..
T Consensus 331 CPlCr~~g~~V 341 (416)
T PF04710_consen 331 CPLCRQVGPYV 341 (416)
T ss_dssp -----------
T ss_pred CCCccccCCce
Confidence 99999865443
No 140
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=53.47 E-value=9.1 Score=35.23 Aligned_cols=45 Identities=18% Similarity=0.304 Sum_probs=32.7
Q ss_pred CceeeeecccccCCceeeecCCCCccccHhHHHHHHhc---CCCCCCCC
Q 043807 66 QSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLG---HTICPVCR 111 (242)
Q Consensus 66 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~CR 111 (242)
-..|++=-+.-.+...+..+. |||+.-..-++..-+. ...||+|-
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 457998666655555566665 9999999998886543 35699993
No 141
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=53.24 E-value=7.7 Score=23.95 Aligned_cols=26 Identities=23% Similarity=0.489 Sum_probs=14.4
Q ss_pred eeeeecccccCCce-------eeecCCCCcccc
Q 043807 68 ECVICLGELEDGEM-------VRLLPSCRHAFH 93 (242)
Q Consensus 68 ~C~ICl~~~~~~~~-------~~~lp~C~H~Fh 93 (242)
.|+-|...|..++. ....+.|+|.|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 57777777654331 223344777664
No 142
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=52.99 E-value=7.2 Score=34.98 Aligned_cols=48 Identities=29% Similarity=0.677 Sum_probs=33.6
Q ss_pred ceeeeecccccCCceeeec---CCCCccccHhHHHHHHh---------cCCCCCCCCcCC
Q 043807 67 SECVICLGELEDGEMVRLL---PSCRHAFHVQCIGNWLL---------GHTICPVCRSPV 114 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~l---p~C~H~Fh~~Ci~~wl~---------~~~~CP~CR~~i 114 (242)
..|-+|.+++.+.+..+.. +.|+-.+|..|+..-+. ....||.|+.-+
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 5899999999544433222 25888999999998442 134699998743
No 143
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=52.52 E-value=13 Score=39.28 Aligned_cols=51 Identities=24% Similarity=0.491 Sum_probs=37.3
Q ss_pred CCceeeeeccccc---CCceeeecCCCCccccHhHHHHH-HhcCCCCCCCCcCCC
Q 043807 65 DQSECVICLGELE---DGEMVRLLPSCRHAFHVQCIGNW-LLGHTICPVCRSPVA 115 (242)
Q Consensus 65 ~~~~C~ICl~~~~---~~~~~~~lp~C~H~Fh~~Ci~~w-l~~~~~CP~CR~~i~ 115 (242)
....|.||-+++. +|+-.+....|+--.|+.|.+-= -..+..||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4567999999874 34555555568888999999432 235789999998775
No 144
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=50.72 E-value=13 Score=33.03 Aligned_cols=34 Identities=21% Similarity=0.296 Sum_probs=27.7
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHh
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL 102 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~ 102 (242)
+-..|..||..+.++ ++.| =||+|++.||.+++.
T Consensus 42 ~FdcCsLtLqPc~dP---vit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDP---VITP-DGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccCC---ccCC-CCeeeeHHHHHHHHH
Confidence 345799999999885 4555 899999999998874
No 145
>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=48.80 E-value=12 Score=24.69 Aligned_cols=35 Identities=20% Similarity=0.371 Sum_probs=23.7
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHH
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWL 101 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 101 (242)
..|.+|...|..-..-.....||++||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46889988876533222333599999999986543
No 146
>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=47.82 E-value=29 Score=23.79 Aligned_cols=46 Identities=22% Similarity=0.619 Sum_probs=32.2
Q ss_pred ceeeeecccccCCc-eeeecCCCC--ccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 67 SECVICLGELEDGE-MVRLLPSCR--HAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 67 ~~C~ICl~~~~~~~-~~~~lp~C~--H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
..|-.|-.++..+. ...+ |. ..||.+|.+..| +..||.|.-.+...
T Consensus 6 pnCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 35777777776554 2222 44 359999999976 57899998887654
No 147
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.12 E-value=13 Score=26.93 Aligned_cols=60 Identities=25% Similarity=0.579 Sum_probs=37.0
Q ss_pred eeeeecccccCCce-eeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCCCCCCCcccCCCCC
Q 043807 68 ECVICLGELEDGEM-VRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQPKSTSGEAANLPN 130 (242)
Q Consensus 68 ~C~ICl~~~~~~~~-~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~~~~~~~~~~~~p~ 130 (242)
.|--|-.++..+.. ..+.. =.|.||.+|...-| +..||.|--.+...+-.+...+...|.
T Consensus 7 nCECCDrDLpp~s~dA~ICt-fEcTFCadCae~~l--~g~CPnCGGelv~RP~RPaa~L~r~PA 67 (84)
T COG3813 7 NCECCDRDLPPDSTDARICT-FECTFCADCAENRL--HGLCPNCGGELVARPIRPAAKLARYPA 67 (84)
T ss_pred CCcccCCCCCCCCCceeEEE-EeeehhHhHHHHhh--cCcCCCCCchhhcCcCChHHHHhhCch
Confidence 45556666644322 22222 34789999998755 578999998887766555444444443
No 148
>PLN02195 cellulose synthase A
Probab=44.78 E-value=28 Score=36.72 Aligned_cols=51 Identities=22% Similarity=0.468 Sum_probs=37.1
Q ss_pred CCceeeeeccccc---CCceeeecCCCCccccHhHHHHH-HhcCCCCCCCCcCCC
Q 043807 65 DQSECVICLGELE---DGEMVRLLPSCRHAFHVQCIGNW-LLGHTICPVCRSPVA 115 (242)
Q Consensus 65 ~~~~C~ICl~~~~---~~~~~~~lp~C~H~Fh~~Ci~~w-l~~~~~CP~CR~~i~ 115 (242)
....|.||-+.+. +|+..+....|+--.|+.|.+-= -..++.||.|+...-
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 3458999999774 34545555568888999999421 135789999998876
No 149
>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=44.43 E-value=16 Score=23.92 Aligned_cols=38 Identities=26% Similarity=0.586 Sum_probs=22.9
Q ss_pred eeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCC
Q 043807 69 CVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVAD 116 (242)
Q Consensus 69 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~ 116 (242)
|+.|...+...+.+. .. -+..||..| ..|-.|+.+|..
T Consensus 1 C~~C~~~I~~~~~~~-~~-~~~~~H~~C--------f~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVI-KA-MGKFWHPEC--------FKCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEE-EE-TTEEEETTT--------SBETTTTCBTTT
T ss_pred CCCCCCCccCcEEEE-Ee-CCcEEEccc--------cccCCCCCccCC
Confidence 556667666544332 12 567777766 467777777643
No 150
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=43.80 E-value=23 Score=32.76 Aligned_cols=51 Identities=25% Similarity=0.577 Sum_probs=33.1
Q ss_pred CCceeeeeccccc---------C------C-ceeeecCCCCccccHhHHHHHHhc---------CCCCCCCCcCCCC
Q 043807 65 DQSECVICLGELE---------D------G-EMVRLLPSCRHAFHVQCIGNWLLG---------HTICPVCRSPVAD 116 (242)
Q Consensus 65 ~~~~C~ICl~~~~---------~------~-~~~~~lp~C~H~Fh~~Ci~~wl~~---------~~~CP~CR~~i~~ 116 (242)
.+.+|++|+..-. . + -.....| |||+--..-..-|-+. +..||.|-..+..
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 4678999997521 0 0 1223445 9998777777778652 4579999877643
No 151
>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 PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=42.57 E-value=17 Score=22.36 Aligned_cols=12 Identities=25% Similarity=0.509 Sum_probs=7.8
Q ss_pred eeeeecccccCC
Q 043807 68 ECVICLGELEDG 79 (242)
Q Consensus 68 ~C~ICl~~~~~~ 79 (242)
.|+=|...|..+
T Consensus 4 ~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 4 TCPNCQAKYEID 15 (36)
T ss_pred ECCCCCCEEeCC
Confidence 577777776543
No 153
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=42.48 E-value=7.4 Score=24.81 Aligned_cols=15 Identities=20% Similarity=0.255 Sum_probs=6.3
Q ss_pred hHHHHHHHHHHHHHh
Q 043807 4 IVAYHLIVKYLMMRR 18 (242)
Q Consensus 4 iv~~~li~~~~~~rr 18 (242)
|++..++++++|+||
T Consensus 24 I~~vl~~~l~~~~rR 38 (40)
T PF08693_consen 24 IIIVLGAFLFFWYRR 38 (40)
T ss_pred HHHHHHHHhheEEec
Confidence 333333444444544
No 154
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=42.25 E-value=18 Score=36.96 Aligned_cols=31 Identities=32% Similarity=0.702 Sum_probs=21.8
Q ss_pred eeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 81 MVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 81 ~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
.+-+.|.|.|.-|..=|.. ...||+|...+.
T Consensus 1155 ~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1155 IFWLCPRCKHRAHQHEISK----YNCCPLCHSMES 1185 (1189)
T ss_pred eEEEccccccccccccccc----cccCccccChhh
Confidence 3445567999888766544 578999987653
No 155
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.33 E-value=25 Score=31.98 Aligned_cols=38 Identities=24% Similarity=0.396 Sum_probs=27.7
Q ss_pred CCceeeeecccccCCceeeecC-CCCccccHhHHHHHHhc
Q 043807 65 DQSECVICLGELEDGEMVRLLP-SCRHAFHVQCIGNWLLG 103 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp-~C~H~Fh~~Ci~~wl~~ 103 (242)
....|.+|.+.+++.. .+..| -=.|.||..|-.+.++.
T Consensus 267 apLcCTLC~ERLEDTH-FVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTH-FVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccCc-eeecCCCcccceecccCHHHHHh
Confidence 3478999999998743 33322 13599999999998874
No 156
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.97 E-value=13 Score=33.89 Aligned_cols=52 Identities=27% Similarity=0.569 Sum_probs=40.1
Q ss_pred ccCCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 63 RVDQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 63 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
..+...|-||...+..+.. . ..|.|.|+..|...|......||.|+....+.
T Consensus 102 ~~~~~~~~~~~g~l~vpt~--~-qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv 153 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTVPTR--I-QGCWHQFCYVCPKSNFAMGNDCPDCRGKISPV 153 (324)
T ss_pred cCCccceeeeeeeEEeccc--c-cCceeeeeecCCchhhhhhhccchhhcCcCce
Confidence 3456789999998865422 2 24999999999999999989999998766433
No 157
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=38.39 E-value=40 Score=25.61 Aligned_cols=36 Identities=17% Similarity=0.502 Sum_probs=29.0
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHh
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL 102 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~ 102 (242)
....|.||-..+..|+.....+ .-..|.+|+..-..
T Consensus 5 kewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~ 40 (103)
T COG4847 5 KEWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKR 40 (103)
T ss_pred ceeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHh
Confidence 3568999999999999888776 45689999987544
No 158
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=37.65 E-value=8.8 Score=25.67 Aligned_cols=20 Identities=25% Similarity=0.615 Sum_probs=15.2
Q ss_pred eeeecCCCCccccHhHHHHH
Q 043807 81 MVRLLPSCRHAFHVQCIGNW 100 (242)
Q Consensus 81 ~~~~lp~C~H~Fh~~Ci~~w 100 (242)
..+..+.|+|.||..|...|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 34455459999999998887
No 159
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=37.45 E-value=34 Score=26.22 Aligned_cols=34 Identities=18% Similarity=0.423 Sum_probs=27.9
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHh
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLL 102 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~ 102 (242)
..|.||-.++-.|+....+.. -..|..|+..-..
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 589999999999988877764 5689999987543
No 160
>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=36.59 E-value=8.3 Score=27.61 Aligned_cols=40 Identities=28% Similarity=0.556 Sum_probs=20.1
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCC
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVA 115 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~ 115 (242)
..|+.|..++.... +|.+|..|-.. +.....||-|..++.
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHH
Confidence 46888888865321 55566666544 334567999988773
No 161
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.85 E-value=19 Score=27.11 Aligned_cols=12 Identities=33% Similarity=0.947 Sum_probs=10.9
Q ss_pred ccHhHHHHHHhc
Q 043807 92 FHVQCIGNWLLG 103 (242)
Q Consensus 92 Fh~~Ci~~wl~~ 103 (242)
||+.|+..|+..
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999963
No 162
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=34.69 E-value=42 Score=26.24 Aligned_cols=30 Identities=23% Similarity=0.496 Sum_probs=19.7
Q ss_pred ecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCCCC
Q 043807 84 LLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQPK 119 (242)
Q Consensus 84 ~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~~~ 119 (242)
..|.|+|.. +-+.+...|+.|++++.-++.
T Consensus 71 ~CP~C~K~T------KmLGr~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 71 ECPNCGKQT------KMLGRVDACMHCKEPLTLDPS 100 (114)
T ss_pred ECCCCCChH------hhhchhhccCcCCCcCccCch
Confidence 345677642 234456789999999976544
No 163
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=34.43 E-value=32 Score=22.78 Aligned_cols=23 Identities=22% Similarity=0.599 Sum_probs=12.9
Q ss_pred CCCccccHhHHHHHHhcCCCCCCC
Q 043807 87 SCRHAFHVQCIGNWLLGHTICPVC 110 (242)
Q Consensus 87 ~C~H~Fh~~Ci~~wl~~~~~CP~C 110 (242)
.|||.|-..= .........||.|
T Consensus 33 ~Cgh~w~~~v-~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASV-NDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccH-hhhccCCCCCCCC
Confidence 4666655432 2222456789988
No 164
>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=33.15 E-value=14 Score=34.93 Aligned_cols=49 Identities=22% Similarity=0.531 Sum_probs=0.0
Q ss_pred Cceeeeeccccc-------------CC---ceeeecCCCCccccHhHHHHHHhc---------CCCCCCCCcCCC
Q 043807 66 QSECVICLGELE-------------DG---EMVRLLPSCRHAFHVQCIGNWLLG---------HTICPVCRSPVA 115 (242)
Q Consensus 66 ~~~C~ICl~~~~-------------~~---~~~~~lp~C~H~Fh~~Ci~~wl~~---------~~~CP~CR~~i~ 115 (242)
...|++|+..-. .+ -.....| |||+--.....-|-+. +..||.|-.++.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 568999997421 01 1234556 9999888888888752 357999988775
No 165
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=32.72 E-value=45 Score=31.73 Aligned_cols=32 Identities=19% Similarity=0.506 Sum_probs=22.7
Q ss_pred ceeeeecccccCCceeeecCCCCccccHhHHHHH
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFHVQCIGNW 100 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~w 100 (242)
.+|+||+-.+........ .|.-..|..|+.+.
T Consensus 75 ~ecpicflyyps~~n~~r--cC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 75 TECPICFLYYPSAKNLVR--CCSETICGECFAPF 106 (482)
T ss_pred ccCceeeeecccccchhh--hhccchhhhheecc
Confidence 589999998865322222 48888999998764
No 166
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=31.95 E-value=44 Score=26.23 Aligned_cols=19 Identities=16% Similarity=0.275 Sum_probs=9.8
Q ss_pred hhHHHHHHHHHHHHHhhhh
Q 043807 3 AIVAYHLIVKYLMMRRRLR 21 (242)
Q Consensus 3 iiv~~~li~~~~~~rrr~~ 21 (242)
+|++++++++++..-.+.+
T Consensus 6 ~iii~~i~l~~~~~~~~~r 24 (130)
T PF12273_consen 6 AIIIVAILLFLFLFYCHNR 24 (130)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555544
No 167
>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=30.67 E-value=32 Score=19.91 Aligned_cols=29 Identities=17% Similarity=0.484 Sum_probs=10.0
Q ss_pred eeeeecccccCCceeeecCCCCccccHhHH
Q 043807 68 ECVICLGELEDGEMVRLLPSCRHAFHVQCI 97 (242)
Q Consensus 68 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci 97 (242)
.|.+|...... ...-.-+.|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47778887765 223333459999999885
No 168
>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=30.53 E-value=51 Score=25.27 Aligned_cols=24 Identities=33% Similarity=0.614 Sum_probs=18.7
Q ss_pred CccccHhHHHHHHhc---------CCCCCCCCc
Q 043807 89 RHAFHVQCIGNWLLG---------HTICPVCRS 112 (242)
Q Consensus 89 ~H~Fh~~Ci~~wl~~---------~~~CP~CR~ 112 (242)
.=.||..||..++.. +-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999888743 346999986
No 169
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.48 E-value=9.8 Score=33.99 Aligned_cols=49 Identities=24% Similarity=0.461 Sum_probs=36.1
Q ss_pred CceeeeecccccCC--c-eeeecCC-------CCccccHhHHHHHHhc-CCCCCCCCcCC
Q 043807 66 QSECVICLGELEDG--E-MVRLLPS-------CRHAFHVQCIGNWLLG-HTICPVCRSPV 114 (242)
Q Consensus 66 ~~~C~ICl~~~~~~--~-~~~~lp~-------C~H~Fh~~Ci~~wl~~-~~~CP~CR~~i 114 (242)
+..|.||...|... . ..+++.. |+|..|..|+..-+.. ...||.|+...
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~~ 266 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCccccee
Confidence 35799999999832 2 2333333 9999999999988754 36899998754
No 170
>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=30.12 E-value=45 Score=25.81 Aligned_cols=13 Identities=23% Similarity=0.841 Sum_probs=9.5
Q ss_pred CCCCCCCcCCCCC
Q 043807 105 TICPVCRSPVADQ 117 (242)
Q Consensus 105 ~~CP~CR~~i~~~ 117 (242)
.+||.|-..+...
T Consensus 27 ivCP~CG~~~~~~ 39 (108)
T PF09538_consen 27 IVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCCCccCcc
Confidence 3589998877655
No 171
>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=29.31 E-value=7.1 Score=35.10 Aligned_cols=48 Identities=19% Similarity=0.329 Sum_probs=19.7
Q ss_pred CCceeeeecccccCCceeeecC--CCCccccHhHHHHHHhcCCCCCCCCcC
Q 043807 65 DQSECVICLGELEDGEMVRLLP--SCRHAFHVQCIGNWLLGHTICPVCRSP 113 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp--~C~H~Fh~~Ci~~wl~~~~~CP~CR~~ 113 (242)
....|+||-..-.-.. +.... .=-|.+|.-|-..|--....||.|-..
T Consensus 171 ~~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred cCCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 4468999998643210 00000 013556777888887778899999653
No 172
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=27.62 E-value=30 Score=23.91 Aligned_cols=14 Identities=36% Similarity=1.182 Sum_probs=10.6
Q ss_pred CCCCCCCCcCCCCC
Q 043807 104 HTICPVCRSPVADQ 117 (242)
Q Consensus 104 ~~~CP~CR~~i~~~ 117 (242)
...||+|..++...
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 46899999887543
No 173
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=26.72 E-value=45 Score=22.91 Aligned_cols=34 Identities=15% Similarity=0.246 Sum_probs=23.3
Q ss_pred CceeeeecccccC--CceeeecCCCCccccHhHHHH
Q 043807 66 QSECVICLGELED--GEMVRLLPSCRHAFHVQCIGN 99 (242)
Q Consensus 66 ~~~C~ICl~~~~~--~~~~~~lp~C~H~Fh~~Ci~~ 99 (242)
...|+.|-..... .......+.||+.+|.+-...
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 3479999888766 344555666888888775443
No 174
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.45 E-value=60 Score=32.96 Aligned_cols=49 Identities=27% Similarity=0.529 Sum_probs=34.9
Q ss_pred eeeeecccccCCceeeecCCCCc-cccHhHHHHHHh--c----CCCCCCCCcCCCCCCCC
Q 043807 68 ECVICLGELEDGEMVRLLPSCRH-AFHVQCIGNWLL--G----HTICPVCRSPVADQPKS 120 (242)
Q Consensus 68 ~C~ICl~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~--~----~~~CP~CR~~i~~~~~~ 120 (242)
.|+||-..+.- .....|+| ..|..|...... . ...||+||..+......
T Consensus 2 ~c~ic~~s~~~----~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s~~ 57 (669)
T KOG2231|consen 2 SCAICAFSPDF----VGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKSNG 57 (669)
T ss_pred CcceeecCccc----cccccccccccchhhhhhhhhhcccccccccCcccccceeeeccc
Confidence 59999887653 34446999 799999977542 2 45689999977655443
No 175
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=26.31 E-value=57 Score=20.53 Aligned_cols=12 Identities=0% Similarity=-0.020 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHh
Q 043807 7 YHLIVKYLMMRR 18 (242)
Q Consensus 7 ~~li~~~~~~rr 18 (242)
++++..-+++|+
T Consensus 21 i~~~~YaCcykk 32 (38)
T PF02439_consen 21 ICMFYYACCYKK 32 (38)
T ss_pred HHHHHHHHHHcc
Confidence 333333344443
No 176
>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=26.29 E-value=37 Score=26.29 Aligned_cols=34 Identities=15% Similarity=0.278 Sum_probs=21.3
Q ss_pred CCceeeeecccccC--CceeeecCCCCccccHhHHHH
Q 043807 65 DQSECVICLGELED--GEMVRLLPSCRHAFHVQCIGN 99 (242)
Q Consensus 65 ~~~~C~ICl~~~~~--~~~~~~lp~C~H~Fh~~Ci~~ 99 (242)
++..|++|...|.. +... ....|.|.+|..|-..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~-~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGR-VCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCE-EETTTTEEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCCC-cCCcCCccccCccCCc
Confidence 55689999987632 2233 3345999999888543
No 177
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=25.77 E-value=44 Score=25.11 Aligned_cols=33 Identities=30% Similarity=0.641 Sum_probs=21.7
Q ss_pred CCceeeeecccccCCceeeec-CCCCccccHhHHHH
Q 043807 65 DQSECVICLGELEDGEMVRLL-PSCRHAFHVQCIGN 99 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~l-p~C~H~Fh~~Ci~~ 99 (242)
....|.||.... |-.+.-. +.|...||..|...
T Consensus 54 ~~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSG--GACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHH
Confidence 356899999983 2212111 13888999999865
No 178
>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=25.27 E-value=20 Score=23.72 Aligned_cols=11 Identities=36% Similarity=1.153 Sum_probs=5.7
Q ss_pred CCCCCCCcCCC
Q 043807 105 TICPVCRSPVA 115 (242)
Q Consensus 105 ~~CP~CR~~i~ 115 (242)
..||+|..+|.
T Consensus 21 ~~CPlC~r~l~ 31 (54)
T PF04423_consen 21 GCCPLCGRPLD 31 (54)
T ss_dssp EE-TTT--EE-
T ss_pred CcCCCCCCCCC
Confidence 38999998874
No 179
>PRK05978 hypothetical protein; Provisional
Probab=25.12 E-value=52 Score=26.96 Aligned_cols=28 Identities=18% Similarity=0.488 Sum_probs=20.8
Q ss_pred CCC--ccccHhHHHHHHhcCCCCCCCCcCCCCCCC
Q 043807 87 SCR--HAFHVQCIGNWLLGHTICPVCRSPVADQPK 119 (242)
Q Consensus 87 ~C~--H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~~~ 119 (242)
.|| |.|+ .+++-+..||.|-.++...+.
T Consensus 38 ~CG~G~LF~-----g~Lkv~~~C~~CG~~~~~~~a 67 (148)
T PRK05978 38 ACGEGKLFR-----AFLKPVDHCAACGEDFTHHRA 67 (148)
T ss_pred CCCCCcccc-----cccccCCCccccCCccccCCc
Confidence 455 5675 578889999999998865543
No 180
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=24.76 E-value=41 Score=29.53 Aligned_cols=26 Identities=27% Similarity=0.492 Sum_probs=18.3
Q ss_pred ceeeeecccccCCceeeecCCCCcccc
Q 043807 67 SECVICLGELEDGEMVRLLPSCRHAFH 93 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh 93 (242)
..|++|...+...+.....+ .+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCc
Confidence 47999999997555444554 678773
No 181
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=24.70 E-value=19 Score=22.78 Aligned_cols=25 Identities=32% Similarity=0.482 Sum_probs=14.1
Q ss_pred CCCccccHhHHHHHHhcCCCCCCCCc
Q 043807 87 SCRHAFHVQCIGNWLLGHTICPVCRS 112 (242)
Q Consensus 87 ~C~H~Fh~~Ci~~wl~~~~~CP~CR~ 112 (242)
.|||.|-...-..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 47777755221110 23467999987
No 182
>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=24.03 E-value=45 Score=24.89 Aligned_cols=40 Identities=30% Similarity=0.554 Sum_probs=30.4
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
....|.-|...+.--+ ..| |-.|+..+..|..|++++...
T Consensus 32 ~rS~C~~C~~~L~~~~---lIP----------i~S~l~lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWD---LIP----------ILSYLLLRGRCRYCGAPIPPR 71 (92)
T ss_pred CCCcCcCCCCcCcccc---cch----------HHHHHHhCCCCcccCCCCChH
Confidence 4468999988887543 444 567999999999999998643
No 183
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=23.87 E-value=36 Score=33.79 Aligned_cols=34 Identities=29% Similarity=0.566 Sum_probs=23.3
Q ss_pred CCceeeeecccccC-----------CceeeecCCCCccccHhHHHHH
Q 043807 65 DQSECVICLGELED-----------GEMVRLLPSCRHAFHVQCIGNW 100 (242)
Q Consensus 65 ~~~~C~ICl~~~~~-----------~~~~~~lp~C~H~Fh~~Ci~~w 100 (242)
....|+||.+.|+. .+.+.+. =|-+||..|+..-
T Consensus 512 ~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le--~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 512 RQASCPICQEKFEVVFDQEEDLWMYKDAVYLE--FGRIFHSKCLSEK 556 (579)
T ss_pred cccCCcccccccceeecchhhheeecceeeec--cCceeeccccchH
Confidence 44679999999863 1223322 5889999998763
No 184
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=23.35 E-value=65 Score=25.90 Aligned_cols=14 Identities=21% Similarity=0.705 Sum_probs=11.0
Q ss_pred CCCCCCCCcCCCCC
Q 043807 104 HTICPVCRSPVADQ 117 (242)
Q Consensus 104 ~~~CP~CR~~i~~~ 117 (242)
...||.|...+...
T Consensus 123 ~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 123 TFTCPRCGEELEED 136 (147)
T ss_pred cEECCCCCCEEEEc
Confidence 37899999988654
No 185
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=22.01 E-value=58 Score=26.17 Aligned_cols=21 Identities=24% Similarity=0.673 Sum_probs=16.4
Q ss_pred CCCCccccHhHHHHHHhcCCCCCCCCcCC
Q 043807 86 PSCRHAFHVQCIGNWLLGHTICPVCRSPV 114 (242)
Q Consensus 86 p~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i 114 (242)
+.|||+|+- -+..||.|....
T Consensus 33 ~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 33 KKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred CCCCeEEcC--------CcccCCCCCCCC
Confidence 369999876 467899998864
No 186
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=21.91 E-value=57 Score=23.43 Aligned_cols=34 Identities=26% Similarity=0.552 Sum_probs=22.4
Q ss_pred CCceeeeecccccCCceeeecCCCCccccHhHHHH
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHAFHVQCIGN 99 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~ 99 (242)
....|.+|....-..-... .+.|.-.||..|...
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~-~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCS-HPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEe-CCCCCcEEChHHHcc
Confidence 4468999997733221222 235899999999865
No 187
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=21.66 E-value=42 Score=26.08 Aligned_cols=10 Identities=30% Similarity=0.650 Sum_probs=6.6
Q ss_pred eeeeeccccc
Q 043807 68 ECVICLGELE 77 (242)
Q Consensus 68 ~C~ICl~~~~ 77 (242)
.|+-|..+|.
T Consensus 4 ~CP~C~seyt 13 (109)
T TIGR00686 4 PCPKCNSEYT 13 (109)
T ss_pred cCCcCCCcce
Confidence 5777777664
No 188
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.97 E-value=28 Score=33.28 Aligned_cols=36 Identities=25% Similarity=0.469 Sum_probs=25.6
Q ss_pred ceeeeecccccCCce-----eeecCCCCccccHhHHHHHHhc
Q 043807 67 SECVICLGELEDGEM-----VRLLPSCRHAFHVQCIGNWLLG 103 (242)
Q Consensus 67 ~~C~ICl~~~~~~~~-----~~~lp~C~H~Fh~~Ci~~wl~~ 103 (242)
..|+.|...++.... .... .|.|.||..|+..|-..
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~-~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSA-SCKHEFCWVCLASLSDH 267 (444)
T ss_pred ccCCCcccchhccCCccccccccC-CcCCeeceeeecccccc
Confidence 359999999876541 1122 39999999998888654
No 189
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=20.92 E-value=66 Score=31.20 Aligned_cols=49 Identities=20% Similarity=0.447 Sum_probs=31.3
Q ss_pred Cceeeeecccc-cCCceeeecCCCCccccHhHHHHHHh--------cCCCCCCCCcCC
Q 043807 66 QSECVICLGEL-EDGEMVRLLPSCRHAFHVQCIGNWLL--------GHTICPVCRSPV 114 (242)
Q Consensus 66 ~~~C~ICl~~~-~~~~~~~~lp~C~H~Fh~~Ci~~wl~--------~~~~CP~CR~~i 114 (242)
...|.+|+... ...+.+...-.|+-.||..|-..... ....|-.|....
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 45699999654 33344444446888999999875432 123588887544
No 190
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=20.64 E-value=33 Score=26.89 Aligned_cols=13 Identities=23% Similarity=0.411 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhh
Q 043807 7 YHLIVKYLMMRRR 19 (242)
Q Consensus 7 ~~li~~~~~~rrr 19 (242)
++|++.+|+.|||
T Consensus 38 iLLliGCWYckRR 50 (118)
T PF14991_consen 38 ILLLIGCWYCKRR 50 (118)
T ss_dssp -------------
T ss_pred HHHHHhheeeeec
Confidence 3344444444443
No 191
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=20.43 E-value=77 Score=29.35 Aligned_cols=44 Identities=5% Similarity=-0.201 Sum_probs=31.5
Q ss_pred CCceeeeecccccCCceeeecCCCCcc-ccHhHHHHHHhcCCCCCCCCcCC
Q 043807 65 DQSECVICLGELEDGEMVRLLPSCRHA-FHVQCIGNWLLGHTICPVCRSPV 114 (242)
Q Consensus 65 ~~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~CR~~i 114 (242)
...+|-.|-..... ..+.+ |+|. ||..|.. +....+||.|....
T Consensus 342 s~~~~~~~~~~~~s---t~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLS---TIWSG-GNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCceee---eEeec-CCcccChhhhhh--cccCCccccccccc
Confidence 34578888777654 33445 9986 8999987 45678999997644
No 192
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.24 E-value=54 Score=27.12 Aligned_cols=45 Identities=27% Similarity=0.519 Sum_probs=29.9
Q ss_pred eeecccccCCceeeecCCCCccccHhHHHHHHhcCCCCCCCCcCCCCC
Q 043807 70 VICLGELEDGEMVRLLPSCRHAFHVQCIGNWLLGHTICPVCRSPVADQ 117 (242)
Q Consensus 70 ~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~CR~~i~~~ 117 (242)
.||+..=...+.+-.-|.=.+.||..|-.+-. ..||.|..+|.-.
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI---~~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTI---TSCPNCSTPIRGD 52 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHH---HHCcCCCCCCCCc
Confidence 46776544444444444445679999988755 3699999998654
Done!