Query 022025
Match_columns 304
No_of_seqs 301 out of 1421
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 07:26:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022025.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022025hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3002 Zn finger protein [Gen 100.0 2.1E-52 4.5E-57 388.5 14.4 258 46-304 41-299 (299)
2 PF03145 Sina: Seven in absent 100.0 2.2E-43 4.8E-48 312.6 11.9 198 98-295 1-198 (198)
3 cd03829 Sina Seven in absentia 100.0 3E-37 6.6E-42 247.1 2.2 125 171-298 2-127 (127)
4 KOG0297 TNF receptor-associate 99.3 2.6E-12 5.6E-17 125.0 6.5 116 49-171 17-141 (391)
5 PF15227 zf-C3HC4_4: zinc fing 98.5 3E-08 6.6E-13 66.3 0.6 34 56-91 1-42 (42)
6 TIGR00599 rad18 DNA repair pro 98.5 5.6E-08 1.2E-12 94.3 2.4 71 34-110 11-88 (397)
7 PF14835 zf-RING_6: zf-RING of 98.4 5.5E-08 1.2E-12 70.2 0.3 56 49-106 3-64 (65)
8 smart00504 Ubox Modified RING 98.4 1.7E-07 3.8E-12 67.3 2.5 56 53-109 1-62 (63)
9 KOG0287 Postreplication repair 98.3 6.6E-08 1.4E-12 90.4 -1.2 65 44-110 14-85 (442)
10 PLN03208 E3 ubiquitin-protein 98.2 4.2E-07 9.2E-12 79.7 1.6 47 49-97 14-80 (193)
11 KOG0823 Predicted E3 ubiquitin 98.1 1.3E-06 2.8E-11 78.2 2.1 48 49-97 43-96 (230)
12 KOG0320 Predicted E3 ubiquitin 98.1 1.2E-06 2.6E-11 75.5 1.7 46 51-96 129-178 (187)
13 PF02176 zf-TRAF: TRAF-type zi 98.1 7E-07 1.5E-11 63.8 0.2 54 108-163 6-60 (60)
14 PF13923 zf-C3HC4_2: Zinc fing 98.1 8.6E-07 1.9E-11 58.1 0.4 36 56-91 1-39 (39)
15 PF13920 zf-C3HC4_3: Zinc fing 98.0 9.6E-07 2.1E-11 61.0 0.0 42 53-96 2-48 (50)
16 PF04564 U-box: U-box domain; 98.0 2.9E-06 6.2E-11 63.4 1.2 60 50-110 1-67 (73)
17 PF13639 zf-RING_2: Ring finge 97.8 4.8E-06 1E-10 55.9 -0.2 38 55-92 2-44 (44)
18 PF14634 zf-RING_5: zinc-RING 97.7 7.4E-06 1.6E-10 55.1 0.2 37 55-93 1-44 (44)
19 PHA02929 N1R/p28-like protein; 97.7 9.1E-06 2E-10 74.0 0.8 47 51-97 172-228 (238)
20 COG5432 RAD18 RING-finger-cont 97.7 6.6E-06 1.4E-10 75.8 -0.2 51 44-96 16-70 (391)
21 PF00097 zf-C3HC4: Zinc finger 97.7 1.2E-05 2.6E-10 52.9 0.5 34 56-91 1-41 (41)
22 KOG2177 Predicted E3 ubiquitin 97.5 2.7E-05 5.8E-10 70.6 1.2 68 46-115 6-78 (386)
23 cd00162 RING RING-finger (Real 97.4 5.5E-05 1.2E-09 49.5 0.6 40 55-94 1-44 (45)
24 KOG0317 Predicted E3 ubiquitin 97.3 5.3E-05 1.1E-09 70.0 0.3 45 51-97 237-285 (293)
25 PF13445 zf-RING_UBOX: RING-ty 97.3 4.4E-05 9.6E-10 51.3 -0.5 26 56-84 1-31 (43)
26 PHA02926 zinc finger-like prot 97.2 5.5E-05 1.2E-09 67.6 -0.7 47 49-97 166-231 (242)
27 PLN03086 PRLI-interacting fact 97.1 0.00039 8.5E-09 70.5 3.4 107 48-166 402-536 (567)
28 TIGR00570 cdk7 CDK-activating 97.1 0.00029 6.3E-09 66.3 2.3 43 53-96 3-54 (309)
29 KOG0978 E3 ubiquitin ligase in 97.0 0.00011 2.4E-09 75.6 -1.2 49 47-97 637-690 (698)
30 PF07800 DUF1644: Protein of u 97.0 0.00075 1.6E-08 57.4 3.9 26 143-170 109-134 (162)
31 smart00184 RING Ring finger. E 97.0 0.0002 4.3E-09 45.1 0.1 34 56-91 1-39 (39)
32 KOG0311 Predicted E3 ubiquitin 96.9 4.9E-05 1.1E-09 71.9 -4.5 51 46-98 36-92 (381)
33 KOG2164 Predicted E3 ubiquitin 96.8 0.0003 6.4E-09 69.6 0.2 43 53-97 186-237 (513)
34 COG5574 PEX10 RING-finger-cont 96.7 0.00058 1.3E-08 62.5 0.9 44 51-96 213-262 (271)
35 KOG2660 Locus-specific chromos 96.0 0.0016 3.4E-08 61.4 -0.2 49 47-97 9-62 (331)
36 KOG2879 Predicted E3 ubiquitin 95.9 0.006 1.3E-07 56.2 2.9 44 51-96 237-287 (298)
37 PF12678 zf-rbx1: RING-H2 zinc 95.8 0.0029 6.4E-08 47.2 0.5 37 56-92 22-73 (73)
38 PLN03086 PRLI-interacting fact 95.7 0.029 6.4E-07 57.1 7.1 43 121-169 459-501 (567)
39 COG5222 Uncharacterized conser 95.6 0.0043 9.4E-08 57.7 1.0 40 54-94 275-319 (427)
40 KOG4172 Predicted E3 ubiquitin 95.5 0.0016 3.5E-08 45.6 -1.7 41 54-96 8-54 (62)
41 KOG1813 Predicted E3 ubiquitin 95.5 0.01 2.2E-07 55.2 2.8 45 54-100 242-290 (313)
42 COG5152 Uncharacterized conser 95.5 0.0049 1.1E-07 54.3 0.6 55 53-109 196-256 (259)
43 PF02176 zf-TRAF: TRAF-type zi 95.4 0.0069 1.5E-07 42.9 1.2 37 133-171 1-37 (60)
44 KOG4159 Predicted E3 ubiquitin 95.4 0.0035 7.7E-08 61.2 -0.5 48 49-97 80-130 (398)
45 PF14570 zf-RING_4: RING/Ubox 95.0 0.0068 1.5E-07 41.6 0.1 40 56-95 1-47 (48)
46 KOG0824 Predicted E3 ubiquitin 94.4 0.018 3.8E-07 53.8 1.3 41 55-97 9-54 (324)
47 COG5175 MOT2 Transcriptional r 93.8 0.016 3.4E-07 55.0 -0.4 48 48-96 10-64 (480)
48 PF14447 Prok-RING_4: Prokaryo 93.5 0.064 1.4E-06 37.7 2.5 43 52-96 6-50 (55)
49 KOG0802 E3 ubiquitin ligase [P 93.5 0.017 3.7E-07 58.9 -0.6 43 51-95 289-340 (543)
50 KOG4265 Predicted E3 ubiquitin 92.9 0.051 1.1E-06 51.9 1.6 44 51-96 288-336 (349)
51 KOG4275 Predicted E3 ubiquitin 92.7 0.023 5E-07 52.9 -1.0 43 50-95 297-341 (350)
52 PF12861 zf-Apc11: Anaphase-pr 91.9 0.051 1.1E-06 41.8 0.2 41 56-96 35-82 (85)
53 KOG1002 Nucleotide excision re 91.9 0.049 1.1E-06 54.5 0.1 51 44-96 527-586 (791)
54 PF11789 zf-Nse: Zinc-finger o 91.3 0.048 1E-06 38.8 -0.4 34 51-84 9-42 (57)
55 KOG4739 Uncharacterized protei 90.6 0.15 3.1E-06 46.4 1.8 44 53-96 3-48 (233)
56 KOG4367 Predicted Zn-finger pr 89.2 0.1 2.2E-06 51.2 -0.4 30 51-82 2-32 (699)
57 PF05605 zf-Di19: Drought indu 88.8 0.3 6.5E-06 34.0 1.9 49 112-169 3-54 (54)
58 COG5540 RING-finger-containing 88.8 0.18 4E-06 47.3 1.1 43 52-96 322-372 (374)
59 PF05290 Baculo_IE-1: Baculovi 88.8 0.16 3.5E-06 42.1 0.6 45 52-97 79-133 (140)
60 KOG1785 Tyrosine kinase negati 88.8 0.1 2.2E-06 50.7 -0.7 41 55-97 371-417 (563)
61 KOG3161 Predicted E3 ubiquitin 87.2 0.082 1.8E-06 54.0 -2.4 39 49-89 7-51 (861)
62 KOG1571 Predicted E3 ubiquitin 86.4 0.24 5.1E-06 47.5 0.3 45 49-96 301-347 (355)
63 COG5236 Uncharacterized conser 86.4 0.16 3.4E-06 48.5 -0.9 45 49-95 57-107 (493)
64 KOG3039 Uncharacterized conser 85.7 0.38 8.3E-06 44.0 1.3 46 52-97 220-271 (303)
65 KOG1039 Predicted E3 ubiquitin 85.4 0.31 6.8E-06 46.9 0.6 44 51-96 159-221 (344)
66 KOG0825 PHD Zn-finger protein 85.3 0.23 5.1E-06 51.9 -0.4 40 55-96 125-171 (1134)
67 PF04641 Rtf2: Rtf2 RING-finge 85.1 0.52 1.1E-05 43.6 1.9 52 46-97 106-162 (260)
68 KOG4185 Predicted E3 ubiquitin 84.3 0.6 1.3E-05 43.6 1.9 56 53-110 3-77 (296)
69 PF13909 zf-H2C2_5: C2H2-type 83.5 0.69 1.5E-05 26.4 1.3 24 142-169 1-24 (24)
70 PF10083 DUF2321: Uncharacteri 81.7 0.35 7.6E-06 41.2 -0.6 28 69-96 9-50 (158)
71 PF07191 zinc-ribbons_6: zinc- 81.5 0.47 1E-05 35.1 0.1 38 54-96 2-41 (70)
72 KOG4628 Predicted E3 ubiquitin 80.1 0.93 2E-05 43.7 1.6 41 54-96 230-278 (348)
73 KOG0804 Cytoplasmic Zn-finger 80.0 0.81 1.8E-05 45.2 1.1 48 48-95 170-221 (493)
74 PF11793 FANCL_C: FANCL C-term 78.1 0.51 1.1E-05 34.8 -0.7 44 53-96 2-66 (70)
75 KOG2932 E3 ubiquitin ligase in 76.5 2.4 5.1E-05 40.2 3.0 67 49-123 85-155 (389)
76 KOG1814 Predicted E3 ubiquitin 76.2 1.3 2.8E-05 43.4 1.2 102 50-156 181-322 (445)
77 COG4306 Uncharacterized protei 75.7 0.97 2.1E-05 37.2 0.2 28 69-96 9-50 (160)
78 KOG2231 Predicted E3 ubiquitin 74.9 1.5 3.3E-05 45.6 1.5 40 55-96 2-52 (669)
79 KOG1001 Helicase-like transcri 74.8 0.5 1.1E-05 49.5 -2.1 55 38-95 439-499 (674)
80 COG5243 HRD1 HRD ubiquitin lig 74.2 1.4 3E-05 42.7 0.9 43 51-95 285-344 (491)
81 PRK11088 rrmA 23S rRNA methylt 74.0 1.4 3.1E-05 40.6 0.9 24 53-76 2-27 (272)
82 PF13913 zf-C2HC_2: zinc-finge 73.8 1.1 2.3E-05 26.3 0.0 17 121-137 8-24 (25)
83 KOG2817 Predicted E3 ubiquitin 73.6 1.2 2.6E-05 43.3 0.4 43 50-94 331-383 (394)
84 KOG4692 Predicted E3 ubiquitin 72.9 0.96 2.1E-05 43.5 -0.5 44 51-96 420-467 (489)
85 PF10571 UPF0547: Uncharacteri 72.7 1.8 3.9E-05 25.8 0.8 9 56-64 3-11 (26)
86 PRK04023 DNA polymerase II lar 72.3 3.5 7.7E-05 44.8 3.4 44 52-97 625-675 (1121)
87 KOG2462 C2H2-type Zn-finger pr 71.9 1.7 3.7E-05 40.4 0.9 103 51-170 159-269 (279)
88 KOG1645 RING-finger-containing 71.1 1.2 2.7E-05 43.4 -0.2 40 54-95 5-55 (463)
89 KOG3002 Zn finger protein [Gen 70.7 1.7 3.7E-05 41.2 0.6 77 86-166 49-131 (299)
90 PF12660 zf-TFIIIC: Putative z 70.3 1.9 4.1E-05 34.1 0.7 40 55-95 16-65 (99)
91 KOG2114 Vacuolar assembly/sort 69.7 2 4.3E-05 45.6 0.9 43 50-94 837-881 (933)
92 COG5194 APC11 Component of SCF 68.7 1.4 3E-05 33.5 -0.4 42 55-96 22-81 (88)
93 PF05605 zf-Di19: Drought indu 68.4 5.1 0.00011 27.7 2.5 27 141-171 2-28 (54)
94 PF07975 C1_4: TFIIH C1-like d 68.4 3.2 6.9E-05 28.9 1.4 37 56-92 2-50 (51)
95 COG5219 Uncharacterized conser 68.1 1 2.3E-05 48.3 -1.5 48 49-96 1465-1523(1525)
96 KOG0826 Predicted E3 ubiquitin 66.6 2.2 4.8E-05 40.6 0.5 43 52-94 299-344 (357)
97 PRK14714 DNA polymerase II lar 64.4 5.8 0.00013 44.1 3.2 43 53-97 667-721 (1337)
98 COG3813 Uncharacterized protei 60.6 4.2 9.2E-05 30.3 0.9 30 68-97 23-53 (84)
99 KOG3039 Uncharacterized conser 59.6 4.3 9.3E-05 37.3 1.0 35 48-83 38-72 (303)
100 KOG3608 Zn finger proteins [Ge 59.4 5.4 0.00012 38.6 1.6 113 51-169 205-346 (467)
101 COG2888 Predicted Zn-ribbon RN 59.2 5.5 0.00012 28.5 1.3 35 109-156 25-61 (61)
102 KOG3800 Predicted E3 ubiquitin 58.6 3.2 7E-05 38.9 0.0 41 55-95 2-50 (300)
103 KOG3579 Predicted E3 ubiquitin 56.7 8.6 0.00019 36.1 2.4 32 51-82 266-300 (352)
104 PF10367 Vps39_2: Vacuolar sor 56.4 6.4 0.00014 30.5 1.4 33 51-83 76-109 (109)
105 PF06906 DUF1272: Protein of u 56.4 6.2 0.00014 27.9 1.1 43 55-97 7-53 (57)
106 PRK14892 putative transcriptio 54.4 13 0.00028 29.4 2.8 38 44-82 12-50 (99)
107 KOG2462 C2H2-type Zn-finger pr 53.4 19 0.00042 33.6 4.2 105 50-166 127-237 (279)
108 KOG3576 Ovo and related transc 53.4 9.3 0.0002 34.3 2.0 121 38-171 103-239 (267)
109 PF10235 Cript: Microtubule-as 51.8 8.2 0.00018 30.0 1.3 36 55-97 46-81 (90)
110 KOG1734 Predicted RING-contain 49.4 2.4 5.2E-05 39.4 -2.3 42 55-96 226-281 (328)
111 KOG1812 Predicted E3 ubiquitin 49.0 6.3 0.00014 38.6 0.3 33 52-84 145-180 (384)
112 PRK14890 putative Zn-ribbon RN 48.7 11 0.00024 26.9 1.5 35 109-156 23-59 (59)
113 PHA00616 hypothetical protein 48.5 31 0.00066 23.2 3.4 27 141-171 1-28 (44)
114 KOG4362 Transcriptional regula 47.4 4.7 0.0001 42.1 -0.8 49 46-96 14-69 (684)
115 PF01485 IBR: IBR domain; Int 46.7 15 0.00033 25.4 1.9 33 52-84 17-58 (64)
116 PF02891 zf-MIZ: MIZ/SP-RING z 46.6 8.5 0.00018 26.4 0.6 42 53-94 2-50 (50)
117 PF13894 zf-C2H2_4: C2H2-type 45.9 18 0.00039 19.5 1.8 22 143-168 2-24 (24)
118 PF13240 zinc_ribbon_2: zinc-r 45.7 11 0.00023 21.7 0.8 9 86-94 14-22 (23)
119 PF04606 Ogr_Delta: Ogr/Delta- 44.5 5.8 0.00013 26.8 -0.5 39 87-127 1-39 (47)
120 PF04216 FdhE: Protein involve 43.4 10 0.00022 35.5 0.7 42 53-94 172-220 (290)
121 smart00647 IBR In Between Ring 43.1 14 0.00031 25.6 1.3 31 54-84 19-58 (64)
122 COG1198 PriA Primosomal protei 40.8 25 0.00055 37.4 3.2 43 50-94 432-484 (730)
123 PF05253 zf-U11-48K: U11-48K-l 40.6 5.1 0.00011 23.9 -1.1 23 112-137 3-25 (27)
124 smart00154 ZnF_AN1 AN1-like Zi 40.5 17 0.00036 23.6 1.2 23 56-79 1-25 (39)
125 KOG0298 DEAD box-containing he 40.0 4.1 9E-05 45.2 -2.7 46 49-96 1149-1199(1394)
126 KOG1100 Predicted E3 ubiquitin 39.8 19 0.00042 32.2 1.9 39 56-96 161-200 (207)
127 smart00301 DM Doublesex DNA-bi 39.6 26 0.00055 24.7 2.1 39 121-163 8-46 (54)
128 PRK14559 putative protein seri 38.7 23 0.0005 37.2 2.5 9 55-63 3-11 (645)
129 PF03833 PolC_DP2: DNA polymer 38.7 10 0.00022 40.6 0.0 43 52-96 654-703 (900)
130 PF01363 FYVE: FYVE zinc finge 38.0 17 0.00037 26.0 1.1 32 52-83 8-42 (69)
131 TIGR01562 FdhE formate dehydro 37.9 22 0.00049 33.8 2.1 41 53-93 184-232 (305)
132 TIGR00595 priA primosomal prot 37.6 30 0.00065 35.1 3.1 42 51-94 211-262 (505)
133 PLN02189 cellulose synthase 35.8 30 0.00066 38.1 3.0 42 55-96 36-87 (1040)
134 PF01428 zf-AN1: AN1-like Zinc 34.8 31 0.00068 22.6 1.9 33 56-89 1-36 (43)
135 PF12773 DZR: Double zinc ribb 34.7 33 0.00072 22.9 2.1 6 88-93 32-37 (50)
136 PF08209 Sgf11: Sgf11 (transcr 34.1 8.7 0.00019 24.2 -0.9 15 151-165 10-24 (33)
137 PF12756 zf-C2H2_2: C2H2 type 33.9 29 0.00064 25.9 1.9 35 132-170 41-77 (100)
138 PLN02638 cellulose synthase A 33.8 34 0.00074 37.8 2.9 57 39-96 4-70 (1079)
139 KOG0297 TNF receptor-associate 33.8 21 0.00045 35.1 1.3 34 110-146 113-147 (391)
140 PF03145 Sina: Seven in absent 32.6 21 0.00047 31.2 1.1 46 91-136 24-69 (198)
141 PRK09678 DNA-binding transcrip 32.6 18 0.00039 27.0 0.4 45 87-133 3-47 (72)
142 TIGR00622 ssl1 transcription f 31.3 37 0.0008 27.5 2.1 38 55-92 57-110 (112)
143 KOG2272 Focal adhesion protein 30.8 43 0.00093 31.1 2.6 23 45-67 175-197 (332)
144 PF09297 zf-NADH-PPase: NADH p 30.5 15 0.00031 22.6 -0.3 20 74-93 3-29 (32)
145 PRK00420 hypothetical protein; 29.7 30 0.00064 28.0 1.3 25 54-82 24-48 (112)
146 KOG2068 MOT2 transcription fac 28.9 37 0.00081 32.5 2.0 43 54-96 250-298 (327)
147 PF00412 LIM: LIM domain; Int 28.9 18 0.00038 24.7 -0.1 31 52-82 25-55 (58)
148 PF13248 zf-ribbon_3: zinc-rib 28.0 30 0.00065 20.2 0.8 6 87-92 18-23 (26)
149 PF05502 Dynactin_p62: Dynacti 27.8 33 0.00072 34.7 1.6 69 50-125 2-96 (483)
150 KOG0827 Predicted E3 ubiquitin 27.3 18 0.00038 35.5 -0.5 38 54-93 5-53 (465)
151 cd00350 rubredoxin_like Rubred 27.0 54 0.0012 20.2 1.9 9 86-94 18-26 (33)
152 PF14446 Prok-RING_1: Prokaryo 26.6 31 0.00068 24.2 0.8 36 54-90 6-44 (54)
153 PF00096 zf-C2H2: Zinc finger, 26.4 31 0.00068 18.8 0.7 20 143-166 2-22 (23)
154 PF08882 Acetone_carb_G: Aceto 26.3 30 0.00065 28.0 0.7 13 67-79 24-36 (112)
155 smart00734 ZnF_Rad18 Rad18-lik 26.1 59 0.0013 19.1 1.8 20 142-165 2-21 (26)
156 PF14319 Zn_Tnp_IS91: Transpos 25.8 38 0.00083 27.2 1.3 36 75-117 53-88 (111)
157 smart00064 FYVE Protein presen 25.2 42 0.00091 23.8 1.3 32 53-84 10-44 (68)
158 PRK03564 formate dehydrogenase 25.0 52 0.0011 31.4 2.2 42 52-93 186-234 (309)
159 PF09237 GAGA: GAGA factor; I 24.9 59 0.0013 22.7 1.9 28 139-170 22-50 (54)
160 COG5109 Uncharacterized conser 24.7 27 0.00059 33.3 0.3 79 10-93 289-384 (396)
161 KOG3993 Transcription factor ( 24.3 17 0.00038 35.9 -1.1 48 45-96 259-306 (500)
162 COG4647 AcxC Acetone carboxyla 23.8 30 0.00066 28.8 0.4 22 58-80 62-83 (165)
163 COG1645 Uncharacterized Zn-fin 23.6 38 0.00082 28.2 0.9 22 55-81 30-51 (131)
164 PF01286 XPA_N: XPA protein N- 23.2 60 0.0013 20.6 1.6 30 53-82 3-32 (34)
165 PRK05580 primosome assembly pr 23.1 63 0.0014 34.1 2.6 42 51-94 379-430 (679)
166 COG5242 TFB4 RNA polymerase II 22.9 37 0.0008 31.0 0.8 18 50-67 257-274 (296)
167 PLN02436 cellulose synthase A 22.8 47 0.001 36.8 1.7 42 55-96 38-89 (1094)
168 COG4357 Zinc finger domain con 22.6 48 0.001 26.2 1.2 23 75-97 63-92 (105)
169 cd00729 rubredoxin_SM Rubredox 22.5 84 0.0018 19.6 2.2 9 86-94 19-27 (34)
170 PF15616 TerY-C: TerY-C metal 22.5 52 0.0011 27.4 1.5 46 47-96 71-116 (131)
171 PF10272 Tmpp129: Putative tra 22.1 38 0.00082 33.0 0.7 11 86-96 341-351 (358)
172 PF00751 DM: DM DNA binding do 21.6 36 0.00078 23.2 0.3 29 125-157 12-40 (47)
173 cd00065 FYVE FYVE domain; Zinc 21.3 49 0.0011 22.5 1.0 30 55-84 4-36 (57)
174 KOG3113 Uncharacterized conser 21.1 64 0.0014 29.9 1.9 55 40-96 98-158 (293)
175 PF13834 DUF4193: Domain of un 21.0 56 0.0012 25.9 1.3 36 45-80 62-98 (99)
176 PF06750 DiS_P_DiS: Bacterial 20.9 70 0.0015 24.8 1.9 11 86-96 59-69 (92)
177 PF14569 zf-UDP: Zinc-binding 20.5 41 0.0009 25.5 0.5 42 55-96 11-62 (80)
178 PF05883 Baculo_RING: Baculovi 20.3 18 0.00038 30.3 -1.7 31 53-84 26-65 (134)
No 1
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=100.00 E-value=2.1e-52 Score=388.52 Aligned_cols=258 Identities=46% Similarity=0.816 Sum_probs=242.7
Q ss_pred cccCCCCeeeecccccccccccccccccCeecccCcccccCCCCCCccCCCCccchHHHHHhhhccccCCCCCCCCcccc
Q 022025 46 SNNGVHELLECPVCTNLMYPPIHQCPNGHTLCSNCKNRVHNCCPTCRFDLGNIRCLALEKVAESLELPCKYQSLGCHDIF 125 (304)
Q Consensus 46 ~~~~l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~~~r~~~le~~l~~l~v~C~~~~~GC~~~~ 125 (304)
....+.+.|+||||++.+.+||+||+|||+.|++|..++.++||.||.+++++|+++||++++++.++|+|..+||++.+
T Consensus 41 ~~~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~~~~ 120 (299)
T KOG3002|consen 41 VTLLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCTKSF 120 (299)
T ss_pred ccccchhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccHHHHHHHHHHHhceecccccccCCceee
Confidence 56678899999999999999999999999999999988889999999999999999999999999999999999999999
Q ss_pred CccchhccccccCcccccCCCCCCCCccccChhhHHHHhhhhCCCCcccceeEEEEEeccCCCcccccceEEEEEeecCc
Q 022025 126 PYYGKLKHEQHCRFRPYNCPYAGSECSVTGDIPTLVAHLKDDHQVDMHDGCTFNHRYVKSDPNEVENATWMLTVFNCFGR 205 (304)
Q Consensus 126 ~~~~~~~He~~C~~~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~~~~g~~~~~~f~~s~~~~~~~~~~~l~v~~~~g~ 205 (304)
+|.+..+||+.|.|+|+.||.+|..|+|.|..++|..|++..|+.++..+..++++|..++++.....+|++.+..++++
T Consensus 121 ~Y~~~~~HE~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~~hk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 (299)
T KOG3002|consen 121 PYGEKSKHEKVCEFRPCSCPVPGAECKYTGSYKDLYAHLNDTHKSDIITLTGFDFVFVATDENLLGAATWTLKTSVCFGR 200 (299)
T ss_pred ccccccccccccccCCcCCCCCcccCCccCcHHHHHHHHHhhChhhhhhccccceecccCCccccccchhheeeeecCcE
Confidence 99999999999999999999998899999999999999999999988777778889999999988888997777779999
Q ss_pred eEEEEEeEEeecce-EEEEEEEEEeCCccccCCcEEEEEEeeCCceEEEEeeeeeeeccccccccCCCeEEEeCCcceee
Q 022025 206 QFCLHFEAFQLGMA-LVYMAFLRFMGDDDEAKKFSYSLEVGAHGRRLIWQGIPRSIRDSHRKVRDSQDGLIIQRNMALYF 284 (304)
Q Consensus 206 ~F~l~~~~~~~g~~-~~~~a~v~~iG~~~~a~~F~Y~l~~~~~~r~L~~~s~~~si~~~~~~~~~~~d~L~ip~~~~~~f 284 (304)
.|.+.+..+..+.. ++|+++++++|.+++|++|+|+|++.+++++|+|++.|+|+++.+...++..|||+||.+++++|
T Consensus 201 ~~~~~~~~q~~~~~~~~y~tv~~i~~~~~e~~~fsy~L~~~~~~~klt~~s~~~s~~~kvs~~~p~~dfm~ip~~~~~~~ 280 (299)
T KOG3002|consen 201 EFGLLFEVQCFREPHGVYVTVNRIAPSAPEAGEFSYSLALGGSGRKLTWQSPPRSIIQKVSKVRPEDDFMLIPRSLLCLF 280 (299)
T ss_pred EEeeeeeehhhcCCCceEEEeehhccCCCcccccceeeecCCCCceEeecCCcceeecccceeccCCCceeccHHHhhcc
Confidence 99999998877444 89999999999999999999999999999999999999999999998999999999999999999
Q ss_pred ecCCeeeEEEEEEEEeecCC
Q 022025 285 SGGDRTELKLRITGRIWKEE 304 (304)
Q Consensus 285 ~~~~~~~l~l~I~~~i~~~~ 304 (304)
..++ ++|.|.+++++|+++
T Consensus 281 ~~~~-~~l~i~~~~~~~~~~ 299 (299)
T KOG3002|consen 281 SLLK-MELKIRVTGRVQEEI 299 (299)
T ss_pred cccC-CceeeccchhhhccC
Confidence 8776 499999999999875
No 2
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=100.00 E-value=2.2e-43 Score=312.65 Aligned_cols=198 Identities=43% Similarity=0.824 Sum_probs=152.5
Q ss_pred ccchHHHHHhhhccccCCCCCCCCccccCccchhccccccCcccccCCCCCCCCccccChhhHHHHhhhhCCCCccccee
Q 022025 98 IRCLALEKVAESLELPCKYQSLGCHDIFPYYGKLKHEQHCRFRPYNCPYAGSECSVTGDIPTLVAHLKDDHQVDMHDGCT 177 (304)
Q Consensus 98 ~r~~~le~~l~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~~~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~~~~g~~ 177 (304)
+||++||++++++++||+|+.+||++.+++.++.+||++|+|+|+.||.++.+|+|.|+.++|..|+..+|++.+..+..
T Consensus 1 iR~~alE~v~~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~~~~~~~~~ 80 (198)
T PF03145_consen 1 IRNRALEKVAESIKFPCKNAKYGCTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDKHSWNVTDNGT 80 (198)
T ss_dssp --------------EE-CCGGGT---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHHTTTSEEEESS
T ss_pred CCcHHHHHHHhhceecCCCCCCCCcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHHCCCccccCcc
Confidence 48999999999999999999999999999999999999999999999997778999999999999999999998876666
Q ss_pred EEEEEeccCCCcccccceEEEEEeecCceEEEEEeEEeecceEEEEEEEEEeCCccccCCcEEEEEEeeCCceEEEEeee
Q 022025 178 FNHRYVKSDPNEVENATWMLTVFNCFGRQFCLHFEAFQLGMALVYMAFLRFMGDDDEAKKFSYSLEVGAHGRRLIWQGIP 257 (304)
Q Consensus 178 ~~~~f~~s~~~~~~~~~~~l~v~~~~g~~F~l~~~~~~~g~~~~~~a~v~~iG~~~~a~~F~Y~l~~~~~~r~L~~~s~~ 257 (304)
+.++|..++....+..+|+++.++|||++|+|+++.+......+|+++|+++|++++|++|+|+|++.+++|+|+||++|
T Consensus 81 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~F~l~~~~~~~~~~~v~~~~v~~~G~~~~a~~f~Yel~~~~~~rkl~~~~~p 160 (198)
T PF03145_consen 81 FSISFLHSDINSVESPDWVLVQFSCFGKLFLLYVQKFELEGNAVYFAVVCYIGPAEEASNFSYELEVRSNGRKLTWQSFP 160 (198)
T ss_dssp -EEEEEECTTT-SSSEEEEEEE-EETTEEEEEEEEEEEEETEEEEEEEEEESS-HHHHTTEEEEEEEEETTEEEEEEE--
T ss_pred ceEEEeeecccccCCceEEEeecccCCccEEEEEEEEccCCceEEEEEEEEccCchhhhceEEEEEEecCCcEEEEEEcC
Confidence 77889888877666778987666999999999998887656689999999999999999999999999999999999999
Q ss_pred eeeeccccccccCCCeEEEeCCcceeeecCCeeeEEEE
Q 022025 258 RSIRDSHRKVRDSQDGLIIQRNMALYFSGGDRTELKLR 295 (304)
Q Consensus 258 ~si~~~~~~~~~~~d~L~ip~~~~~~f~~~~~~~l~l~ 295 (304)
+|++++.+.++++.|||++..+++++|+++++|.|+|+
T Consensus 161 ~si~~~~~~~~~~~d~li~~~~~~~~f~~~~~L~~~v~ 198 (198)
T PF03145_consen 161 RSIREDIDDAIESRDCLIINENAAQFFSEDGNLRYRVT 198 (198)
T ss_dssp EETTT-SHHHHHCT-SEEEEHHHHHHHECTTEEEEEEE
T ss_pred cchhhhHHhhccCCcEEEEchHHHHhcCCCCeEEEEeC
Confidence 99999999999999999999999999999997666654
No 3
>cd03829 Sina Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins that function as E3 ubiquitin ligases, acting either as single proteins or as a part of multiprotein complexes. Sina is expressed in many cells in the developing eye but is essential specifically for R7 photoreceptor cell development. Sina cooperates with Phyllopod (Phyl), Ebi and the E2 ubiquitin-conjugating enzyme Ubcd1 to catalyze the ubiquitination and subsequent degradation of Tramtrack (Ttk88); Ttk88 is a transcriptional repressor that blocks photoreceptor differentiation. Similarly, the mammalian homologue Siah1 cooperates with SIP (Siah-interacting protein), Ebi and the adaptor protein Skp1, to target beta-catenin for ubiquitination and degradation via a p53-dependent mechanism. SINAT5 targets NAC1 for ubiquitin-medi
Probab=100.00 E-value=3e-37 Score=247.10 Aligned_cols=125 Identities=31% Similarity=0.580 Sum_probs=118.5
Q ss_pred CcccceeEEEEEeccCCCcccccceEEEEEeecCceEEEEEeEEee-cceEEEEEEEEEeCCccccCCcEEEEEEeeCCc
Q 022025 171 DMHDGCTFNHRYVKSDPNEVENATWMLTVFNCFGRQFCLHFEAFQL-GMALVYMAFLRFMGDDDEAKKFSYSLEVGAHGR 249 (304)
Q Consensus 171 ~~~~g~~~~~~f~~s~~~~~~~~~~~l~v~~~~g~~F~l~~~~~~~-g~~~~~~a~v~~iG~~~~a~~F~Y~l~~~~~~r 249 (304)
++++|+ +++|+++|+++++ +.|++++++|||++|+|+++++++ +.+++|||++++||+..+|.+|+|.|++.+++|
T Consensus 2 ~~~~G~--di~fl~t~~~~~~-a~~w~mv~sCfG~~F~L~~Ek~~l~~~~~~y~A~~~~iG~~~eA~nf~Y~Lel~~n~R 78 (127)
T cd03829 2 TTLQGE--DIVFLATDINLPG-ATDWVMMQSCFGHHFMLVLEKQELYEGHQQFFAFVQLIGTEKQAENFTYRLELNGNRR 78 (127)
T ss_pred ccccCc--cEEEEecCCCCcc-ceeeeehhhhcCceEEEEEehhhhcCCcHHHHHHHHHHcCHhHHhcceEEEEEcCCCc
Confidence 466788 7799999999887 667778999999999999999999 778999999999999999999999999999999
Q ss_pred eEEEEeeeeeeeccccccccCCCeEEEeCCcceeeecCCeeeEEEEEEE
Q 022025 250 RLIWQGIPRSIRDSHRKVRDSQDGLIIQRNMALYFSGGDRTELKLRITG 298 (304)
Q Consensus 250 ~L~~~s~~~si~~~~~~~~~~~d~L~ip~~~~~~f~~~~~~~l~l~I~~ 298 (304)
||+||++|+||||++.+++++.|||+|..++|+||++||+++|+|+|||
T Consensus 79 kL~we~~PRSIrds~~~~~~~~D~Lii~~~~A~~Fs~~g~l~l~v~It~ 127 (127)
T cd03829 79 RLTWEATPRSIREGHASVIDNSDCLVFDTSIAQLFSENGNLGINVTISG 127 (127)
T ss_pred EEEeecCCccHHHhhHHHhhcCcceEEechHhhhccCCCccEEEEEecC
Confidence 9999999999999999999999999999999999999999999999986
No 4
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=99.31 E-value=2.6e-12 Score=124.98 Aligned_cols=116 Identities=29% Similarity=0.636 Sum_probs=102.1
Q ss_pred CCCCeeeecccccccccccc--cccccCeecccCcccc---cCCCCCCccCCCCc----cchHHHHHhhhccccCCCCCC
Q 022025 49 GVHELLECPVCTNLMYPPIH--QCPNGHTLCSNCKNRV---HNCCPTCRFDLGNI----RCLALEKVAESLELPCKYQSL 119 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~~Pi~--qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~~----r~~~le~~l~~l~v~C~~~~~ 119 (304)
.+++++.|++|..++.+|+. +| ||.||..|+.+. ...||.|+..+... ...++.+.+.++.+.|.+...
T Consensus 17 ~~~~~l~C~~C~~vl~~p~~~~~c--gh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~ 94 (391)
T KOG0297|consen 17 PLDENLLCPICMSVLRDPVQTTTC--GHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASR 94 (391)
T ss_pred CCcccccCccccccccCCCCCCCC--CCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccccccCCC
Confidence 38889999999999999974 56 999999999876 36899998887542 246788999999999999999
Q ss_pred CCccccCccchhccccccCcccccCCCCCCCCccccChhhHHHHhhhhCCCC
Q 022025 120 GCHDIFPYYGKLKHEQHCRFRPYNCPYAGSECSVTGDIPTLVAHLKDDHQVD 171 (304)
Q Consensus 120 GC~~~~~~~~~~~He~~C~~~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~ 171 (304)
||.|.+.+..++.|+..| .+..||+. |+..+.++++..|++......
T Consensus 95 GC~~~~~l~~~~~Hl~~c--~~~~C~~~---C~~~~~~~d~~~hl~~~C~~~ 141 (391)
T KOG0297|consen 95 GCRADLELEALQGHLSTC--DPLKCPHR---CGVQVPRDDLEDHLEAECPRR 141 (391)
T ss_pred CccccccHHHHHhHhccC--CcccCccc---cccccchHHHHHHHhcccccc
Confidence 999999999999999999 99999983 999999999999998776643
No 5
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.49 E-value=3e-08 Score=66.31 Aligned_cols=34 Identities=41% Similarity=1.266 Sum_probs=25.5
Q ss_pred eccccccccccc-ccccccCeecccCccccc-------CCCCCC
Q 022025 56 CPVCTNLMYPPI-HQCPNGHTLCSNCKNRVH-------NCCPTC 91 (304)
Q Consensus 56 CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~-------~~CP~C 91 (304)
||||+++|++|+ +.| ||+||..|+.++. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~C--GH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPC--GHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SS--SSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCC--cCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999999997 677 9999999998651 358876
No 6
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.48 E-value=5.6e-08 Score=94.29 Aligned_cols=71 Identities=27% Similarity=0.547 Sum_probs=54.2
Q ss_pred cccCCCCCcccccccCCCCeeeeccccccccccc-ccccccCeecccCcccc---cCCCCCCccCCCC---ccchHHHHH
Q 022025 34 TSFGLGGKQGIYSNNGVHELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV---HNCCPTCRFDLGN---IRCLALEKV 106 (304)
Q Consensus 34 ~~~~~~~~~~~~~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~ 106 (304)
+|.+|. ++.+..+.+.+.|+||.+++..|+ ..| ||.||..|+..+ ...||.|+..+.. .+|.+++++
T Consensus 11 Dw~~t~----~~~l~~Le~~l~C~IC~d~~~~PvitpC--gH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~i 84 (397)
T TIGR00599 11 DWLTTP----IPSLYPLDTSLRCHICKDFFDVPVLTSC--SHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEI 84 (397)
T ss_pred hhccCC----cccccccccccCCCcCchhhhCccCCCC--CCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHH
Confidence 476552 244578999999999999999997 456 999999999854 3579999998764 356777666
Q ss_pred hhhc
Q 022025 107 AESL 110 (304)
Q Consensus 107 l~~l 110 (304)
++.+
T Consensus 85 Ve~~ 88 (397)
T TIGR00599 85 VESF 88 (397)
T ss_pred HHHH
Confidence 6543
No 7
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.41 E-value=5.5e-08 Score=70.24 Aligned_cols=56 Identities=27% Similarity=0.654 Sum_probs=30.4
Q ss_pred CCCCeeeeccccccccccc--ccccccCeecccCcccc-cCCCCCCccCCCC---ccchHHHHH
Q 022025 49 GVHELLECPVCTNLMYPPI--HQCPNGHTLCSNCKNRV-HNCCPTCRFDLGN---IRCLALEKV 106 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~-~~~CP~Cr~~~~~---~r~~~le~~ 106 (304)
.+.+.|.|++|.++|+.|+ ..| .|+||+.|+..- ...||+|+.+... ..|+.++.+
T Consensus 3 ~le~lLrCs~C~~~l~~pv~l~~C--eH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqLd~~ 64 (65)
T PF14835_consen 3 RLEELLRCSICFDILKEPVCLGGC--EHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQLDSM 64 (65)
T ss_dssp HHHHTTS-SSS-S--SS-B---SS--S--B-TTTGGGGTTTB-SSS--B-S-SS----HHHHHH
T ss_pred HHHHhcCCcHHHHHhcCCceeccC--ccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhhhcc
Confidence 4567789999999999997 356 999999999864 4679999998532 346666554
No 8
>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=98.39 E-value=1.7e-07 Score=67.32 Aligned_cols=56 Identities=25% Similarity=0.404 Sum_probs=44.7
Q ss_pred eeeecccccccccccccccccCeecccCcccc---cCCCCCCccCCCC---ccchHHHHHhhh
Q 022025 53 LLECPVCTNLMYPPIHQCPNGHTLCSNCKNRV---HNCCPTCRFDLGN---IRCLALEKVAES 109 (304)
Q Consensus 53 ~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~l~~ 109 (304)
.|.||||.+++.+|+. -++||+||..|+.++ ...||.|+.++.. .++..+++.+++
T Consensus 1 ~~~Cpi~~~~~~~Pv~-~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~~ 62 (63)
T smart00504 1 EFLCPISLEVMKDPVI-LPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQE 62 (63)
T ss_pred CcCCcCCCCcCCCCEE-CCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHHh
Confidence 3679999999999973 234999999999865 4689999999853 567778777654
No 9
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.33 E-value=6.6e-08 Score=90.39 Aligned_cols=65 Identities=31% Similarity=0.670 Sum_probs=52.8
Q ss_pred cccccCCCCeeeeccccccccccc-ccccccCeecccCcccc---cCCCCCCccCCCC---ccchHHHHHhhhc
Q 022025 44 IYSNNGVHELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV---HNCCPTCRFDLGN---IRCLALEKVAESL 110 (304)
Q Consensus 44 ~~~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~---~r~~~le~~l~~l 110 (304)
++++..+++.|.|.||+++|..|+ ..| ||.||+-||.+. ...||.|+.++.. ..|+.++.++.++
T Consensus 14 ipslk~lD~lLRC~IC~eyf~ip~itpC--sHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 14 IPSLKTLDDLLRCGICFEYFNIPMITPC--SHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSL 85 (442)
T ss_pred CchhhhhHHHHHHhHHHHHhcCceeccc--cchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHH
Confidence 677788999999999999999996 566 999999999875 4789999998864 3455666666554
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.22 E-value=4.2e-07 Score=79.75 Aligned_cols=47 Identities=26% Similarity=0.754 Sum_probs=38.3
Q ss_pred CCCCeeeeccccccccccc-ccccccCeecccCcccc-------------------cCCCCCCccCCCC
Q 022025 49 GVHELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV-------------------HNCCPTCRFDLGN 97 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~-------------------~~~CP~Cr~~~~~ 97 (304)
++.+.+.|+||.+.+++|+ ..| ||.||..|+.++ ...||.||.++..
T Consensus 14 ~~~~~~~CpICld~~~dPVvT~C--GH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVTLC--GHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred cCCCccCCccCCCcCCCcEEcCC--CchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 4456789999999999997 456 999999999754 1479999998753
No 11
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.3e-06 Score=78.17 Aligned_cols=48 Identities=23% Similarity=0.631 Sum_probs=40.5
Q ss_pred CCCCeeeecccccccccccccccccCeecccCcccc------cCCCCCCccCCCC
Q 022025 49 GVHELLECPVCTNLMYPPIHQCPNGHTLCSNCKNRV------HNCCPTCRFDLGN 97 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~------~~~CP~Cr~~~~~ 97 (304)
.....|+|.||++..++||+.| |||+||=.|+.+| .+.||+|+..++.
T Consensus 43 ~~~~~FdCNICLd~akdPVvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCCceeeeeeccccCCCEEee-cccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 4567899999999999998543 3999999999987 3679999998764
No 12
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.2e-06 Score=75.47 Aligned_cols=46 Identities=30% Similarity=0.764 Sum_probs=35.7
Q ss_pred CCeeeeccccccccccc-ccccccCeecccCcccc---cCCCCCCccCCC
Q 022025 51 HELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV---HNCCPTCRFDLG 96 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 96 (304)
...+.||||++.+..-+ +.-.|||+||+.|+... ...||+|++.++
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 45589999999988443 32333999999999864 478999998765
No 13
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=98.10 E-value=7e-07 Score=63.77 Aligned_cols=54 Identities=26% Similarity=0.516 Sum_probs=38.8
Q ss_pred hhccccCCCCCCCCccccCccchhcccc-ccCcccccCCCCCCCCccccChhhHHHH
Q 022025 108 ESLELPCKYQSLGCHDIFPYYGKLKHEQ-HCRFRPYNCPYAGSECSVTGDIPTLVAH 163 (304)
Q Consensus 108 ~~l~v~C~~~~~GC~~~~~~~~~~~He~-~C~~~p~~CP~~g~~C~~~g~~~~L~~H 163 (304)
....+.|+|. ||...++..++.+|.+ +|+++++.||+...||++.+.+.+|..|
T Consensus 6 ~~~~v~C~~~--cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 6 PFRPVPCPNG--CCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp TTSEEE-TT----S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred CCCEeeCCCC--CcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence 3467899983 6677899999999998 9999999999977789999999999887
No 14
>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=98.08 E-value=8.6e-07 Score=58.08 Aligned_cols=36 Identities=33% Similarity=1.047 Sum_probs=27.2
Q ss_pred ecccccccccccccccccCeecccCcccc---cCCCCCC
Q 022025 56 CPVCTNLMYPPIHQCPNGHTLCSNCKNRV---HNCCPTC 91 (304)
Q Consensus 56 CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~---~~~CP~C 91 (304)
|+||.+.+.+|++.-++||+||..|+.++ ..+||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999999533333999999999865 4678876
No 15
>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=98.04 E-value=9.6e-07 Score=60.99 Aligned_cols=42 Identities=33% Similarity=0.860 Sum_probs=34.6
Q ss_pred eeeeccccccccccc-ccccccCe-ecccCcccc---cCCCCCCccCCC
Q 022025 53 LLECPVCTNLMYPPI-HQCPNGHT-LCSNCKNRV---HNCCPTCRFDLG 96 (304)
Q Consensus 53 ~l~CpIC~~~l~~Pi-~qC~~GH~-fC~~C~~~~---~~~CP~Cr~~~~ 96 (304)
+..|+||++...+++ +.| ||. ||..|..++ ...||.||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pC--gH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPC--GHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETT--CEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCC--CChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 467999999999886 567 999 999999976 478999999875
No 16
>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=97.95 E-value=2.9e-06 Score=63.44 Aligned_cols=60 Identities=28% Similarity=0.413 Sum_probs=43.4
Q ss_pred CCCeeeecccccccccccccccccCeecccCcccc----cCCCCCCccCCCC---ccchHHHHHhhhc
Q 022025 50 VHELLECPVCTNLMYPPIHQCPNGHTLCSNCKNRV----HNCCPTCRFDLGN---IRCLALEKVAESL 110 (304)
Q Consensus 50 l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~~---~r~~~le~~l~~l 110 (304)
+++.|.|||+.++|.+|+.. +.||+|++.++.++ ...||.++.++.. .+|.+|++.++++
T Consensus 1 iP~~f~CpIt~~lM~dPVi~-~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~ 67 (73)
T PF04564_consen 1 IPDEFLCPITGELMRDPVIL-PSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEW 67 (73)
T ss_dssp SSGGGB-TTTSSB-SSEEEE-TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHH
T ss_pred CCcccCCcCcCcHhhCceeC-CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHH
Confidence 35789999999999999732 34999999999876 3569999998865 5788888887765
No 17
>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=97.77 E-value=4.8e-06 Score=55.85 Aligned_cols=38 Identities=34% Similarity=0.885 Sum_probs=29.4
Q ss_pred eeccccccccc--ccccccccCeecccCcccc---cCCCCCCc
Q 022025 55 ECPVCTNLMYP--PIHQCPNGHTLCSNCKNRV---HNCCPTCR 92 (304)
Q Consensus 55 ~CpIC~~~l~~--Pi~qC~~GH~fC~~C~~~~---~~~CP~Cr 92 (304)
.|+||.+.+.+ .++..++||.||..|+.++ ..+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 59999999963 3444445999999999976 47899996
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.74 E-value=7.4e-06 Score=55.12 Aligned_cols=37 Identities=32% Similarity=0.936 Sum_probs=29.8
Q ss_pred eecccccccc---ccc-ccccccCeecccCccccc---CCCCCCcc
Q 022025 55 ECPVCTNLMY---PPI-HQCPNGHTLCSNCKNRVH---NCCPTCRF 93 (304)
Q Consensus 55 ~CpIC~~~l~---~Pi-~qC~~GH~fC~~C~~~~~---~~CP~Cr~ 93 (304)
+|++|++.+. .|. ..| ||+||..|+.+.. ..||.|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~C--gH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSC--GHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEccc--CCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4999999992 343 577 9999999999764 68999974
No 19
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.73 E-value=9.1e-06 Score=74.00 Aligned_cols=47 Identities=28% Similarity=0.632 Sum_probs=35.5
Q ss_pred CCeeeecccccccccc-c------ccccccCeecccCcccc---cCCCCCCccCCCC
Q 022025 51 HELLECPVCTNLMYPP-I------HQCPNGHTLCSNCKNRV---HNCCPTCRFDLGN 97 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~P-i------~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~ 97 (304)
.+...|+||.+.+.++ + ...+|||.||..|+.++ ...||.||.++..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 4457899999987653 1 12233999999999876 4789999998764
No 20
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.72 E-value=6.6e-06 Score=75.77 Aligned_cols=51 Identities=39% Similarity=0.820 Sum_probs=43.7
Q ss_pred cccccCCCCeeeeccccccccccc-ccccccCeecccCcccc---cCCCCCCccCCC
Q 022025 44 IYSNNGVHELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV---HNCCPTCRFDLG 96 (304)
Q Consensus 44 ~~~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 96 (304)
++.+..+...+.|-||.+.++.|+ ..| ||.||+-||.++ ...||.||.+..
T Consensus 16 IPSL~~LDs~lrC~IC~~~i~ip~~TtC--gHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 16 IPSLKGLDSMLRCRICDCRISIPCETTC--GHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred CcchhcchhHHHhhhhhheeecceeccc--ccchhHHHHHHHhcCCCCCccccccHH
Confidence 466678889999999999999996 567 999999999876 478999998754
No 21
>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=97.68 E-value=1.2e-05 Score=52.91 Aligned_cols=34 Identities=35% Similarity=1.105 Sum_probs=28.5
Q ss_pred eccccccccccc--ccccccCeecccCcccc-----cCCCCCC
Q 022025 56 CPVCTNLMYPPI--HQCPNGHTLCSNCKNRV-----HNCCPTC 91 (304)
Q Consensus 56 CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~-----~~~CP~C 91 (304)
|+||.+.+..|+ ..| ||.||..|+.++ ...||.|
T Consensus 1 C~iC~~~~~~~~~~~~C--~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPC--GHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTT--SEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecC--CCcchHHHHHHHHHhcCCccCCcC
Confidence 899999999997 467 999999999865 2568876
No 22
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=2.7e-05 Score=70.57 Aligned_cols=68 Identities=28% Similarity=0.566 Sum_probs=51.5
Q ss_pred cccCCCCeeeeccccccccccc-ccccccCeecccCccccc---CCCCCCccCCC-CccchHHHHHhhhccccCC
Q 022025 46 SNNGVHELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRVH---NCCPTCRFDLG-NIRCLALEKVAESLELPCK 115 (304)
Q Consensus 46 ~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~---~~CP~Cr~~~~-~~r~~~le~~l~~l~v~C~ 115 (304)
....+.+.+.|+||.+.+..|. ..| ||.||..|+.... ..||.||.... ..+|..+.+++..++....
T Consensus 6 ~~~~~~~~~~C~iC~~~~~~p~~l~C--~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~~~~~~~~ 78 (386)
T KOG2177|consen 6 LLEVLQEELTCPICLEYFREPVLLPC--GHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVERLRQLRL 78 (386)
T ss_pred hhhhccccccChhhHHHhhcCccccc--cchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHHHHHhcCC
Confidence 3456778999999999999994 568 9999999998764 68999995211 1356777777776665443
No 23
>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=97.36 E-value=5.5e-05 Score=49.50 Aligned_cols=40 Identities=38% Similarity=0.985 Sum_probs=30.4
Q ss_pred eecccccccccccccccccCeecccCcccc----cCCCCCCccC
Q 022025 55 ECPVCTNLMYPPIHQCPNGHTLCSNCKNRV----HNCCPTCRFD 94 (304)
Q Consensus 55 ~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~----~~~CP~Cr~~ 94 (304)
.|+||.+.+..++..-++||.||..|+.++ ...||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 499999999777522223999999999854 3579999875
No 24
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=5.3e-05 Score=69.96 Aligned_cols=45 Identities=27% Similarity=0.648 Sum_probs=37.8
Q ss_pred CCeeeeccccccccccc-ccccccCeecccCcccc---cCCCCCCccCCCC
Q 022025 51 HELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV---HNCCPTCRFDLGN 97 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~ 97 (304)
.....|.+|++...+|. ..| ||+||-+|+..+ ...||.||..+..
T Consensus 237 ~a~~kC~LCLe~~~~pSaTpC--GHiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSATPC--GHIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred CCCCceEEEecCCCCCCcCcC--cchHHHHHHHHHHccccCCCcccccCCC
Confidence 34578999999999995 566 999999999876 4679999998764
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.29 E-value=4.4e-05 Score=51.26 Aligned_cols=26 Identities=35% Similarity=1.242 Sum_probs=16.8
Q ss_pred eccccccccc----cc-ccccccCeecccCcccc
Q 022025 56 CPVCTNLMYP----PI-HQCPNGHTLCSNCKNRV 84 (304)
Q Consensus 56 CpIC~~~l~~----Pi-~qC~~GH~fC~~C~~~~ 84 (304)
||||.+ +.. |+ +.| ||+||..|+.++
T Consensus 1 CpIc~e-~~~~~n~P~~L~C--GH~~c~~cl~~l 31 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPC--GHVFCKDCLQKL 31 (43)
T ss_dssp -TTT-----TTSS-EEE-SS--S-EEEHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeC--ccHHHHHHHHHH
Confidence 899999 776 76 677 999999999876
No 26
>PHA02926 zinc finger-like protein; Provisional
Probab=97.23 E-value=5.5e-05 Score=67.60 Aligned_cols=47 Identities=34% Similarity=0.835 Sum_probs=35.3
Q ss_pred CCCCeeeeccccccccc---------ccc-cccccCeecccCccccc---------CCCCCCccCCCC
Q 022025 49 GVHELLECPVCTNLMYP---------PIH-QCPNGHTLCSNCKNRVH---------NCCPTCRFDLGN 97 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~~---------Pi~-qC~~GH~fC~~C~~~~~---------~~CP~Cr~~~~~ 97 (304)
...+..+|+||++.... +++ .| +|.||..|+.++. ..||.||..+..
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~C--nHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSC--NHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCC--CchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 34556889999998643 222 45 9999999999763 249999998764
No 27
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.08 E-value=0.00039 Score=70.48 Aligned_cols=107 Identities=19% Similarity=0.436 Sum_probs=64.9
Q ss_pred cCCCCeeeecccccccccccc-----cccccCeeccc--Ccccc-------cCCCCCCccCCCCccchHHHHHhh--hcc
Q 022025 48 NGVHELLECPVCTNLMYPPIH-----QCPNGHTLCSN--CKNRV-------HNCCPTCRFDLGNIRCLALEKVAE--SLE 111 (304)
Q Consensus 48 ~~l~~~l~CpIC~~~l~~Pi~-----qC~~GH~fC~~--C~~~~-------~~~CP~Cr~~~~~~r~~~le~~l~--~l~ 111 (304)
+...+...|+.|......--+ .|..--+.|.. |.... ...|+.|...+.. ..+++-.. ..+
T Consensus 402 s~~~~~V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~---s~LekH~~~~Hkp 478 (567)
T PLN03086 402 SMDVDTVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQ---GEMEKHMKVFHEP 478 (567)
T ss_pred cCCCCeEECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccch---HHHHHHHHhcCCC
Confidence 344566789999987664321 46554455553 54432 2468888776642 12222221 355
Q ss_pred ccCCCCCCCCccccCccchhcccc-ccCcccccCCCCCCCCccccC-----------hhhHHHHhhh
Q 022025 112 LPCKYQSLGCHDIFPYYGKLKHEQ-HCRFRPYNCPYAGSECSVTGD-----------IPTLVAHLKD 166 (304)
Q Consensus 112 v~C~~~~~GC~~~~~~~~~~~He~-~C~~~p~~CP~~g~~C~~~g~-----------~~~L~~Hl~~ 166 (304)
+.|+ |+..+...++..|.. .|+.+++.|++ |+.... ...|..|...
T Consensus 479 v~Cp-----Cg~~~~R~~L~~H~~thCp~Kpi~C~f----C~~~v~~g~~~~d~~d~~s~Lt~HE~~ 536 (567)
T PLN03086 479 LQCP-----CGVVLEKEQMVQHQASTCPLRLITCRF----CGDMVQAGGSAMDVRDRLRGMSEHESI 536 (567)
T ss_pred ccCC-----CCCCcchhHHHhhhhccCCCCceeCCC----CCCccccCccccchhhhhhhHHHHHHh
Confidence 6775 766777777788864 68888888886 766553 2367777665
No 28
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.07 E-value=0.00029 Score=66.26 Aligned_cols=43 Identities=33% Similarity=0.771 Sum_probs=31.9
Q ss_pred eeeeccccc--cccccc---ccccccCeecccCcccc----cCCCCCCccCCC
Q 022025 53 LLECPVCTN--LMYPPI---HQCPNGHTLCSNCKNRV----HNCCPTCRFDLG 96 (304)
Q Consensus 53 ~l~CpIC~~--~l~~Pi---~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~ 96 (304)
...||+|.. ++.+-. +. +|||.||.+|+..+ ...||.|+.++.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr 54 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLR 54 (309)
T ss_pred CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence 357999999 444432 22 34999999999874 357999998764
No 29
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.01 E-value=0.00011 Score=75.64 Aligned_cols=49 Identities=31% Similarity=0.803 Sum_probs=41.5
Q ss_pred ccCCCCeeeeccccccccccc-ccccccCeecccCcccc----cCCCCCCccCCCC
Q 022025 47 NNGVHELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV----HNCCPTCRFDLGN 97 (304)
Q Consensus 47 ~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~~ 97 (304)
+....+.|.||+|..=.++.| ..| ||.||..|+.+. ..+||.|..+|+.
T Consensus 637 lk~yK~~LkCs~Cn~R~Kd~vI~kC--~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 637 LKEYKELLKCSVCNTRWKDAVITKC--GHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred HHHHHhceeCCCccCchhhHHHHhc--chHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 345689999999998888875 578 999999999864 4789999999875
No 30
>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=97.00 E-value=0.00075 Score=57.39 Aligned_cols=26 Identities=27% Similarity=0.640 Sum_probs=22.1
Q ss_pred cCCCCCCCCccccChhhHHHHhhhhCCC
Q 022025 143 NCPYAGSECSVTGDIPTLVAHLKDDHQV 170 (304)
Q Consensus 143 ~CP~~g~~C~~~g~~~~L~~Hl~~~H~~ 170 (304)
.|+.. +|.|.|.+.+|.+|.+.+|..
T Consensus 109 sC~~e--~C~F~GtY~eLrKHar~~HP~ 134 (162)
T PF07800_consen 109 SCSQE--SCSFSGTYSELRKHARSEHPS 134 (162)
T ss_pred cCccc--ccccccCHHHHHHHHHhhCCC
Confidence 45553 599999999999999999984
No 31
>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=96.97 E-value=0.0002 Score=45.10 Aligned_cols=34 Identities=41% Similarity=1.216 Sum_probs=27.3
Q ss_pred eccccccccccc-ccccccCeecccCcccc----cCCCCCC
Q 022025 56 CPVCTNLMYPPI-HQCPNGHTLCSNCKNRV----HNCCPTC 91 (304)
Q Consensus 56 CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~----~~~CP~C 91 (304)
|+||.+....++ ..| ||.||..|+.++ ...||.|
T Consensus 1 C~iC~~~~~~~~~~~C--~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPC--GHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecC--CChHHHHHHHHHHHhCcCCCCCC
Confidence 789999987775 566 999999999854 3568876
No 32
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=4.9e-05 Score=71.88 Aligned_cols=51 Identities=29% Similarity=0.662 Sum_probs=42.0
Q ss_pred cccCCCCeeeecccccccccccc--cccccCeecccCcccc----cCCCCCCccCCCCc
Q 022025 46 SNNGVHELLECPVCTNLMYPPIH--QCPNGHTLCSNCKNRV----HNCCPTCRFDLGNI 98 (304)
Q Consensus 46 ~~~~l~~~l~CpIC~~~l~~Pi~--qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~~~ 98 (304)
-+..+...+.||||+++++..+. .| +|.||..|+-+. .+.||+||+.+...
T Consensus 36 ~l~~~~~~v~c~icl~llk~tmttkeC--lhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 36 DLAMFDIQVICPICLSLLKKTMTTKEC--LHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred cHHHhhhhhccHHHHHHHHhhcccHHH--HHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 34567888999999999997763 56 999999999864 48999999988653
No 33
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.84 E-value=0.0003 Score=69.61 Aligned_cols=43 Identities=30% Similarity=0.834 Sum_probs=35.3
Q ss_pred eeeeccccccccccc-ccccccCeecccCcccc--------cCCCCCCccCCCC
Q 022025 53 LLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV--------HNCCPTCRFDLGN 97 (304)
Q Consensus 53 ~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~--------~~~CP~Cr~~~~~ 97 (304)
...||||++...-|. ..| ||+||-.|+-.. -..||.|+..+..
T Consensus 186 ~~~CPICL~~~~~p~~t~C--GHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNC--GHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCccccccc--CceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 678999999988775 556 999999998753 2689999998764
No 34
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.68 E-value=0.00058 Score=62.47 Aligned_cols=44 Identities=27% Similarity=0.575 Sum_probs=36.4
Q ss_pred CCeeeeccccccccccc-ccccccCeecccCccc-c----cCCCCCCccCCC
Q 022025 51 HELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNR-V----HNCCPTCRFDLG 96 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~-~----~~~CP~Cr~~~~ 96 (304)
..++.|++|.+....|. ..| ||+||-.|+-. + ...||.||....
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~C--gHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPC--GHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccccceeeeecccCCcccccc--cchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 56789999999999996 466 99999999876 3 256999998653
No 35
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.04 E-value=0.0016 Score=61.42 Aligned_cols=49 Identities=22% Similarity=0.665 Sum_probs=41.1
Q ss_pred ccCCCCeeeeccccccccccc--ccccccCeecccCcccc---cCCCCCCccCCCC
Q 022025 47 NNGVHELLECPVCTNLMYPPI--HQCPNGHTLCSNCKNRV---HNCCPTCRFDLGN 97 (304)
Q Consensus 47 ~~~l~~~l~CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~ 97 (304)
..++.....|.+|..+|.++. ..| =|+||++|+-+. .+.||.|...+..
T Consensus 9 ~~~~n~~itC~LC~GYliDATTI~eC--LHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 9 LTELNPHITCRLCGGYLIDATTITEC--LHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred hhhcccceehhhccceeecchhHHHH--HHHHHHHHHHHHHHHhccCCccceeccC
Confidence 456778889999999999995 467 899999999865 4899999987753
No 36
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.87 E-value=0.006 Score=56.22 Aligned_cols=44 Identities=32% Similarity=0.670 Sum_probs=35.0
Q ss_pred CCeeeeccccccccccc-cc-ccccCeecccCcccc-----cCCCCCCccCCC
Q 022025 51 HELLECPVCTNLMYPPI-HQ-CPNGHTLCSNCKNRV-----HNCCPTCRFDLG 96 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi-~q-C~~GH~fC~~C~~~~-----~~~CP~Cr~~~~ 96 (304)
...-+||+|.+....|. .+ | ||++|-.|+... .-.||.|..+..
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C--~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKC--GHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeeccc--cceeehhhhhhhhcchhhcccCccCCCCc
Confidence 34568999999999994 45 6 999999999864 248999987643
No 37
>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=95.82 E-value=0.0029 Score=47.20 Aligned_cols=37 Identities=35% Similarity=0.967 Sum_probs=27.4
Q ss_pred eccccccccccccc-------c-----cccCeecccCcccc---cCCCCCCc
Q 022025 56 CPVCTNLMYPPIHQ-------C-----PNGHTLCSNCKNRV---HNCCPTCR 92 (304)
Q Consensus 56 CpIC~~~l~~Pi~q-------C-----~~GH~fC~~C~~~~---~~~CP~Cr 92 (304)
|+||++.|.+|... | .|||.|-..|+.++ ...||.||
T Consensus 22 C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 22 CAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp ETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred ccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 99999999544211 1 24999999999976 47899997
No 38
>PLN03086 PRLI-interacting factor K; Provisional
Probab=95.66 E-value=0.029 Score=57.12 Aligned_cols=43 Identities=26% Similarity=0.465 Sum_probs=22.7
Q ss_pred CccccCccchhccccccCcccccCCCCCCCCccccChhhHHHHhhhhCC
Q 022025 121 CHDIFPYYGKLKHEQHCRFRPYNCPYAGSECSVTGDIPTLVAHLKDDHQ 169 (304)
Q Consensus 121 C~~~~~~~~~~~He~~C~~~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~ 169 (304)
|+..++..+++.|++.| +.++.|| |+....+.+|..|+...++
T Consensus 459 Cgk~f~~s~LekH~~~~-Hkpv~Cp-----Cg~~~~R~~L~~H~~thCp 501 (567)
T PLN03086 459 CGQAFQQGEMEKHMKVF-HEPLQCP-----CGVVLEKEQMVQHQASTCP 501 (567)
T ss_pred CCCccchHHHHHHHHhc-CCCccCC-----CCCCcchhHHHhhhhccCC
Confidence 55555555555565555 4555555 4444445555555544333
No 39
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.64 E-value=0.0043 Score=57.75 Aligned_cols=40 Identities=38% Similarity=1.017 Sum_probs=33.7
Q ss_pred eeecccccccccccc-cccccCeecccCcccc----cCCCCCCccC
Q 022025 54 LECPVCTNLMYPPIH-QCPNGHTLCSNCKNRV----HNCCPTCRFD 94 (304)
Q Consensus 54 l~CpIC~~~l~~Pi~-qC~~GH~fC~~C~~~~----~~~CP~Cr~~ 94 (304)
|.||.|..+++.|+- .| |||.||..|+... ...||.|...
T Consensus 275 LkCplc~~Llrnp~kT~c-C~~~fc~eci~~al~dsDf~CpnC~rk 319 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPC-CGHTFCDECIGTALLDSDFKCPNCSRK 319 (427)
T ss_pred ccCcchhhhhhCcccCcc-ccchHHHHHHhhhhhhccccCCCcccc
Confidence 899999999999973 34 5999999999853 3689999773
No 40
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.51 E-value=0.0016 Score=45.61 Aligned_cols=41 Identities=37% Similarity=0.981 Sum_probs=33.0
Q ss_pred eeeccccccccccc-ccccccCe-ecccCcccc----cCCCCCCccCCC
Q 022025 54 LECPVCTNLMYPPI-HQCPNGHT-LCSNCKNRV----HNCCPTCRFDLG 96 (304)
Q Consensus 54 l~CpIC~~~l~~Pi-~qC~~GH~-fC~~C~~~~----~~~CP~Cr~~~~ 96 (304)
-+|-||.+-..+-| |.| ||. .|-.|-.++ ...||.||.++.
T Consensus 8 dECTICye~pvdsVlYtC--GHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTC--GHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHc--chHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 37999999888776 789 995 888897654 478999998864
No 41
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.46 E-value=0.01 Score=55.23 Aligned_cols=45 Identities=24% Similarity=0.702 Sum_probs=37.0
Q ss_pred eeeccccccccccc-ccccccCeecccCcccc---cCCCCCCccCCCCccc
Q 022025 54 LECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV---HNCCPTCRFDLGNIRC 100 (304)
Q Consensus 54 l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~~r~ 100 (304)
+.|-||..++..|| ..| ||.||..|..+. ...|.+|.+.+...-|
T Consensus 242 f~c~icr~~f~~pVvt~c--~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~ 290 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVTKC--GHYFCEVCALKPYQKGEKCYVCSQQTHGSFN 290 (313)
T ss_pred ccccccccccccchhhcC--CceeehhhhccccccCCcceecccccccccc
Confidence 57999999999997 577 999999998754 3689999998755433
No 42
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.46 E-value=0.0049 Score=54.31 Aligned_cols=55 Identities=25% Similarity=0.554 Sum_probs=40.3
Q ss_pred eeeeccccccccccc-ccccccCeecccCcccc---cCCCCCCccCCCC--ccchHHHHHhhh
Q 022025 53 LLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV---HNCCPTCRFDLGN--IRCLALEKVAES 109 (304)
Q Consensus 53 ~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~--~r~~~le~~l~~ 109 (304)
-|.|-||.+-+..|| ..| ||.||+.|..+. ...|-+|...... .-...+++++..
T Consensus 196 PF~C~iCKkdy~spvvt~C--GH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~kmL~~ 256 (259)
T COG5152 196 PFLCGICKKDYESPVVTEC--GHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQKMLNK 256 (259)
T ss_pred ceeehhchhhccchhhhhc--chhHHHHHHHHHhccCCcceecchhhccceeHHhhHHHHHhh
Confidence 378999999999997 567 999999998743 4789999876432 223445665543
No 43
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.42 E-value=0.0069 Score=42.88 Aligned_cols=37 Identities=32% Similarity=0.638 Sum_probs=29.0
Q ss_pred cccccCcccccCCCCCCCCccccChhhHHHHhhhhCCCC
Q 022025 133 HEQHCRFRPYNCPYAGSECSVTGDIPTLVAHLKDDHQVD 171 (304)
Q Consensus 133 He~~C~~~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~ 171 (304)
|+++|+++++.||+.+ |.....+.+|..|+.......
T Consensus 1 H~~~C~~~~v~C~~~c--c~~~i~r~~l~~H~~~~C~~~ 37 (60)
T PF02176_consen 1 HEEECPFRPVPCPNGC--CNEMIPRKELDDHLENECPKR 37 (60)
T ss_dssp HHTTSTTSEEE-TT----S-BEEECCCHHHHHHTTSTTS
T ss_pred CcccCCCCEeeCCCCC--cccceeHHHHHHHHHccCCCC
Confidence 7889999999999843 666688999999999887754
No 44
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.40 E-value=0.0035 Score=61.23 Aligned_cols=48 Identities=38% Similarity=0.943 Sum_probs=39.9
Q ss_pred CCCCeeeecccccccccccccccccCeecccCcccc---cCCCCCCccCCCC
Q 022025 49 GVHELLECPVCTNLMYPPIHQCPNGHTLCSNCKNRV---HNCCPTCRFDLGN 97 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~ 97 (304)
.+...|.|.||...|.+|+.. ++||.+|..|+.+. ...||.||..+..
T Consensus 80 ~~~sef~c~vc~~~l~~pv~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 80 EIRSEFECCVCSRALYPPVVT-PCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cccchhhhhhhHhhcCCCccc-cccccccHHHHHHHhccCCCCccccccccc
Confidence 448889999999999999843 55999999997764 3789999998763
No 45
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.02 E-value=0.0068 Score=41.58 Aligned_cols=40 Identities=28% Similarity=0.786 Sum_probs=20.1
Q ss_pred ecccccccc--cc-cccccccCeecccCcccc----cCCCCCCccCC
Q 022025 56 CPVCTNLMY--PP-IHQCPNGHTLCSNCKNRV----HNCCPTCRFDL 95 (304)
Q Consensus 56 CpIC~~~l~--~P-i~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~ 95 (304)
||+|.+.+. +- ++.|++|..+|..|..+. ...||.||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999883 21 368999999999997654 47899999864
No 46
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.39 E-value=0.018 Score=53.83 Aligned_cols=41 Identities=32% Similarity=0.776 Sum_probs=35.0
Q ss_pred eeccccccccccc-ccccccCeecccCcccc----cCCCCCCccCCCC
Q 022025 55 ECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV----HNCCPTCRFDLGN 97 (304)
Q Consensus 55 ~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~~ 97 (304)
+|+||+.-..-|+ +.| +|.||--|++-. ...|++||.++..
T Consensus 9 eC~IC~nt~n~Pv~l~C--~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 9 ECLICYNTGNCPVNLYC--FHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred cceeeeccCCcCccccc--cchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 6999999999886 678 999999999853 2569999999864
No 47
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.77 E-value=0.016 Score=55.01 Aligned_cols=48 Identities=31% Similarity=0.762 Sum_probs=38.1
Q ss_pred cCCCCeeeecccccccccc---cccccccCeecccCcccc----cCCCCCCccCCC
Q 022025 48 NGVHELLECPVCTNLMYPP---IHQCPNGHTLCSNCKNRV----HNCCPTCRFDLG 96 (304)
Q Consensus 48 ~~l~~~l~CpIC~~~l~~P---i~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~ 96 (304)
++..+++ ||.|.+.+..- .+.|+||-.+|.-|+..+ ..+||.||....
T Consensus 10 sedeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 10 SEDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred ccccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 4555666 99999998633 368999999999998754 579999998764
No 48
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.55 E-value=0.064 Score=37.75 Aligned_cols=43 Identities=28% Similarity=0.610 Sum_probs=32.2
Q ss_pred Ceeeecccccccc-cccccccccCeecccCcccc-cCCCCCCccCCC
Q 022025 52 ELLECPVCTNLMY-PPIHQCPNGHTLCSNCKNRV-HNCCPTCRFDLG 96 (304)
Q Consensus 52 ~~l~CpIC~~~l~-~Pi~qC~~GH~fC~~C~~~~-~~~CP~Cr~~~~ 96 (304)
....|-.|...-. .++.+| ||.+|..|..-. .+-||.|..++.
T Consensus 6 ~~~~~~~~~~~~~~~~~~pC--gH~I~~~~f~~~rYngCPfC~~~~~ 50 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPC--GHLICDNCFPGERYNGCPFCGTPFE 50 (55)
T ss_pred cceeEEEccccccccccccc--cceeeccccChhhccCCCCCCCccc
Confidence 3445667777644 455788 999999999743 378999999875
No 49
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.53 E-value=0.017 Score=58.89 Aligned_cols=43 Identities=30% Similarity=0.649 Sum_probs=35.9
Q ss_pred CCeeeeccccccccc-----c-cccccccCeecccCcccc---cCCCCCCccCC
Q 022025 51 HELLECPVCTNLMYP-----P-IHQCPNGHTLCSNCKNRV---HNCCPTCRFDL 95 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~-----P-i~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~ 95 (304)
.....|+||.+.|.. | .+.| ||+|+..|+.++ .+.||.||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C--~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPC--GHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceeec--ccchHHHHHHHHHHHhCcCCcchhhh
Confidence 345689999999986 4 4788 999999999977 58999999943
No 50
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.92 E-value=0.051 Score=51.92 Aligned_cols=44 Identities=32% Similarity=0.742 Sum_probs=36.2
Q ss_pred CCeeeeccccccccccc-ccccccCe-ecccCcccc---cCCCCCCccCCC
Q 022025 51 HELLECPVCTNLMYPPI-HQCPNGHT-LCSNCKNRV---HNCCPTCRFDLG 96 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi-~qC~~GH~-fC~~C~~~~---~~~CP~Cr~~~~ 96 (304)
.+.-+|-||..-.++-+ +.| -|. .|+.|.+.+ .+.||.||+++.
T Consensus 288 ~~gkeCVIClse~rdt~vLPC--RHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPC--RHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcceEEecc--hhhehhHhHHHHHHHhhcCCCccccchH
Confidence 44568999999999874 688 885 999999865 378999999875
No 51
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.67 E-value=0.023 Score=52.89 Aligned_cols=43 Identities=30% Similarity=0.794 Sum_probs=34.9
Q ss_pred CCCeeeeccccccccccc-ccccccC-eecccCcccccCCCCCCccCC
Q 022025 50 VHELLECPVCTNLMYPPI-HQCPNGH-TLCSNCKNRVHNCCPTCRFDL 95 (304)
Q Consensus 50 l~~~l~CpIC~~~l~~Pi-~qC~~GH-~fC~~C~~~~~~~CP~Cr~~~ 95 (304)
+.....|.||.+...+-+ +.| || ..|-.|-.+. +.||+||+.+
T Consensus 297 ~~~~~LC~ICmDaP~DCvfLeC--GHmVtCt~CGkrm-~eCPICRqyi 341 (350)
T KOG4275|consen 297 LATRRLCAICMDAPRDCVFLEC--GHMVTCTKCGKRM-NECPICRQYI 341 (350)
T ss_pred hhHHHHHHHHhcCCcceEEeec--CcEEeehhhcccc-ccCchHHHHH
Confidence 333667999999999887 578 99 5799998876 7999998854
No 52
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=91.93 E-value=0.051 Score=41.79 Aligned_cols=41 Identities=24% Similarity=0.479 Sum_probs=27.1
Q ss_pred eccccccccc-ccccccccCeecccCcccc------cCCCCCCccCCC
Q 022025 56 CPVCTNLMYP-PIHQCPNGHTLCSNCKNRV------HNCCPTCRFDLG 96 (304)
Q Consensus 56 CpIC~~~l~~-Pi~qC~~GH~fC~~C~~~~------~~~CP~Cr~~~~ 96 (304)
||.|..+-.+ |+.-..|+|.|=..|+.++ ...||.||+++.
T Consensus 35 Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 35 CPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 4444444332 4433345999999999875 368999999764
No 53
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=91.87 E-value=0.049 Score=54.51 Aligned_cols=51 Identities=24% Similarity=0.570 Sum_probs=41.3
Q ss_pred cccccCCCCeeeeccccccccccc-ccccccCeecccCcccc--------cCCCCCCccCCC
Q 022025 44 IYSNNGVHELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV--------HNCCPTCRFDLG 96 (304)
Q Consensus 44 ~~~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~--------~~~CP~Cr~~~~ 96 (304)
..+..+......|.+|.++-.++| ..| .|.||+-|+... ...||+|...+.
T Consensus 527 ~n~~~enk~~~~C~lc~d~aed~i~s~C--hH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 527 ANLPDENKGEVECGLCHDPAEDYIESSC--HHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred cCCCccccCceeecccCChhhhhHhhhh--hHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 345566778889999999999997 567 999999999643 368999988764
No 54
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=91.30 E-value=0.048 Score=38.76 Aligned_cols=34 Identities=21% Similarity=0.338 Sum_probs=21.7
Q ss_pred CCeeeecccccccccccccccccCeecccCcccc
Q 022025 51 HELLECPVCTNLMYPPIHQCPNGHTLCSNCKNRV 84 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~ 84 (304)
.-.+.|||...+|.+|+..=.|||+|.+..+..+
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~ 42 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQY 42 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHH
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHH
Confidence 4457899999999999843233999998888765
No 55
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=90.61 E-value=0.15 Score=46.43 Aligned_cols=44 Identities=20% Similarity=0.613 Sum_probs=31.4
Q ss_pred eeeecccccccc-cccccccccCeecccCcccccC-CCCCCccCCC
Q 022025 53 LLECPVCTNLMY-PPIHQCPNGHTLCSNCKNRVHN-CCPTCRFDLG 96 (304)
Q Consensus 53 ~l~CpIC~~~l~-~Pi~qC~~GH~fC~~C~~~~~~-~CP~Cr~~~~ 96 (304)
-..|..|+.--. +|.+--.|+|+||..|...... .||.|+.++.
T Consensus 3 ~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 3 FVHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPDVCPLCKKSIR 48 (233)
T ss_pred eEEeccccccCCCCceeeeechhhhhhhhcccCCccccccccceee
Confidence 357888876544 4533333399999999976544 9999999863
No 56
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=89.18 E-value=0.1 Score=51.17 Aligned_cols=30 Identities=43% Similarity=1.048 Sum_probs=26.9
Q ss_pred CCeeeeccccccccccc-ccccccCeecccCcc
Q 022025 51 HELLECPVCTNLMYPPI-HQCPNGHTLCSNCKN 82 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~ 82 (304)
.+.|.||||...+++|| +.| ||..|..|..
T Consensus 2 eeelkc~vc~~f~~epiil~c--~h~lc~~ca~ 32 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPC--SHNLCQACAR 32 (699)
T ss_pred cccccCceehhhccCceEeec--ccHHHHHHHH
Confidence 57899999999999997 788 9999999964
No 57
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=88.84 E-value=0.3 Score=34.00 Aligned_cols=49 Identities=27% Similarity=0.565 Sum_probs=30.4
Q ss_pred ccCCCCCCCCccccCccchhccccc--c-CcccccCCCCCCCCccccChhhHHHHhhhhCC
Q 022025 112 LPCKYQSLGCHDIFPYYGKLKHEQH--C-RFRPYNCPYAGSECSVTGDIPTLVAHLKDDHQ 169 (304)
Q Consensus 112 v~C~~~~~GC~~~~~~~~~~~He~~--C-~~~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~ 169 (304)
+.||| |.+.+....+..|..+ . .-..+.||. |.... ..+|..|+...|.
T Consensus 3 f~CP~----C~~~~~~~~L~~H~~~~H~~~~~~v~CPi----C~~~~-~~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 3 FTCPY----CGKGFSESSLVEHCEDEHRSESKNVVCPI----CSSRV-TDNLIRHLNSQHR 54 (54)
T ss_pred cCCCC----CCCccCHHHHHHHHHhHCcCCCCCccCCC----chhhh-hhHHHHHHHHhcC
Confidence 56776 6665566666655332 1 123578887 66543 3588889888874
No 58
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.83 E-value=0.18 Score=47.32 Aligned_cols=43 Identities=26% Similarity=0.700 Sum_probs=34.3
Q ss_pred Ceeeecccccccc--ccc--ccccccCeecccCcccc----cCCCCCCccCCC
Q 022025 52 ELLECPVCTNLMY--PPI--HQCPNGHTLCSNCKNRV----HNCCPTCRFDLG 96 (304)
Q Consensus 52 ~~l~CpIC~~~l~--~Pi--~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~ 96 (304)
.-.+|.||..-+. +.+ +.| .|.|=..|+.++ ..+||+||.++.
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC--~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPC--DHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEecc--CceechhHHHHHHhhhcccCCccCCCCC
Confidence 3378999999875 333 456 999999999987 479999999875
No 59
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=88.79 E-value=0.16 Score=42.14 Aligned_cols=45 Identities=24% Similarity=0.743 Sum_probs=36.0
Q ss_pred Ceeeecccccccccccc----cccccCeecccCcccc------cCCCCCCccCCCC
Q 022025 52 ELLECPVCTNLMYPPIH----QCPNGHTLCSNCKNRV------HNCCPTCRFDLGN 97 (304)
Q Consensus 52 ~~l~CpIC~~~l~~Pi~----qC~~GH~fC~~C~~~~------~~~CP~Cr~~~~~ 97 (304)
..++|.||.+.-.+.-+ .| ||-.+|..|...+ ...||.|+..+..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneC-CgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNEC-CGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccc-cchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 78999999999776643 34 4999999998754 4789999998764
No 60
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=88.76 E-value=0.1 Score=50.68 Aligned_cols=41 Identities=32% Similarity=0.815 Sum_probs=33.1
Q ss_pred eecccccccccc-cccccccCeecccCcccc-----cCCCCCCccCCCC
Q 022025 55 ECPVCTNLMYPP-IHQCPNGHTLCSNCKNRV-----HNCCPTCRFDLGN 97 (304)
Q Consensus 55 ~CpIC~~~l~~P-i~qC~~GH~fC~~C~~~~-----~~~CP~Cr~~~~~ 97 (304)
.|-||-+-=++- |-.| ||+.|..|+..+ .+.||.||..|..
T Consensus 371 LCKICaendKdvkIEPC--GHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPC--GHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHhhccCCCcccccc--cchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 499999987764 3457 999999999876 3689999998753
No 61
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.24 E-value=0.082 Score=54.03 Aligned_cols=39 Identities=41% Similarity=0.963 Sum_probs=31.1
Q ss_pred CCCCeeeecccccccc----ccc-ccccccCeecccCcccc-cCCCC
Q 022025 49 GVHELLECPVCTNLMY----PPI-HQCPNGHTLCSNCKNRV-HNCCP 89 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~----~Pi-~qC~~GH~fC~~C~~~~-~~~CP 89 (304)
...+.|.|+||+..+. .|+ ++| ||+.|+.|.+++ ...||
T Consensus 7 ~w~~~l~c~ic~n~f~~~~~~Pvsl~c--ghtic~~c~~~lyn~scp 51 (861)
T KOG3161|consen 7 KWVLLLLCDICLNLFVVQRLEPVSLQC--GHTICGHCVQLLYNASCP 51 (861)
T ss_pred hhHHHhhchHHHHHHHHHhcCcccccc--cchHHHHHHHhHhhccCC
Confidence 4557789999976654 566 689 999999999976 46788
No 62
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.42 E-value=0.24 Score=47.53 Aligned_cols=45 Identities=27% Similarity=0.628 Sum_probs=32.6
Q ss_pred CCCCeeeeccccccccccc-ccccccCeecc-cCcccccCCCCCCccCCC
Q 022025 49 GVHELLECPVCTNLMYPPI-HQCPNGHTLCS-NCKNRVHNCCPTCRFDLG 96 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~-~C~~~~~~~CP~Cr~~~~ 96 (304)
+++....|.||.+-.++.+ +.| ||.-|. .|. +...+||+||+.|.
T Consensus 301 ~~~~p~lcVVcl~e~~~~~fvpc--Gh~ccct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVFVPC--GHVCCCTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCccceeeecC--CcEEEchHHH-hhCCCCchhHHHHH
Confidence 4555567999999999876 477 998662 233 33477999998764
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=86.37 E-value=0.16 Score=48.50 Aligned_cols=45 Identities=29% Similarity=0.781 Sum_probs=36.0
Q ss_pred CCCCeeeecccccccc-cccccccccCeecccCcccc-----cCCCCCCccCC
Q 022025 49 GVHELLECPVCTNLMY-PPIHQCPNGHTLCSNCKNRV-----HNCCPTCRFDL 95 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~-~Pi~qC~~GH~fC~~C~~~~-----~~~CP~Cr~~~ 95 (304)
...+.-.|.||-+-++ ..++.| ||..|.-|.-++ .+.||.||...
T Consensus 57 tDEen~~C~ICA~~~TYs~~~PC--~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 57 TDEENMNCQICAGSTTYSARYPC--GHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccccceeEEecCCceEEEeccC--CchHHHHHHHHHHHHHhccCCCcccccc
Confidence 3566678999999877 445778 999999998765 37899999874
No 64
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.74 E-value=0.38 Score=43.97 Aligned_cols=46 Identities=20% Similarity=0.375 Sum_probs=36.4
Q ss_pred Ceeeeccccccccccc---ccccccCeecccCccccc---CCCCCCccCCCC
Q 022025 52 ELLECPVCTNLMYPPI---HQCPNGHTLCSNCKNRVH---NCCPTCRFDLGN 97 (304)
Q Consensus 52 ~~l~CpIC~~~l~~Pi---~qC~~GH~fC~~C~~~~~---~~CP~Cr~~~~~ 97 (304)
..+.||+|.+.|++.+ +-=++||+||..|.+++. ..||+|..++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 6789999999999753 222459999999999873 679999888754
No 65
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.44 E-value=0.31 Score=46.89 Aligned_cols=44 Identities=27% Similarity=0.748 Sum_probs=35.3
Q ss_pred CCeeeeccccccccccc-----c----cccccCeecccCccccc----------CCCCCCccCCC
Q 022025 51 HELLECPVCTNLMYPPI-----H----QCPNGHTLCSNCKNRVH----------NCCPTCRFDLG 96 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi-----~----qC~~GH~fC~~C~~~~~----------~~CP~Cr~~~~ 96 (304)
...-.|.||.+....+. + .| -|.||..|+.++. ..||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC--~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNC--NHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCc--chhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 44678999999988665 2 36 8999999998763 67999999764
No 66
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=85.26 E-value=0.23 Score=51.92 Aligned_cols=40 Identities=25% Similarity=0.676 Sum_probs=31.9
Q ss_pred eeccccccccccc----ccccccCeecccCcccc---cCCCCCCccCCC
Q 022025 55 ECPVCTNLMYPPI----HQCPNGHTLCSNCKNRV---HNCCPTCRFDLG 96 (304)
Q Consensus 55 ~CpIC~~~l~~Pi----~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 96 (304)
.||+|..-+.+-. ..| +|.||..|+..+ ...||.||..+.
T Consensus 125 ~CP~Ci~s~~DqL~~~~k~c--~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEKHT--AHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhHHHHHHHHHhhcccccc--ccccHHHHhhhhhhhcccCchhhhhhh
Confidence 5899887776552 356 999999999876 478999999875
No 67
>PF04641 Rtf2: Rtf2 RING-finger
Probab=85.12 E-value=0.52 Score=43.56 Aligned_cols=52 Identities=17% Similarity=0.363 Sum_probs=39.6
Q ss_pred cccCCCCeeeeccccccccc--c-cccccccCeecccCccccc--CCCCCCccCCCC
Q 022025 46 SNNGVHELLECPVCTNLMYP--P-IHQCPNGHTLCSNCKNRVH--NCCPTCRFDLGN 97 (304)
Q Consensus 46 ~~~~l~~~l~CpIC~~~l~~--P-i~qC~~GH~fC~~C~~~~~--~~CP~Cr~~~~~ 97 (304)
....-...+.|||....|.. + ++--+|||+|+..++..+. ..||.|..++..
T Consensus 106 ~~~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 106 SGDNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTE 162 (260)
T ss_pred ccccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCcccc
Confidence 34456788999999999964 2 2333349999999999874 479999999863
No 68
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.25 E-value=0.6 Score=43.62 Aligned_cols=56 Identities=32% Similarity=0.775 Sum_probs=39.5
Q ss_pred eeeeccccccccc------c-cccccccCeecccCccccc----CCCCCCccCC--CC------ccchHHHHHhhhc
Q 022025 53 LLECPVCTNLMYP------P-IHQCPNGHTLCSNCKNRVH----NCCPTCRFDL--GN------IRCLALEKVAESL 110 (304)
Q Consensus 53 ~l~CpIC~~~l~~------P-i~qC~~GH~fC~~C~~~~~----~~CP~Cr~~~--~~------~r~~~le~~l~~l 110 (304)
.+.|-||.+.+.. | ++.| ||.+|..|..++. ..||.||.+. .. ..|.++-..+...
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c--~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~~ 77 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKC--GHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEHM 77 (296)
T ss_pred CCceeecCccccccCcccCCccccc--CceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHHH
Confidence 4578999887762 4 4677 9999999999872 5689999984 22 2455555555443
No 69
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=83.51 E-value=0.69 Score=26.39 Aligned_cols=24 Identities=42% Similarity=0.814 Sum_probs=18.1
Q ss_pred ccCCCCCCCCccccChhhHHHHhhhhCC
Q 022025 142 YNCPYAGSECSVTGDIPTLVAHLKDDHQ 169 (304)
Q Consensus 142 ~~CP~~g~~C~~~g~~~~L~~Hl~~~H~ 169 (304)
+.|+. |+|.....+|..|++..|.
T Consensus 1 y~C~~----C~y~t~~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPH----CSYSTSKSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SS----SS-EESHHHHHHHHHHHHS
T ss_pred CCCCC----CCCcCCHHHHHHHHHhhCc
Confidence 35775 9998888899999998774
No 70
>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=81.71 E-value=0.35 Score=41.20 Aligned_cols=28 Identities=36% Similarity=0.966 Sum_probs=23.6
Q ss_pred cccccCe--------------ecccCcccccCCCCCCccCCC
Q 022025 69 QCPNGHT--------------LCSNCKNRVHNCCPTCRFDLG 96 (304)
Q Consensus 69 qC~~GH~--------------fC~~C~~~~~~~CP~Cr~~~~ 96 (304)
-|.|||. ||..|-.+....||.|..+|.
T Consensus 9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~~Cp~C~~~Ir 50 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPELREKFCSKCGAKTITSCPNCSTPIR 50 (158)
T ss_pred HccCccccccccccCchHHHHHHHHhhHHHHHHCcCCCCCCC
Confidence 4888874 999999888789999998874
No 71
>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=81.52 E-value=0.47 Score=35.13 Aligned_cols=38 Identities=29% Similarity=0.705 Sum_probs=22.9
Q ss_pred eeecccccccccccccccccCeecccCcccc--cCCCCCCccCCC
Q 022025 54 LECPVCTNLMYPPIHQCPNGHTLCSNCKNRV--HNCCPTCRFDLG 96 (304)
Q Consensus 54 l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~--~~~CP~Cr~~~~ 96 (304)
+.||.|...|..- .|+..|..|-... ...||.|..++.
T Consensus 2 ~~CP~C~~~L~~~-----~~~~~C~~C~~~~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQ-----GGHYHCEACQKDYKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEE-----TTEEEETTT--EEEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEe-----CCEEECccccccceecccCCCcccHHH
Confidence 5799999987653 1788899998754 367999988764
No 72
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.15 E-value=0.93 Score=43.66 Aligned_cols=41 Identities=24% Similarity=0.651 Sum_probs=33.4
Q ss_pred eeecccccccccc--c--ccccccCeecccCcccc----cCCCCCCccCCC
Q 022025 54 LECPVCTNLMYPP--I--HQCPNGHTLCSNCKNRV----HNCCPTCRFDLG 96 (304)
Q Consensus 54 l~CpIC~~~l~~P--i--~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~ 96 (304)
..|.||.+-+..- + +.| +|.|=..|+.+| ...||+|+..+.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC--~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPC--SHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecC--CCchhhccchhhHhhcCccCCCCCCcCC
Confidence 5899999998843 3 677 999999999987 255999999764
No 73
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=80.05 E-value=0.81 Score=45.18 Aligned_cols=48 Identities=29% Similarity=0.643 Sum_probs=36.0
Q ss_pred cCCCCeeeeccccccccccc---ccccccCeecccCccccc-CCCCCCccCC
Q 022025 48 NGVHELLECPVCTNLMYPPI---HQCPNGHTLCSNCKNRVH-NCCPTCRFDL 95 (304)
Q Consensus 48 ~~l~~~l~CpIC~~~l~~Pi---~qC~~GH~fC~~C~~~~~-~~CP~Cr~~~ 95 (304)
..+-++-+||||++-|-+-+ +.-.|.|.|=..|..++. .+||+||--.
T Consensus 170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q 221 (493)
T KOG0804|consen 170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQ 221 (493)
T ss_pred CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhc
Confidence 34566778999999987553 332339999999999874 7899998743
No 74
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=78.10 E-value=0.51 Score=34.81 Aligned_cols=44 Identities=27% Similarity=0.592 Sum_probs=17.0
Q ss_pred eeeecccccccc----ccccccc---ccCeecccCcccc--------------cCCCCCCccCCC
Q 022025 53 LLECPVCTNLMY----PPIHQCP---NGHTLCSNCKNRV--------------HNCCPTCRFDLG 96 (304)
Q Consensus 53 ~l~CpIC~~~l~----~Pi~qC~---~GH~fC~~C~~~~--------------~~~CP~Cr~~~~ 96 (304)
.+.|+||+..+. .|...|+ |+..|=..|+.++ ...||.|+.++.
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 467999999865 2445663 3544445566654 135888888764
No 75
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=76.48 E-value=2.4 Score=40.17 Aligned_cols=67 Identities=19% Similarity=0.449 Sum_probs=43.4
Q ss_pred CCCC-eeeecccccccccc--cccccccCeecccCcccc-cCCCCCCccCCCCccchHHHHHhhhccccCCCCCCCCcc
Q 022025 49 GVHE-LLECPVCTNLMYPP--IHQCPNGHTLCSNCKNRV-HNCCPTCRFDLGNIRCLALEKVAESLELPCKYQSLGCHD 123 (304)
Q Consensus 49 ~l~~-~l~CpIC~~~l~~P--i~qC~~GH~fC~~C~~~~-~~~CP~Cr~~~~~~r~~~le~~l~~l~v~C~~~~~GC~~ 123 (304)
.+.. .-.|.-|..++..= ++.| -|.||-.|.... .+.||.|..+ -..+|+....-.+-|. ...||..
T Consensus 85 ~l~p~VHfCd~Cd~PI~IYGRmIPC--kHvFCl~CAr~~~dK~Cp~C~d~-----VqrIeq~~~g~iFmC~-~~~GC~R 155 (389)
T KOG2932|consen 85 QLGPRVHFCDRCDFPIAIYGRMIPC--KHVFCLECARSDSDKICPLCDDR-----VQRIEQIMMGGIFMCA-APHGCLR 155 (389)
T ss_pred ccCcceEeecccCCcceeeeccccc--chhhhhhhhhcCccccCcCcccH-----HHHHHHhcccceEEee-cchhHHH
Confidence 4444 55688898876643 2467 999999997643 3689999654 3445665555566666 3455654
No 76
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.19 E-value=1.3 Score=43.41 Aligned_cols=102 Identities=23% Similarity=0.431 Sum_probs=61.1
Q ss_pred CCCeeeeccccccccccc----ccccccCeecccCcccc-----------cCCCCCCccCCCCc--------------c-
Q 022025 50 VHELLECPVCTNLMYPPI----HQCPNGHTLCSNCKNRV-----------HNCCPTCRFDLGNI--------------R- 99 (304)
Q Consensus 50 l~~~l~CpIC~~~l~~Pi----~qC~~GH~fC~~C~~~~-----------~~~CP~Cr~~~~~~--------------r- 99 (304)
+..++.|.||++-..-.+ +.| +|.||..|.... .-+||.+.-.-... |
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC--~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arY 258 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPC--SHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARY 258 (445)
T ss_pred HhhcccceeeehhhcCcceeeeccc--chHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHH
Confidence 467899999999877542 246 999999998743 24688654431110 1
Q ss_pred -chHHHHHhhhcc--ccCCCCCCCCccccCccchhcccc---ccCccccc-CCCC---CCCCccccC
Q 022025 100 -CLALEKVAESLE--LPCKYQSLGCHDIFPYYGKLKHEQ---HCRFRPYN-CPYA---GSECSVTGD 156 (304)
Q Consensus 100 -~~~le~~l~~l~--v~C~~~~~GC~~~~~~~~~~~He~---~C~~~p~~-CP~~---g~~C~~~g~ 156 (304)
...+++-++.+. +.||++ -|+... ..+...-.. .|.|+-+. |... +..|++.+.
T Consensus 259 e~l~lqk~l~~msdv~yCPr~--~Cq~p~-~~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~ 322 (445)
T KOG1814|consen 259 EKLMLQKTLELMSDVVYCPRA--CCQLPV-KQDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAE 322 (445)
T ss_pred HHHHHHHHHHhhcccccCChh--hccCcc-ccCchhhhhhhccCccHHHHHHHHhhcCCCcccCchH
Confidence 122444555555 899986 576554 444444444 45555442 4321 345888764
No 77
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=75.69 E-value=0.97 Score=37.24 Aligned_cols=28 Identities=36% Similarity=0.911 Sum_probs=23.2
Q ss_pred cccccCe--------------ecccCcccccCCCCCCccCCC
Q 022025 69 QCPNGHT--------------LCSNCKNRVHNCCPTCRFDLG 96 (304)
Q Consensus 69 qC~~GH~--------------fC~~C~~~~~~~CP~Cr~~~~ 96 (304)
-|.|||. ||+.|-+.....||.|..++.
T Consensus 9 ic~ngh~attaadq~pel~eafcskcgeati~qcp~csasir 50 (160)
T COG4306 9 ICLNGHVATTAADQSPELMEAFCSKCGEATITQCPICSASIR 50 (160)
T ss_pred hcCCCceeeccccCCHHHHHHHHhhhchHHHhcCCccCCccc
Confidence 4888884 999998876689999988764
No 78
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.94 E-value=1.5 Score=45.58 Aligned_cols=40 Identities=33% Similarity=0.791 Sum_probs=30.4
Q ss_pred eeccccccccccc-ccccccC-eecccCcccc---------cCCCCCCccCCC
Q 022025 55 ECPVCTNLMYPPI-HQCPNGH-TLCSNCKNRV---------HNCCPTCRFDLG 96 (304)
Q Consensus 55 ~CpIC~~~l~~Pi-~qC~~GH-~fC~~C~~~~---------~~~CP~Cr~~~~ 96 (304)
.|+||..-+.-+. ..| || .+|..|..++ .+.||+|+..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~--~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSC--GHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccc--cccccchhhhhhhhhhcccccccccCccccccee
Confidence 4889988777665 477 99 8999998865 245799988654
No 79
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=74.82 E-value=0.5 Score=49.51 Aligned_cols=55 Identities=24% Similarity=0.508 Sum_probs=37.4
Q ss_pred CCCCcccccccCCCCeeeeccccccccccc-ccccccCeecccCcccc-----cCCCCCCccCC
Q 022025 38 LGGKQGIYSNNGVHELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV-----HNCCPTCRFDL 95 (304)
Q Consensus 38 ~~~~~~~~~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~-----~~~CP~Cr~~~ 95 (304)
..++........+...+.|++|.+ ...++ ..| ||.+|..|+.+. ...||.||..+
T Consensus 439 ~~~~~~~~~i~~l~~~~~c~ic~~-~~~~~it~c--~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 439 SAAALIIRLIVDLSVSHWCHICCD-LDSFFITRC--GHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred ccchHHHHHHHHHhhccccccccc-cccceeecc--cchHHHHHHHhccccccCCCCcHHHHHH
Confidence 333333333344443389999999 66664 467 999999999865 24699997653
No 80
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=74.19 E-value=1.4 Score=42.70 Aligned_cols=43 Identities=30% Similarity=0.770 Sum_probs=32.1
Q ss_pred CCeeeecccccccc-cc------------c-ccccccCeecccCcccc---cCCCCCCccCC
Q 022025 51 HELLECPVCTNLMY-PP------------I-HQCPNGHTLCSNCKNRV---HNCCPTCRFDL 95 (304)
Q Consensus 51 ~~~l~CpIC~~~l~-~P------------i-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~ 95 (304)
.++-.|.||.+-+- +| - +.| ||++=-.|...+ +..||.||.++
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpC--GHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPC--GHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccc--cceeeHHHHHHHHHhccCCCcccCcc
Confidence 34457999999743 43 1 346 999888898765 58999999994
No 81
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=74.00 E-value=1.4 Score=40.56 Aligned_cols=24 Identities=25% Similarity=0.740 Sum_probs=19.7
Q ss_pred eeeecccccccc--cccccccccCee
Q 022025 53 LLECPVCTNLMY--PPIHQCPNGHTL 76 (304)
Q Consensus 53 ~l~CpIC~~~l~--~Pi~qC~~GH~f 76 (304)
.|.||+|...|. +..+.|++||.|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 378999999996 334789999987
No 82
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=73.78 E-value=1.1 Score=26.35 Aligned_cols=17 Identities=35% Similarity=0.503 Sum_probs=9.8
Q ss_pred CccccCccchhcccccc
Q 022025 121 CHDIFPYYGKLKHEQHC 137 (304)
Q Consensus 121 C~~~~~~~~~~~He~~C 137 (304)
|+..+....+..|+..|
T Consensus 8 CgR~F~~~~l~~H~~~C 24 (25)
T PF13913_consen 8 CGRKFNPDRLEKHEKIC 24 (25)
T ss_pred CCCEECHHHHHHHHHhc
Confidence 55555555555565555
No 83
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.57 E-value=1.2 Score=43.29 Aligned_cols=43 Identities=33% Similarity=0.788 Sum_probs=32.6
Q ss_pred CCCeeeecccccccc---ccc-ccccccCeecccCccccc------CCCCCCccC
Q 022025 50 VHELLECPVCTNLMY---PPI-HQCPNGHTLCSNCKNRVH------NCCPTCRFD 94 (304)
Q Consensus 50 l~~~l~CpIC~~~l~---~Pi-~qC~~GH~fC~~C~~~~~------~~CP~Cr~~ 94 (304)
....|.|||=.+--. ||+ +.| ||++|+.-+.++. -+||.|-..
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~L~C--GHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMMLIC--GHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred ccceeecccchhhccCCCCCeeeec--cceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 567889999777654 666 678 9999999888762 468888554
No 84
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.87 E-value=0.96 Score=43.46 Aligned_cols=44 Identities=23% Similarity=0.507 Sum_probs=33.0
Q ss_pred CCeeeecccccccccccc-cccccCeecccCcccc---cCCCCCCccCCC
Q 022025 51 HELLECPVCTNLMYPPIH-QCPNGHTLCSNCKNRV---HNCCPTCRFDLG 96 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi~-qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 96 (304)
.++-.||||+---...++ .| ||.-|+.|+.++ .+.|-.|+..+.
T Consensus 420 sEd~lCpICyA~pi~Avf~PC--~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPC--SHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchhhccCC--CCchHHHHHHHHHhcCCeeeEecceee
Confidence 355569999987666664 46 999999999976 366777876543
No 85
>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=72.66 E-value=1.8 Score=25.77 Aligned_cols=9 Identities=33% Similarity=0.851 Sum_probs=4.7
Q ss_pred ecccccccc
Q 022025 56 CPVCTNLMY 64 (304)
Q Consensus 56 CpIC~~~l~ 64 (304)
||.|...+.
T Consensus 3 CP~C~~~V~ 11 (26)
T PF10571_consen 3 CPECGAEVP 11 (26)
T ss_pred CCCCcCCch
Confidence 555555543
No 86
>PRK04023 DNA polymerase II large subunit; Validated
Probab=72.30 E-value=3.5 Score=44.75 Aligned_cols=44 Identities=25% Similarity=0.599 Sum_probs=33.1
Q ss_pred Ceeeeccccccccccccccc-ccC-----eecccCcccc-cCCCCCCccCCCC
Q 022025 52 ELLECPVCTNLMYPPIHQCP-NGH-----TLCSNCKNRV-HNCCPTCRFDLGN 97 (304)
Q Consensus 52 ~~l~CpIC~~~l~~Pi~qC~-~GH-----~fC~~C~~~~-~~~CP~Cr~~~~~ 97 (304)
....|+-|.... +.+.|+ ||. .+|..|.... ...||.|......
T Consensus 625 g~RfCpsCG~~t--~~frCP~CG~~Te~i~fCP~CG~~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 625 GRRKCPSCGKET--FYRRCPFCGTHTEPVYRCPRCGIEVEEDECEKCGREPTP 675 (1121)
T ss_pred cCccCCCCCCcC--CcccCCCCCCCCCcceeCccccCcCCCCcCCCCCCCCCc
Confidence 445799999985 446787 674 5999998765 3679999987653
No 87
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=71.90 E-value=1.7 Score=40.43 Aligned_cols=103 Identities=17% Similarity=0.317 Sum_probs=65.5
Q ss_pred CCeeeecccccccc-cccccccccCeecccCcccccCCCCCCccCCCCccchHHH----HHhhhccccCCCCCCCCcccc
Q 022025 51 HELLECPVCTNLMY-PPIHQCPNGHTLCSNCKNRVHNCCPTCRFDLGNIRCLALE----KVAESLELPCKYQSLGCHDIF 125 (304)
Q Consensus 51 ~~~l~CpIC~~~l~-~Pi~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~~~r~~~le----~~l~~l~v~C~~~~~GC~~~~ 125 (304)
...+.|++|...+. -|-+. .|+- -..+.-.|++|.+.|. |.+.|+ .-..+-++.|+. |...+
T Consensus 159 ~ka~~C~~C~K~YvSmpALk---MHir----TH~l~c~C~iCGKaFS--RPWLLQGHiRTHTGEKPF~C~h----C~kAF 225 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALK---MHIR----THTLPCECGICGKAFS--RPWLLQGHIRTHTGEKPFSCPH----CGKAF 225 (279)
T ss_pred cccccCCCCCceeeehHHHh---hHhh----ccCCCccccccccccc--chHHhhcccccccCCCCccCCc----ccchh
Confidence 55688999998766 44332 3321 0012347888888765 444333 334456788885 88766
Q ss_pred -Cccchhccccc-cCcccccCCCCCCCCccccCh-hhHHHHhhhhCCC
Q 022025 126 -PYYGKLKHEQH-CRFRPYNCPYAGSECSVTGDI-PTLVAHLKDDHQV 170 (304)
Q Consensus 126 -~~~~~~~He~~-C~~~p~~CP~~g~~C~~~g~~-~~L~~Hl~~~H~~ 170 (304)
-..+|+.|+.+ =...++.|+. |+....+ ..|..|++.....
T Consensus 226 ADRSNLRAHmQTHS~~K~~qC~~----C~KsFsl~SyLnKH~ES~C~~ 269 (279)
T KOG2462|consen 226 ADRSNLRAHMQTHSDVKKHQCPR----CGKSFALKSYLNKHSESACLK 269 (279)
T ss_pred cchHHHHHHHHhhcCCccccCcc----hhhHHHHHHHHHHhhhhcccc
Confidence 55678888764 4566888985 8887766 4567787776653
No 88
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.14 E-value=1.2 Score=43.44 Aligned_cols=40 Identities=30% Similarity=0.675 Sum_probs=32.5
Q ss_pred eeeccccccccccc------ccccccCeecccCcccc-----cCCCCCCccCC
Q 022025 54 LECPVCTNLMYPPI------HQCPNGHTLCSNCKNRV-----HNCCPTCRFDL 95 (304)
Q Consensus 54 l~CpIC~~~l~~Pi------~qC~~GH~fC~~C~~~~-----~~~CP~Cr~~~ 95 (304)
-.||||++-..-|. .+| ||.|=++|++++ ...||.|...-
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~c--ghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQC--GHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccCceeeeeeeecCceEEeeecc--cccccHHHHHHHHhhhhhhhCcccCChh
Confidence 47999999887663 477 999999999987 26799998753
No 89
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=70.72 E-value=1.7 Score=41.18 Aligned_cols=77 Identities=19% Similarity=0.159 Sum_probs=54.2
Q ss_pred CCCCCCccCCCC-c--c---chHHHHHhhhccccCCCCCCCCccccCccchhccccccCcccccCCCCCCCCccccChhh
Q 022025 86 NCCPTCRFDLGN-I--R---CLALEKVAESLELPCKYQSLGCHDIFPYYGKLKHEQHCRFRPYNCPYAGSECSVTGDIPT 159 (304)
Q Consensus 86 ~~CP~Cr~~~~~-~--r---~~~le~~l~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~~~p~~CP~~g~~C~~~g~~~~ 159 (304)
..||+|...+.. + . .++-..-..++...||. |...++...-..=|+.++-..++||+...||.+..++..
T Consensus 49 leCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~----Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~~~~~Y~~ 124 (299)
T KOG3002|consen 49 LDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPT----CRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCTKSFPYGE 124 (299)
T ss_pred ccCchhhccCcccceecCCCcEehhhhhhhhcccCCc----cccccccHHHHHHHHHHHhceecccccccCCceeecccc
Confidence 468888776643 1 1 13344444467888996 988887444444567899999999999889999998876
Q ss_pred HHHHhhh
Q 022025 160 LVAHLKD 166 (304)
Q Consensus 160 L~~Hl~~ 166 (304)
-..|.+.
T Consensus 125 ~~~HE~~ 131 (299)
T KOG3002|consen 125 KSKHEKV 131 (299)
T ss_pred ccccccc
Confidence 6666553
No 90
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=70.32 E-value=1.9 Score=34.06 Aligned_cols=40 Identities=30% Similarity=0.712 Sum_probs=15.1
Q ss_pred eecccccccc--cc-cccccccCeecccCcccc-------cCCCCCCccCC
Q 022025 55 ECPVCTNLMY--PP-IHQCPNGHTLCSNCKNRV-------HNCCPTCRFDL 95 (304)
Q Consensus 55 ~CpIC~~~l~--~P-i~qC~~GH~fC~~C~~~~-------~~~CP~Cr~~~ 95 (304)
.|++|...+. ++ ..+|.+||.+ .+|.... ...|+.|....
T Consensus 16 ~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~ 65 (99)
T PF12660_consen 16 KCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRA 65 (99)
T ss_dssp -------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EE
T ss_pred cccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEE
Confidence 6999999764 54 3689999985 6665532 26799998764
No 91
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.74 E-value=2 Score=45.62 Aligned_cols=43 Identities=23% Similarity=0.728 Sum_probs=35.8
Q ss_pred CCCeeeeccccccccccc--ccccccCeecccCcccccCCCCCCccC
Q 022025 50 VHELLECPVCTNLMYPPI--HQCPNGHTLCSNCKNRVHNCCPTCRFD 94 (304)
Q Consensus 50 l~~~l~CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~~~~CP~Cr~~ 94 (304)
+-..-.|..|.-.|..|. +.| ||.+=.+|.+.....||.|+..
T Consensus 837 i~q~skCs~C~~~LdlP~VhF~C--gHsyHqhC~e~~~~~CP~C~~e 881 (933)
T KOG2114|consen 837 IFQVSKCSACEGTLDLPFVHFLC--GHSYHQHCLEDKEDKCPKCLPE 881 (933)
T ss_pred eeeeeeecccCCccccceeeeec--ccHHHHHhhccCcccCCccchh
Confidence 334468999999999995 688 9999999999666899999763
No 92
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=68.66 E-value=1.4 Score=33.49 Aligned_cols=42 Identities=24% Similarity=0.540 Sum_probs=30.2
Q ss_pred eecccccccccccccccc---------------cCeecccCcccc---cCCCCCCccCCC
Q 022025 55 ECPVCTNLMYPPIHQCPN---------------GHTLCSNCKNRV---HNCCPTCRFDLG 96 (304)
Q Consensus 55 ~CpIC~~~l~~Pi~qC~~---------------GH~fC~~C~~~~---~~~CP~Cr~~~~ 96 (304)
.|.||+..+-++-.+|+. .|.|=..|+.++ .+.||.+++.+.
T Consensus 22 ~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 22 VCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred hhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 588888887776556654 366666788775 478999998764
No 93
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=68.41 E-value=5.1 Score=27.66 Aligned_cols=27 Identities=33% Similarity=0.817 Sum_probs=22.7
Q ss_pred cccCCCCCCCCccccChhhHHHHhhhhCCCC
Q 022025 141 PYNCPYAGSECSVTGDIPTLVAHLKDDHQVD 171 (304)
Q Consensus 141 p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~ 171 (304)
.+.||+ |+...+...|..|+...|...
T Consensus 2 ~f~CP~----C~~~~~~~~L~~H~~~~H~~~ 28 (54)
T PF05605_consen 2 SFTCPY----CGKGFSESSLVEHCEDEHRSE 28 (54)
T ss_pred CcCCCC----CCCccCHHHHHHHHHhHCcCC
Confidence 367998 888667789999999999865
No 94
>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=68.38 E-value=3.2 Score=28.87 Aligned_cols=37 Identities=24% Similarity=0.709 Sum_probs=19.1
Q ss_pred ecccccccccc--------cccccc-cCeecccCcc---cccCCCCCCc
Q 022025 56 CPVCTNLMYPP--------IHQCPN-GHTLCSNCKN---RVHNCCPTCR 92 (304)
Q Consensus 56 CpIC~~~l~~P--------i~qC~~-GH~fC~~C~~---~~~~~CP~Cr 92 (304)
|--|...|..+ .|+|+. ++.||..|-. .....||-|.
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 55666666654 477763 7889999943 3357899884
No 95
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=68.15 E-value=1 Score=48.30 Aligned_cols=48 Identities=21% Similarity=0.596 Sum_probs=33.1
Q ss_pred CCCCeeeecccccccc-----ccccccc-ccCeecccCcccc-----cCCCCCCccCCC
Q 022025 49 GVHELLECPVCTNLMY-----PPIHQCP-NGHTLCSNCKNRV-----HNCCPTCRFDLG 96 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~-----~Pi~qC~-~GH~fC~~C~~~~-----~~~CP~Cr~~~~ 96 (304)
.....-+|+||..++. -|--.|+ |-|-|=.+|+-+| ...||.||..++
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3455567999999886 2433453 2566667777766 478999998765
No 96
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=66.65 E-value=2.2 Score=40.60 Aligned_cols=43 Identities=23% Similarity=0.477 Sum_probs=31.3
Q ss_pred CeeeecccccccccccccccccCeecccCcccc---cCCCCCCccC
Q 022025 52 ELLECPVCTNLMYPPIHQCPNGHTLCSNCKNRV---HNCCPTCRFD 94 (304)
Q Consensus 52 ~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~---~~~CP~Cr~~ 94 (304)
+.-.||+|..--.+|..--..|-+||-.|+-+. .+.||+=..+
T Consensus 299 ~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred ccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 334699999999888422234999999999864 3789875443
No 97
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=64.41 E-value=5.8 Score=44.15 Aligned_cols=43 Identities=33% Similarity=0.878 Sum_probs=31.4
Q ss_pred eeeeccccccccccccccc-ccCe-----ecccCccccc------CCCCCCccCCCC
Q 022025 53 LLECPVCTNLMYPPIHQCP-NGHT-----LCSNCKNRVH------NCCPTCRFDLGN 97 (304)
Q Consensus 53 ~l~CpIC~~~l~~Pi~qC~-~GH~-----fC~~C~~~~~------~~CP~Cr~~~~~ 97 (304)
.+.||-|...... ..|+ ||.. .|..|-.+.. ..||.|..++..
T Consensus 667 ~rkCPkCG~~t~~--~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 667 RRRCPSCGTETYE--NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTP 721 (1337)
T ss_pred EEECCCCCCcccc--ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccc
Confidence 4889999996543 3676 6854 5999987651 379999988653
No 98
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=60.62 E-value=4.2 Score=30.28 Aligned_cols=30 Identities=33% Similarity=0.842 Sum_probs=24.4
Q ss_pred ccccccCeecccCcc-cccCCCCCCccCCCC
Q 022025 68 HQCPNGHTLCSNCKN-RVHNCCPTCRFDLGN 97 (304)
Q Consensus 68 ~qC~~GH~fC~~C~~-~~~~~CP~Cr~~~~~ 97 (304)
..|.--+.||..|.+ ++...||.|...+..
T Consensus 23 ~ICtfEcTFCadCae~~l~g~CPnCGGelv~ 53 (84)
T COG3813 23 RICTFECTFCADCAENRLHGLCPNCGGELVA 53 (84)
T ss_pred eEEEEeeehhHhHHHHhhcCcCCCCCchhhc
Confidence 457777899999998 557899999998754
No 99
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.65 E-value=4.3 Score=37.30 Aligned_cols=35 Identities=11% Similarity=0.232 Sum_probs=28.9
Q ss_pred cCCCCeeeecccccccccccccccccCeecccCccc
Q 022025 48 NGVHELLECPVCTNLMYPPIHQCPNGHTLCSNCKNR 83 (304)
Q Consensus 48 ~~l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~ 83 (304)
+.+.+.-.|+.|+.+..+|+ -|+.||+||+.||..
T Consensus 38 DsiK~FdcCsLtLqPc~dPv-it~~GylfdrEaILe 72 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPCRDPV-ITPDGYLFDREAILE 72 (303)
T ss_pred cccCCcceeeeecccccCCc-cCCCCeeeeHHHHHH
Confidence 34555567999999999995 578899999999874
No 100
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=59.36 E-value=5.4 Score=38.56 Aligned_cols=113 Identities=18% Similarity=0.385 Sum_probs=71.6
Q ss_pred CCeeeeccccccccccc--c-cc------cccCeecccCcccc---------------cCCCCCCccCCCCc---cchHH
Q 022025 51 HELLECPVCTNLMYPPI--H-QC------PNGHTLCSNCKNRV---------------HNCCPTCRFDLGNI---RCLAL 103 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi--~-qC------~~GH~fC~~C~~~~---------------~~~CP~Cr~~~~~~---r~~~l 103 (304)
...+-||-|.+.|..-. + .| ...|-.|+.|..+. ..+||.|....+.. ++-.+
T Consensus 205 eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r 284 (467)
T KOG3608|consen 205 EKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIR 284 (467)
T ss_pred CeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHH
Confidence 45677999999987532 1 11 11466788888743 25799998876542 22233
Q ss_pred HHHhhhccccCCCCCCCCccc-cCccchhccccccCcccccCCCCCCCCcccc-ChhhHHHHhhhhCC
Q 022025 104 EKVAESLELPCKYQSLGCHDI-FPYYGKLKHEQHCRFRPYNCPYAGSECSVTG-DIPTLVAHLKDDHQ 169 (304)
Q Consensus 104 e~~l~~l~v~C~~~~~GC~~~-~~~~~~~~He~~C~~~p~~CP~~g~~C~~~g-~~~~L~~Hl~~~H~ 169 (304)
-+-.+.-++.|.- |... +...++.+|...=.-..+.|..+ +|.+.. .+.+|..|+...|.
T Consensus 285 ~rHs~dkpfKCd~----Cd~~c~~esdL~kH~~~HS~~~y~C~h~--~C~~s~r~~~q~~~H~~evhE 346 (467)
T KOG3608|consen 285 YRHSKDKPFKCDE----CDTRCVRESDLAKHVQVHSKTVYQCEHP--DCHYSVRTYTQMRRHFLEVHE 346 (467)
T ss_pred hhhccCCCccccc----hhhhhccHHHHHHHHHhccccceecCCC--CCcHHHHHHHHHHHHHHHhcc
Confidence 4444566677763 6543 46668888876444455677664 477765 34788888888885
No 101
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=59.17 E-value=5.5 Score=28.53 Aligned_cols=35 Identities=31% Similarity=0.771 Sum_probs=21.4
Q ss_pred hccccCCCCCCCCccccCccchh--ccccccCcccccCCCCCCCCccccC
Q 022025 109 SLELPCKYQSLGCHDIFPYYGKL--KHEQHCRFRPYNCPYAGSECSVTGD 156 (304)
Q Consensus 109 ~l~v~C~~~~~GC~~~~~~~~~~--~He~~C~~~p~~CP~~g~~C~~~g~ 156 (304)
...++||| |.+.+-++-.. +| -.+|.||. |+|.|+
T Consensus 25 ~v~F~CPn----CGe~~I~Rc~~CRk~-----g~~Y~Cp~----CGF~GP 61 (61)
T COG2888 25 AVKFPCPN----CGEVEIYRCAKCRKL-----GNPYRCPK----CGFEGP 61 (61)
T ss_pred eeEeeCCC----CCceeeehhhhHHHc-----CCceECCC----cCccCC
Confidence 35778887 77544433221 11 24788986 999874
No 102
>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=58.62 E-value=3.2 Score=38.87 Aligned_cols=41 Identities=34% Similarity=0.826 Sum_probs=29.2
Q ss_pred eecccccc-cccc-c--ccccccCeecccCcccc----cCCCCCCccCC
Q 022025 55 ECPVCTNL-MYPP-I--HQCPNGHTLCSNCKNRV----HNCCPTCRFDL 95 (304)
Q Consensus 55 ~CpIC~~~-l~~P-i--~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~ 95 (304)
.||+|.-- ...| + +.=+|||..|.+|..++ ...||.|...+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 48888753 3444 3 22245999999999876 47899998765
No 103
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.68 E-value=8.6 Score=36.06 Aligned_cols=32 Identities=28% Similarity=0.708 Sum_probs=26.6
Q ss_pred CCeeeeccccccccccc-ccccc--cCeecccCcc
Q 022025 51 HELLECPVCTNLMYPPI-HQCPN--GHTLCSNCKN 82 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi-~qC~~--GH~fC~~C~~ 82 (304)
.+-|.|-+|.+-|.+-- +||+. .|.||-.|-.
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSR 300 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSR 300 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCH
Confidence 34599999999999885 69974 8999999964
No 104
>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=56.40 E-value=6.4 Score=30.47 Aligned_cols=33 Identities=27% Similarity=0.558 Sum_probs=24.1
Q ss_pred CCeeeeccccccccccc-ccccccCeecccCccc
Q 022025 51 HELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNR 83 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~ 83 (304)
.+.-.|++|...+.... .-.++||.+-..|..+
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEecccccC
Confidence 34446999999998653 3445599999888753
No 105
>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=56.36 E-value=6.2 Score=27.92 Aligned_cols=43 Identities=26% Similarity=0.709 Sum_probs=30.3
Q ss_pred eecccccccccc---cccccccCeecccCcccc-cCCCCCCccCCCC
Q 022025 55 ECPVCTNLMYPP---IHQCPNGHTLCSNCKNRV-HNCCPTCRFDLGN 97 (304)
Q Consensus 55 ~CpIC~~~l~~P---i~qC~~GH~fC~~C~~~~-~~~CP~Cr~~~~~ 97 (304)
.|-.|..-|.+- -+.|.--.+||..|.+.. ...||.|...+..
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCcCCCCcccc
Confidence 356666655432 145655569999999976 6899999987653
No 106
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=54.35 E-value=13 Score=29.44 Aligned_cols=38 Identities=24% Similarity=0.510 Sum_probs=23.7
Q ss_pred cccccCCCCeeeeccccccc-ccccccccccCeecccCcc
Q 022025 44 IYSNNGVHELLECPVCTNLM-YPPIHQCPNGHTLCSNCKN 82 (304)
Q Consensus 44 ~~~~~~l~~~l~CpIC~~~l-~~Pi~qC~~GH~fC~~C~~ 82 (304)
......++..+.||.|.+.. ..++-. .-+|+.|..|-.
T Consensus 12 ~k~k~klpt~f~CP~Cge~~v~v~~~k-~~~h~~C~~CG~ 50 (99)
T PRK14892 12 IRPKPKLPKIFECPRCGKVSISVKIKK-NIAIITCGNCGL 50 (99)
T ss_pred cccccCCCcEeECCCCCCeEeeeecCC-CcceEECCCCCC
Confidence 34456778899999999632 223323 346777766654
No 107
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=53.41 E-value=19 Score=33.58 Aligned_cols=105 Identities=22% Similarity=0.351 Sum_probs=66.0
Q ss_pred CCCeeeeccccccccccc-ccccccC--eecccCcccccCCCCCCccCCCCccchHHHHHhhhccccCCCCCCCCccccC
Q 022025 50 VHELLECPVCTNLMYPPI-HQCPNGH--TLCSNCKNRVHNCCPTCRFDLGNIRCLALEKVAESLELPCKYQSLGCHDIFP 126 (304)
Q Consensus 50 l~~~l~CpIC~~~l~~Pi-~qC~~GH--~fC~~C~~~~~~~CP~Cr~~~~~~r~~~le~~l~~l~v~C~~~~~GC~~~~~ 126 (304)
....+.|+-|...+..-. +. -| .-|.-= .+....|+.|.+.......+.|-...-.|...|.. |+..+.
T Consensus 127 ~~~r~~c~eCgk~ysT~snLs---rHkQ~H~~~~-s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~i----CGKaFS 198 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLS---RHKQTHRSLD-SKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGI----CGKAFS 198 (279)
T ss_pred cCCceeccccccccccccccc---hhhccccccc-ccccccCCCCCceeeehHHHhhHhhccCCCccccc----cccccc
Confidence 456677888877665421 10 01 011111 12237899998876666666666666677777876 888876
Q ss_pred ccc-hhccccc-cCcccccCCCCCCCCcccc-ChhhHHHHhhh
Q 022025 127 YYG-KLKHEQH-CRFRPYNCPYAGSECSVTG-DIPTLVAHLKD 166 (304)
Q Consensus 127 ~~~-~~~He~~-C~~~p~~CP~~g~~C~~~g-~~~~L~~Hl~~ 166 (304)
..- |+.|.++ =--+|+.||. |+... .+.+|..|+.+
T Consensus 199 RPWLLQGHiRTHTGEKPF~C~h----C~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 199 RPWLLQGHIRTHTGEKPFSCPH----CGKAFADRSNLRAHMQT 237 (279)
T ss_pred chHHhhcccccccCCCCccCCc----ccchhcchHHHHHHHHh
Confidence 553 4556653 2347889996 77655 57899999875
No 108
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=53.37 E-value=9.3 Score=34.31 Aligned_cols=121 Identities=21% Similarity=0.308 Sum_probs=64.2
Q ss_pred CCCCcccccccCCCCeeeecccccccccccccccccCeecccCcccccCCCCCCccCCCCccc--hHHHHHhhhccccCC
Q 022025 38 LGGKQGIYSNNGVHELLECPVCTNLMYPPIHQCPNGHTLCSNCKNRVHNCCPTCRFDLGNIRC--LALEKVAESLELPCK 115 (304)
Q Consensus 38 ~~~~~~~~~~~~l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~~~r~--~~le~~l~~l~v~C~ 115 (304)
++++..+.. ....+.+.|-||..-|.-.-+- |-|+-|.+=+.+ ..|..|.+.+...-+ +.++....--++.|.
T Consensus 103 ss~k~t~gs-ssd~d~ftCrvCgK~F~lQRml--nrh~kch~~vkr--~lct~cgkgfndtfdlkrh~rthtgvrpykc~ 177 (267)
T KOG3576|consen 103 SSPKSTIGS-SSDQDSFTCRVCGKKFGLQRML--NRHLKCHSDVKR--HLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCS 177 (267)
T ss_pred cCCcccccC-CCCCCeeeeehhhhhhhHHHHH--HHHhhhccHHHH--HHHhhccCcccchhhhhhhhccccCccccchh
Confidence 344444332 3458899999999988754221 255555444433 246677766543211 112222222233333
Q ss_pred CCCCCCccccC-ccchhccccc-------c-----CcccccCCCCCCCCccccCh-hhHHHHhhhhCCCC
Q 022025 116 YQSLGCHDIFP-YYGKLKHEQH-------C-----RFRPYNCPYAGSECSVTGDI-PTLVAHLKDDHQVD 171 (304)
Q Consensus 116 ~~~~GC~~~~~-~~~~~~He~~-------C-----~~~p~~CP~~g~~C~~~g~~-~~L~~Hl~~~H~~~ 171 (304)
-|...++ .-.++.|.+. = .-..+-|. +|++++.+ +..+.|++..|...
T Consensus 178 ----~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vce----dcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 178 ----LCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCE----DCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred ----hhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeec----ccCCCCCChhHHHHHHHhcCCCC
Confidence 3554443 2344555431 1 11235565 48888855 67889999999854
No 109
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=51.80 E-value=8.2 Score=30.02 Aligned_cols=36 Identities=22% Similarity=0.737 Sum_probs=29.1
Q ss_pred eecccccccccccccccccCeecccCcccccCCCCCCccCCCC
Q 022025 55 ECPVCTNLMYPPIHQCPNGHTLCSNCKNRVHNCCPTCRFDLGN 97 (304)
Q Consensus 55 ~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~~ 97 (304)
.|-+|..-+..| ||.+|..|.-+. ..|..|...+..
T Consensus 46 ~C~~CK~~v~q~------g~~YCq~CAYkk-GiCamCGKki~d 81 (90)
T PF10235_consen 46 KCKICKTKVHQP------GAKYCQTCAYKK-GICAMCGKKILD 81 (90)
T ss_pred cccccccccccC------CCccChhhhccc-CcccccCCeecc
Confidence 588888766655 999999998775 789999988743
No 110
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.41 E-value=2.4 Score=39.38 Aligned_cols=42 Identities=19% Similarity=0.460 Sum_probs=28.8
Q ss_pred eecccccccccc---------cccccccCeecccCcccc-----cCCCCCCccCCC
Q 022025 55 ECPVCTNLMYPP---------IHQCPNGHTLCSNCKNRV-----HNCCPTCRFDLG 96 (304)
Q Consensus 55 ~CpIC~~~l~~P---------i~qC~~GH~fC~~C~~~~-----~~~CP~Cr~~~~ 96 (304)
.|.||..-+..- +++=.|+|+|=..|+.-+ ...||.|++.+.
T Consensus 226 vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 226 VCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred hhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 599998876532 233333998777777643 478999988754
No 111
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.97 E-value=6.3 Score=38.63 Aligned_cols=33 Identities=21% Similarity=0.480 Sum_probs=21.9
Q ss_pred Ceeeecccc-cccccc-cc-cccccCeecccCcccc
Q 022025 52 ELLECPVCT-NLMYPP-IH-QCPNGHTLCSNCKNRV 84 (304)
Q Consensus 52 ~~l~CpIC~-~~l~~P-i~-qC~~GH~fC~~C~~~~ 84 (304)
....|.||. +..... .+ ...|||.||..|..+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ 180 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQH 180 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHH
Confidence 356799999 443331 22 2334999999999864
No 112
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=48.71 E-value=11 Score=26.93 Aligned_cols=35 Identities=31% Similarity=0.935 Sum_probs=20.3
Q ss_pred hccccCCCCCCCCccccCccchhccccccC--cccccCCCCCCCCccccC
Q 022025 109 SLELPCKYQSLGCHDIFPYYGKLKHEQHCR--FRPYNCPYAGSECSVTGD 156 (304)
Q Consensus 109 ~l~v~C~~~~~GC~~~~~~~~~~~He~~C~--~~p~~CP~~g~~C~~~g~ 156 (304)
...+.||| |.+.+-++- ..|. ..+|.||. |+|+|+
T Consensus 23 ~~~F~CPn----CG~~~I~RC-----~~CRk~~~~Y~CP~----CGF~GP 59 (59)
T PRK14890 23 AVKFLCPN----CGEVIIYRC-----EKCRKQSNPYTCPK----CGFEGP 59 (59)
T ss_pred cCEeeCCC----CCCeeEeec-----hhHHhcCCceECCC----CCCcCc
Confidence 35777776 766522221 1111 25788986 999874
No 113
>PHA00616 hypothetical protein
Probab=48.51 E-value=31 Score=23.24 Aligned_cols=27 Identities=22% Similarity=0.403 Sum_probs=20.9
Q ss_pred cccCCCCCCCCcccc-ChhhHHHHhhhhCCCC
Q 022025 141 PYNCPYAGSECSVTG-DIPTLVAHLKDDHQVD 171 (304)
Q Consensus 141 p~~CP~~g~~C~~~g-~~~~L~~Hl~~~H~~~ 171 (304)
|+.||. |+... ...+|..|++..|..+
T Consensus 1 pYqC~~----CG~~F~~~s~l~~H~r~~hg~~ 28 (44)
T PHA00616 1 MYQCLR----CGGIFRKKKEVIEHLLSVHKQN 28 (44)
T ss_pred CCccch----hhHHHhhHHHHHHHHHHhcCCC
Confidence 567875 77766 4589999999999864
No 114
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=47.44 E-value=4.7 Score=42.11 Aligned_cols=49 Identities=29% Similarity=0.740 Sum_probs=38.9
Q ss_pred cccCCCCeeeeccccccccccc-ccccccCeecccCcccc------cCCCCCCccCCC
Q 022025 46 SNNGVHELLECPVCTNLMYPPI-HQCPNGHTLCSNCKNRV------HNCCPTCRFDLG 96 (304)
Q Consensus 46 ~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~------~~~CP~Cr~~~~ 96 (304)
+.......++||||......|+ ..| -|.||..|+... ...||.|+..+.
T Consensus 14 vi~~~~k~lEc~ic~~~~~~p~~~kc--~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 14 VINAMQKILECPICLEHVKEPSLLKC--DHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred HHHHHhhhccCCceeEEeeccchhhh--hHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 3445567789999999999995 688 999999998754 257999986553
No 115
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=46.69 E-value=15 Score=25.42 Aligned_cols=33 Identities=24% Similarity=0.651 Sum_probs=19.0
Q ss_pred Ceeeecc--cccccccc----c--cccc-ccCeecccCcccc
Q 022025 52 ELLECPV--CTNLMYPP----I--HQCP-NGHTLCSNCKNRV 84 (304)
Q Consensus 52 ~~l~CpI--C~~~l~~P----i--~qC~-~GH~fC~~C~~~~ 84 (304)
+..-||- |..++... . ++|+ +|+.||..|...+
T Consensus 17 ~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 17 NIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp -CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 3347988 99887632 1 5688 7999999998764
No 116
>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=46.62 E-value=8.5 Score=26.39 Aligned_cols=42 Identities=21% Similarity=0.434 Sum_probs=19.5
Q ss_pred eeeecccccccccccccccccCeecccCcc-------cccCCCCCCccC
Q 022025 53 LLECPVCTNLMYPPIHQCPNGHTLCSNCKN-------RVHNCCPTCRFD 94 (304)
Q Consensus 53 ~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~-------~~~~~CP~Cr~~ 94 (304)
.|.||+-...+..|+..-.|-|.-|-+=.. .-.-.||.|.++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 378999999999998433338886543211 001369999763
No 117
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=45.87 E-value=18 Score=19.51 Aligned_cols=22 Identities=27% Similarity=0.667 Sum_probs=14.6
Q ss_pred cCCCCCCCCcccc-ChhhHHHHhhhhC
Q 022025 143 NCPYAGSECSVTG-DIPTLVAHLKDDH 168 (304)
Q Consensus 143 ~CP~~g~~C~~~g-~~~~L~~Hl~~~H 168 (304)
.|+. |+... ...+|..|+...|
T Consensus 2 ~C~~----C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 2 QCPI----CGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp E-SS----TS-EESSHHHHHHHHHHHS
T ss_pred CCcC----CCCcCCcHHHHHHHHHhhC
Confidence 4665 76665 4589999998776
No 118
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=45.69 E-value=11 Score=21.67 Aligned_cols=9 Identities=33% Similarity=1.006 Sum_probs=4.4
Q ss_pred CCCCCCccC
Q 022025 86 NCCPTCRFD 94 (304)
Q Consensus 86 ~~CP~Cr~~ 94 (304)
+.||.|..+
T Consensus 14 ~fC~~CG~~ 22 (23)
T PF13240_consen 14 KFCPNCGTP 22 (23)
T ss_pred cchhhhCCc
Confidence 345555443
No 119
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=44.46 E-value=5.8 Score=26.75 Aligned_cols=39 Identities=21% Similarity=0.379 Sum_probs=28.0
Q ss_pred CCCCCccCCCCccchHHHHHhhhccccCCCCCCCCccccCc
Q 022025 87 CCPTCRFDLGNIRCLALEKVAESLELPCKYQSLGCHDIFPY 127 (304)
Q Consensus 87 ~CP~Cr~~~~~~r~~~le~~l~~l~v~C~~~~~GC~~~~~~ 127 (304)
.||.|...........+...+.++-..|.|.+ |++.+..
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~~~~Y~qC~N~~--Cg~tfv~ 39 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLTRELYCQCTNPE--CGHTFVA 39 (47)
T ss_pred CcCCCCCeeEEEEchhhCcceEEEEEEECCCc--CCCEEEE
Confidence 49999887655556667777888889999864 6655443
No 120
>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=43.38 E-value=10 Score=35.53 Aligned_cols=42 Identities=26% Similarity=0.453 Sum_probs=19.2
Q ss_pred eeeecccccccccccccccc--c--CeecccCcccc---cCCCCCCccC
Q 022025 53 LLECPVCTNLMYPPIHQCPN--G--HTLCSNCKNRV---HNCCPTCRFD 94 (304)
Q Consensus 53 ~l~CpIC~~~l~~Pi~qC~~--G--H~fC~~C~~~~---~~~CP~Cr~~ 94 (304)
.-.||||...-.--++.=.. | +.+|+-|-..+ ...||.|...
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 34799999875544332221 4 57999998876 3689999664
No 121
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=43.07 E-value=14 Score=25.61 Aligned_cols=31 Identities=26% Similarity=0.572 Sum_probs=21.2
Q ss_pred eeec--cccccccc------ccccc-cccCeecccCcccc
Q 022025 54 LECP--VCTNLMYP------PIHQC-PNGHTLCSNCKNRV 84 (304)
Q Consensus 54 l~Cp--IC~~~l~~------Pi~qC-~~GH~fC~~C~~~~ 84 (304)
.-|| -|..++.. +.++| .+|+.||..|...+
T Consensus 19 ~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 19 KWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred cCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 3477 67665432 23678 67999999998765
No 122
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=40.83 E-value=25 Score=37.41 Aligned_cols=43 Identities=28% Similarity=0.677 Sum_probs=32.7
Q ss_pred CCCeeeeccccccccccccccc--------ccCeecccCcccc--cCCCCCCccC
Q 022025 50 VHELLECPVCTNLMYPPIHQCP--------NGHTLCSNCKNRV--HNCCPTCRFD 94 (304)
Q Consensus 50 l~~~l~CpIC~~~l~~Pi~qC~--------~GH~fC~~C~~~~--~~~CP~Cr~~ 94 (304)
....+.|..|..++.-| .|. .|...|..|-... ...||.|...
T Consensus 432 ys~~l~C~~Cg~v~~Cp--~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 432 YAPLLLCRDCGYIAECP--NCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred ccceeecccCCCcccCC--CCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 35677899999988877 453 3568999997652 4789999887
No 123
>PF05253 zf-U11-48K: U11-48K-like CHHC zinc finger; InterPro: IPR022776 This zinc binding domain [] has four conserved zinc chelating residues in a CHHC pattern. This domain is predicted to have an RNA-binding function []. ; PDB: 2VY5_A 2VY4_A.
Probab=40.59 E-value=5.1 Score=23.89 Aligned_cols=23 Identities=26% Similarity=0.496 Sum_probs=11.7
Q ss_pred ccCCCCCCCCccccCccchhcccccc
Q 022025 112 LPCKYQSLGCHDIFPYYGKLKHEQHC 137 (304)
Q Consensus 112 v~C~~~~~GC~~~~~~~~~~~He~~C 137 (304)
+.|||. -.-.++..+++.|...|
T Consensus 3 v~CPyn---~~H~v~~~~l~~Hi~~C 25 (27)
T PF05253_consen 3 VRCPYN---PSHRVPASELQKHIKKC 25 (27)
T ss_dssp EE-TTT---SS-EEEGGGHHHHHHHH
T ss_pred eeCCCC---CCcCcCHHHHHHHHHHc
Confidence 355552 34555666666666555
No 124
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=40.48 E-value=17 Score=23.63 Aligned_cols=23 Identities=22% Similarity=0.663 Sum_probs=14.3
Q ss_pred eccccccccc-cccccc-ccCeeccc
Q 022025 56 CPVCTNLMYP-PIHQCP-NGHTLCSN 79 (304)
Q Consensus 56 CpIC~~~l~~-Pi~qC~-~GH~fC~~ 79 (304)
|.+|.....- | +.|. ++..||..
T Consensus 1 C~~C~~~~~l~~-f~C~~C~~~FC~~ 25 (39)
T smart00154 1 CHFCRKKVGLTG-FKCRHCGNLFCGE 25 (39)
T ss_pred CcccCCcccccC-eECCccCCccccc
Confidence 4566665443 6 5676 67777765
No 125
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=40.00 E-value=4.1 Score=45.22 Aligned_cols=46 Identities=26% Similarity=0.736 Sum_probs=36.6
Q ss_pred CCCCeeeecccccccccc--cccccccCeecccCcccc---cCCCCCCccCCC
Q 022025 49 GVHELLECPVCTNLMYPP--IHQCPNGHTLCSNCKNRV---HNCCPTCRFDLG 96 (304)
Q Consensus 49 ~l~~~l~CpIC~~~l~~P--i~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 96 (304)
++.....|++|++++..- |++| ||.+|.+|...+ ...||.|....+
T Consensus 1149 ~~~~~~~c~ic~dil~~~~~I~~c--gh~~c~~c~~~~l~~~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1149 NLSGHFVCEICLDILRNQGGIAGC--GHEPCCRCDELWLYASSRCPICKSIKG 1199 (1394)
T ss_pred HhhcccchHHHHHHHHhcCCeeee--chhHhhhHHHHHHHHhccCcchhhhhh
Confidence 445666899999999943 6899 999999998854 478999986543
No 126
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.77 E-value=19 Score=32.21 Aligned_cols=39 Identities=26% Similarity=0.615 Sum_probs=27.2
Q ss_pred eccccccccccc-ccccccCeecccCcccccCCCCCCccCCC
Q 022025 56 CPVCTNLMYPPI-HQCPNGHTLCSNCKNRVHNCCPTCRFDLG 96 (304)
Q Consensus 56 CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~ 96 (304)
|-.|.+--..-+ +.| +-|.+|..|-.. ...||.|+.+..
T Consensus 161 Cr~C~~~~~~VlllPC-rHl~lC~~C~~~-~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPC-RHLCLCGICDES-LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecc-cceEeccccccc-CccCCCCcChhh
Confidence 888877544422 467 234799999876 368999988643
No 127
>smart00301 DM Doublesex DNA-binding motif.
Probab=39.64 E-value=26 Score=24.68 Aligned_cols=39 Identities=23% Similarity=0.437 Sum_probs=29.1
Q ss_pred CccccCccchhccccccCcccccCCCCCCCCccccChhhHHHH
Q 022025 121 CHDIFPYYGKLKHEQHCRFRPYNCPYAGSECSVTGDIPTLVAH 163 (304)
Q Consensus 121 C~~~~~~~~~~~He~~C~~~p~~CP~~g~~C~~~g~~~~L~~H 163 (304)
|.-.+....+..|-..|+|+.+.|+- |.....+..++..
T Consensus 8 CrnHg~~~~lKGHKr~C~~r~C~C~k----C~Li~~Rq~vma~ 46 (54)
T smart00301 8 CENHGVKVPLKGHKPECPFRDCECEK----CTLVEKRRALMAL 46 (54)
T ss_pred HhcCCCeeccCCcCCCCCCCCCcCCC----CcChHHHHHHHHH
Confidence 33344556788899999999999985 9887777666554
No 128
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=38.73 E-value=23 Score=37.18 Aligned_cols=9 Identities=33% Similarity=0.678 Sum_probs=5.0
Q ss_pred eeccccccc
Q 022025 55 ECPVCTNLM 63 (304)
Q Consensus 55 ~CpIC~~~l 63 (304)
.||-|....
T Consensus 3 ~Cp~Cg~~n 11 (645)
T PRK14559 3 ICPQCQFEN 11 (645)
T ss_pred cCCCCCCcC
Confidence 466666543
No 129
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=38.65 E-value=10 Score=40.61 Aligned_cols=43 Identities=28% Similarity=0.749 Sum_probs=0.0
Q ss_pred Ceeeeccccccccccccccc-cc-----CeecccCcccc-cCCCCCCccCCC
Q 022025 52 ELLECPVCTNLMYPPIHQCP-NG-----HTLCSNCKNRV-HNCCPTCRFDLG 96 (304)
Q Consensus 52 ~~l~CpIC~~~l~~Pi~qC~-~G-----H~fC~~C~~~~-~~~CP~Cr~~~~ 96 (304)
....||-|...-.-. .|+ || +.+|..|.... ...||.|.....
T Consensus 654 ~~r~Cp~Cg~~t~~~--~Cp~CG~~T~~~~~Cp~C~~~~~~~~C~~C~~~~~ 703 (900)
T PF03833_consen 654 GRRRCPKCGKETFYN--RCPECGSHTEPVYVCPDCGIEVEEDECPKCGRETT 703 (900)
T ss_dssp ----------------------------------------------------
T ss_pred ecccCcccCCcchhh--cCcccCCccccceeccccccccCccccccccccCc
Confidence 346799999874443 564 56 35899998876 368999988754
No 130
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=38.05 E-value=17 Score=26.04 Aligned_cols=32 Identities=28% Similarity=0.701 Sum_probs=15.6
Q ss_pred Ceeeeccccccccccc--cccc-ccCeecccCccc
Q 022025 52 ELLECPVCTNLMYPPI--HQCP-NGHTLCSNCKNR 83 (304)
Q Consensus 52 ~~l~CpIC~~~l~~Pi--~qC~-~GH~fC~~C~~~ 83 (304)
+.-.|.+|...|.--. ..|. +|++||+.|...
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 3447999999985322 4553 499999999874
No 131
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=37.90 E-value=22 Score=33.76 Aligned_cols=41 Identities=24% Similarity=0.461 Sum_probs=26.8
Q ss_pred eeeecccccccccccc-cc--ccc--CeecccCcccc---cCCCCCCcc
Q 022025 53 LLECPVCTNLMYPPIH-QC--PNG--HTLCSNCKNRV---HNCCPTCRF 93 (304)
Q Consensus 53 ~l~CpIC~~~l~~Pi~-qC--~~G--H~fC~~C~~~~---~~~CP~Cr~ 93 (304)
.-.||||...-.--++ .- ..| +..|+-|-..+ ...||.|..
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4479999987543322 21 245 46888888776 367888865
No 132
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=37.60 E-value=30 Score=35.11 Aligned_cols=42 Identities=26% Similarity=0.720 Sum_probs=30.5
Q ss_pred CCeeeeccccccccccccccc--------ccCeecccCcccc--cCCCCCCccC
Q 022025 51 HELLECPVCTNLMYPPIHQCP--------NGHTLCSNCKNRV--HNCCPTCRFD 94 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi~qC~--------~GH~fC~~C~~~~--~~~CP~Cr~~ 94 (304)
...+.|.-|..++.-| .|. .+...|..|-.+. ...||.|...
T Consensus 211 a~~~~C~~Cg~~~~C~--~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 211 SKNLLCRSCGYILCCP--NCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred CCeeEhhhCcCccCCC--CCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 4566788888888877 353 2457899997654 4789999775
No 133
>PLN02189 cellulose synthase
Probab=35.82 E-value=30 Score=38.05 Aligned_cols=42 Identities=21% Similarity=0.626 Sum_probs=31.3
Q ss_pred eecccccccc-----ccccccc-ccCeecccCcccc----cCCCCCCccCCC
Q 022025 55 ECPVCTNLMY-----PPIHQCP-NGHTLCSNCKNRV----HNCCPTCRFDLG 96 (304)
Q Consensus 55 ~CpIC~~~l~-----~Pi~qC~-~GH~fC~~C~~~~----~~~CP~Cr~~~~ 96 (304)
.|.||.+-+- .|-.-|. ||--+|+.|.+-- .+.||.|+....
T Consensus 36 ~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 36 VCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 7999999854 2334565 5888999998632 478999988753
No 134
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=34.84 E-value=31 Score=22.63 Aligned_cols=33 Identities=21% Similarity=0.691 Sum_probs=17.0
Q ss_pred ecc--ccccccccccccc-ccCeecccCcccccCCCC
Q 022025 56 CPV--CTNLMYPPIHQCP-NGHTLCSNCKNRVHNCCP 89 (304)
Q Consensus 56 CpI--C~~~l~~Pi~qC~-~GH~fC~~C~~~~~~~CP 89 (304)
|.+ |......| +.|. +|..||..=+..-.-.|+
T Consensus 1 C~~~~C~~~~~~~-~~C~~C~~~FC~~Hr~~e~H~C~ 36 (43)
T PF01428_consen 1 CSFPGCKKKDFLP-FKCKHCGKSFCLKHRLPEDHNCS 36 (43)
T ss_dssp -SSTTT--BCTSH-EE-TTTS-EE-TTTHSTTTCT-S
T ss_pred CccCcCcCccCCC-eECCCCCcccCccccCccccCCc
Confidence 455 88877766 5777 799999887654433443
No 135
>PF12773 DZR: Double zinc ribbon
Probab=34.72 E-value=33 Score=22.88 Aligned_cols=6 Identities=50% Similarity=1.541 Sum_probs=2.6
Q ss_pred CCCCcc
Q 022025 88 CPTCRF 93 (304)
Q Consensus 88 CP~Cr~ 93 (304)
||.|..
T Consensus 32 C~~Cg~ 37 (50)
T PF12773_consen 32 CPNCGA 37 (50)
T ss_pred CcCCcC
Confidence 444443
No 136
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=34.10 E-value=8.7 Score=24.23 Aligned_cols=15 Identities=20% Similarity=0.432 Sum_probs=6.9
Q ss_pred CccccChhhHHHHhh
Q 022025 151 CSVTGDIPTLVAHLK 165 (304)
Q Consensus 151 C~~~g~~~~L~~Hl~ 165 (304)
|+-......+..||+
T Consensus 10 C~R~v~a~RfA~HLe 24 (33)
T PF08209_consen 10 CGRPVAASRFAPHLE 24 (33)
T ss_dssp TSSEEEGGGHHHHHH
T ss_pred CcCCcchhhhHHHHH
Confidence 444444444455544
No 137
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=33.88 E-value=29 Score=25.87 Aligned_cols=35 Identities=23% Similarity=0.476 Sum_probs=19.5
Q ss_pred ccccccCcccccCCCCCCCCcccc-ChhhHHHHhhhh-CCC
Q 022025 132 KHEQHCRFRPYNCPYAGSECSVTG-DIPTLVAHLKDD-HQV 170 (304)
Q Consensus 132 ~He~~C~~~p~~CP~~g~~C~~~g-~~~~L~~Hl~~~-H~~ 170 (304)
.+...-......|+. |+... +...|..|++.. |..
T Consensus 41 ~~~~~~~~~~~~C~~----C~~~f~s~~~l~~Hm~~~~H~~ 77 (100)
T PF12756_consen 41 NYLRKKVKESFRCPY----CNKTFRSREALQEHMRSKHHKK 77 (100)
T ss_dssp --------SSEEBSS----SS-EESSHHHHHHHHHHTTTTC
T ss_pred cccccccCCCCCCCc----cCCCCcCHHHHHHHHcCccCCC
Confidence 343344444678886 76665 678999999975 553
No 138
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=33.84 E-value=34 Score=37.85 Aligned_cols=57 Identities=19% Similarity=0.505 Sum_probs=36.8
Q ss_pred CCCcccccccCCCCeeeecccccccc-----ccccccc-ccCeecccCccc----ccCCCCCCccCCC
Q 022025 39 GGKQGIYSNNGVHELLECPVCTNLMY-----PPIHQCP-NGHTLCSNCKNR----VHNCCPTCRFDLG 96 (304)
Q Consensus 39 ~~~~~~~~~~~l~~~l~CpIC~~~l~-----~Pi~qC~-~GH~fC~~C~~~----~~~~CP~Cr~~~~ 96 (304)
.|+.+...++.+... .|.||.+-+- .|-+-|. ||--+|+.|.+- ..+.||.|+....
T Consensus 4 ~~~~~~k~~~~~~~q-iCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 4 EGETGAKPMKHGGGQ-VCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCCCCCCCccccCCc-eeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 344444444444444 7999999754 2323452 478899999862 2478999988753
No 139
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=33.83 E-value=21 Score=35.07 Aligned_cols=34 Identities=24% Similarity=0.386 Sum_probs=25.5
Q ss_pred ccccCCCCCCCCccccCccchhccc-cccCcccccCCC
Q 022025 110 LELPCKYQSLGCHDIFPYYGKLKHE-QHCRFRPYNCPY 146 (304)
Q Consensus 110 l~v~C~~~~~GC~~~~~~~~~~~He-~~C~~~p~~CP~ 146 (304)
-.+.|++ +|...++..++.+|. ++|+++...|..
T Consensus 113 ~~~~C~~---~C~~~~~~~d~~~hl~~~C~~~~~~c~~ 147 (391)
T KOG0297|consen 113 DPLKCPH---RCGVQVPRDDLEDHLEAECPRRSLKCSL 147 (391)
T ss_pred CcccCcc---ccccccchHHHHHHHhcccccccccchh
Confidence 4677777 488888888888885 678888777765
No 140
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=32.65 E-value=21 Score=31.21 Aligned_cols=46 Identities=17% Similarity=0.201 Sum_probs=27.8
Q ss_pred CccCCCCccchHHHHHhhhccccCCCCCCCCccccCccchhccccc
Q 022025 91 CRFDLGNIRCLALEKVAESLELPCKYQSLGCHDIFPYYGKLKHEQH 136 (304)
Q Consensus 91 Cr~~~~~~r~~~le~~l~~l~v~C~~~~~GC~~~~~~~~~~~He~~ 136 (304)
|...+....-..-|+...-.+..||....||.|.+++.++.+|...
T Consensus 24 C~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~ 69 (198)
T PF03145_consen 24 CTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRD 69 (198)
T ss_dssp ---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHH
T ss_pred CcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHH
Confidence 4444444444455667777889999877899999999999999765
No 141
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=32.63 E-value=18 Score=26.97 Aligned_cols=45 Identities=16% Similarity=0.386 Sum_probs=30.1
Q ss_pred CCCCCccCCCCccchHHHHHhhhccccCCCCCCCCccccCccchhcc
Q 022025 87 CCPTCRFDLGNIRCLALEKVAESLELPCKYQSLGCHDIFPYYGKLKH 133 (304)
Q Consensus 87 ~CP~Cr~~~~~~r~~~le~~l~~l~v~C~~~~~GC~~~~~~~~~~~H 133 (304)
.||.|+........+.+...+.++...|.|- .|+..+...+-..|
T Consensus 3 ~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~--eCg~tF~t~es~s~ 47 (72)
T PRK09678 3 HCPLCQHAAHARTSRYITDTTKERYHQCQNV--NCSATFITYESVQR 47 (72)
T ss_pred cCCCCCCccEEEEChhcChhhheeeeecCCC--CCCCEEEEEEEEEE
Confidence 6999988763334455555677788888875 47766665555555
No 142
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.33 E-value=37 Score=27.52 Aligned_cols=38 Identities=26% Similarity=0.679 Sum_probs=26.6
Q ss_pred eecccccccccc------------cccccc-cCeecccCccc---ccCCCCCCc
Q 022025 55 ECPVCTNLMYPP------------IHQCPN-GHTLCSNCKNR---VHNCCPTCR 92 (304)
Q Consensus 55 ~CpIC~~~l~~P------------i~qC~~-GH~fC~~C~~~---~~~~CP~Cr 92 (304)
.|-.|...|..+ .|+|+. .+.||.+|-.- ....||.|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 499999887643 266753 67899998542 246788885
No 143
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=30.77 E-value=43 Score=31.06 Aligned_cols=23 Identities=30% Similarity=0.397 Sum_probs=17.6
Q ss_pred ccccCCCCeeeeccccccccccc
Q 022025 45 YSNNGVHELLECPVCTNLMYPPI 67 (304)
Q Consensus 45 ~~~~~l~~~l~CpIC~~~l~~Pi 67 (304)
+-..++...|-|+-|.+-|..||
T Consensus 175 sdaRevk~eLyClrChD~mgipi 197 (332)
T KOG2272|consen 175 SDAREVKGELYCLRCHDKMGIPI 197 (332)
T ss_pred chhhhhccceeccccccccCCcc
Confidence 44456777888888888888886
No 144
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=30.49 E-value=15 Score=22.59 Aligned_cols=20 Identities=30% Similarity=0.958 Sum_probs=9.6
Q ss_pred CeecccCcccc-------cCCCCCCcc
Q 022025 74 HTLCSNCKNRV-------HNCCPTCRF 93 (304)
Q Consensus 74 H~fC~~C~~~~-------~~~CP~Cr~ 93 (304)
|.||..|-.+. ...||.|+.
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 66777776643 245777753
No 145
>PRK00420 hypothetical protein; Validated
Probab=29.71 E-value=30 Score=28.04 Aligned_cols=25 Identities=24% Similarity=0.660 Sum_probs=17.0
Q ss_pred eeecccccccccccccccccCeecccCcc
Q 022025 54 LECPVCTNLMYPPIHQCPNGHTLCSNCKN 82 (304)
Q Consensus 54 l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~ 82 (304)
-.||+|..+|..- ..|+.+|..|-.
T Consensus 24 ~~CP~Cg~pLf~l----k~g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFEL----KDGEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceec----CCCceECCCCCC
Confidence 4799999776642 237777666654
No 146
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=28.91 E-value=37 Score=32.49 Aligned_cols=43 Identities=30% Similarity=0.796 Sum_probs=33.4
Q ss_pred eeecccccccc---cccccccccCeecccCcccc---cCCCCCCccCCC
Q 022025 54 LECPVCTNLMY---PPIHQCPNGHTLCSNCKNRV---HNCCPTCRFDLG 96 (304)
Q Consensus 54 l~CpIC~~~l~---~Pi~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 96 (304)
-.||+|.+.+. .+.+.|++|+..|-.|.... ..+||.||.+..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 36999999873 33467888999999888765 478999997653
No 147
>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=28.90 E-value=18 Score=24.66 Aligned_cols=31 Identities=19% Similarity=0.514 Sum_probs=19.9
Q ss_pred CeeeecccccccccccccccccCeecccCcc
Q 022025 52 ELLECPVCTNLMYPPIHQCPNGHTLCSNCKN 82 (304)
Q Consensus 52 ~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~ 82 (304)
+=|.|..|...|.+..+.-.+|..+|..|..
T Consensus 25 ~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~ 55 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQ 55 (58)
T ss_dssp TTSBETTTTCBTTTSSEEEETTEEEEHHHHH
T ss_pred cccccCCCCCccCCCeeEeECCEEECHHHHh
Confidence 4467777877777553333457777777754
No 148
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=28.02 E-value=30 Score=20.20 Aligned_cols=6 Identities=50% Similarity=1.625 Sum_probs=2.6
Q ss_pred CCCCCc
Q 022025 87 CCPTCR 92 (304)
Q Consensus 87 ~CP~Cr 92 (304)
.||.|.
T Consensus 18 fC~~CG 23 (26)
T PF13248_consen 18 FCPNCG 23 (26)
T ss_pred cChhhC
Confidence 344443
No 149
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=27.77 E-value=33 Score=34.71 Aligned_cols=69 Identities=26% Similarity=0.504 Sum_probs=36.9
Q ss_pred CCCeeeecccccccccccccccc---cCeecccCcccc------------c---CCCCCCccCCCCcc-ch-------HH
Q 022025 50 VHELLECPVCTNLMYPPIHQCPN---GHTLCSNCKNRV------------H---NCCPTCRFDLGNIR-CL-------AL 103 (304)
Q Consensus 50 l~~~l~CpIC~~~l~~Pi~qC~~---GH~fC~~C~~~~------------~---~~CP~Cr~~~~~~r-~~-------~l 103 (304)
|.+++-|..|..+-.+- |.. --.||..|+..+ . ..||.|..++.... +. .-
T Consensus 2 l~~L~fC~~C~~irc~~---c~~~Ei~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~C~~~L~~~~~~~~~~~~~~~~ 78 (483)
T PF05502_consen 2 LEELYFCEHCHKIRCPR---CVSEEIDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLSVRASDTPPSPPDPSS 78 (483)
T ss_pred cccceecccccccCChh---hcccccceeECccccccCChhhheeccceeccccccCCCCCCcceeEecccccccccccc
Confidence 45667788777754431 211 124777776533 0 35999988765311 10 11
Q ss_pred HHHhhhccccCCCCCCCCcccc
Q 022025 104 EKVAESLELPCKYQSLGCHDIF 125 (304)
Q Consensus 104 e~~l~~l~v~C~~~~~GC~~~~ 125 (304)
...-..+.+.|.| |.|.-
T Consensus 79 ~~~~~~~~l~C~~----C~Wss 96 (483)
T PF05502_consen 79 DSGGKPYYLSCSY----CRWSS 96 (483)
T ss_pred cCCCCCEEEECCC----ceeec
Confidence 1122345667876 88853
No 150
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.31 E-value=18 Score=35.51 Aligned_cols=38 Identities=32% Similarity=0.824 Sum_probs=27.1
Q ss_pred eeecccccccc-----cccccccccCeecccCcccc-----c-CCCCCCcc
Q 022025 54 LECPVCTNLMY-----PPIHQCPNGHTLCSNCKNRV-----H-NCCPTCRF 93 (304)
Q Consensus 54 l~CpIC~~~l~-----~Pi~qC~~GH~fC~~C~~~~-----~-~~CP~Cr~ 93 (304)
..|.||-+..- .||-.| ||+|=..|+..+ . ..||.|+-
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~c--Ghifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTC--GHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEeccCCccccccccccch--hhHHHHHHHHHHHccCCccCCCCceee
Confidence 47999955432 234457 999999998876 2 47999983
No 151
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=27.01 E-value=54 Score=20.23 Aligned_cols=9 Identities=33% Similarity=0.852 Sum_probs=6.3
Q ss_pred CCCCCCccC
Q 022025 86 NCCPTCRFD 94 (304)
Q Consensus 86 ~~CP~Cr~~ 94 (304)
..||.|..+
T Consensus 18 ~~CP~Cg~~ 26 (33)
T cd00350 18 WVCPVCGAP 26 (33)
T ss_pred CcCcCCCCc
Confidence 478888664
No 152
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=26.64 E-value=31 Score=24.23 Aligned_cols=36 Identities=28% Similarity=0.661 Sum_probs=20.3
Q ss_pred eeeccccccc--cccccccc-ccCeecccCcccccCCCCC
Q 022025 54 LECPVCTNLM--YPPIHQCP-NGHTLCSNCKNRVHNCCPT 90 (304)
Q Consensus 54 l~CpIC~~~l--~~Pi~qC~-~GH~fC~~C~~~~~~~CP~ 90 (304)
-.|++|.+.| .+.|++|+ ||-..=+.|..+. ..|-.
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~-g~C~~ 44 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA-GGCIN 44 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhhC-CceEe
Confidence 3699999999 46666664 2422223455443 34443
No 153
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=26.36 E-value=31 Score=18.84 Aligned_cols=20 Identities=25% Similarity=0.632 Sum_probs=13.5
Q ss_pred cCCCCCCCCccccC-hhhHHHHhhh
Q 022025 143 NCPYAGSECSVTGD-IPTLVAHLKD 166 (304)
Q Consensus 143 ~CP~~g~~C~~~g~-~~~L~~Hl~~ 166 (304)
.||. |+.... ...|..|++.
T Consensus 2 ~C~~----C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 2 KCPI----CGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EETT----TTEEESSHHHHHHHHHH
T ss_pred CCCC----CCCccCCHHHHHHHHhH
Confidence 4664 777663 4788888875
No 154
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=26.31 E-value=30 Score=27.97 Aligned_cols=13 Identities=31% Similarity=0.968 Sum_probs=11.0
Q ss_pred cccccccCeeccc
Q 022025 67 IHQCPNGHTLCSN 79 (304)
Q Consensus 67 i~qC~~GH~fC~~ 79 (304)
+.+|.|||.||..
T Consensus 24 ~vkc~CGh~f~d~ 36 (112)
T PF08882_consen 24 VVKCDCGHEFCDA 36 (112)
T ss_pred eeeccCCCeecCh
Confidence 6789999999865
No 155
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=26.10 E-value=59 Score=19.09 Aligned_cols=20 Identities=25% Similarity=0.459 Sum_probs=16.0
Q ss_pred ccCCCCCCCCccccChhhHHHHhh
Q 022025 142 YNCPYAGSECSVTGDIPTLVAHLK 165 (304)
Q Consensus 142 ~~CP~~g~~C~~~g~~~~L~~Hl~ 165 (304)
+.||. |++..+...+..|+.
T Consensus 2 v~CPi----C~~~v~~~~in~HLD 21 (26)
T smart00734 2 VQCPV----CFREVPENLINSHLD 21 (26)
T ss_pred CcCCC----CcCcccHHHHHHHHH
Confidence 56886 888887788888886
No 156
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=25.83 E-value=38 Score=27.15 Aligned_cols=36 Identities=39% Similarity=0.718 Sum_probs=18.0
Q ss_pred eecccCcccccCCCCCCccCCCCccchHHHHHhhhccccCCCC
Q 022025 75 TLCSNCKNRVHNCCPTCRFDLGNIRCLALEKVAESLELPCKYQ 117 (304)
Q Consensus 75 ~fC~~C~~~~~~~CP~Cr~~~~~~r~~~le~~l~~l~v~C~~~ 117 (304)
.+..+|..+ .||.|...-. ..=++++.+.+ ++|+|.
T Consensus 53 ~~~~SCk~R---~CP~C~~~~~---~~W~~~~~~~l-l~~~y~ 88 (111)
T PF14319_consen 53 IVYNSCKNR---HCPSCQAKAT---EQWIEKQREDL-LPVPYF 88 (111)
T ss_pred EecCcccCc---CCCCCCChHH---HHHHHHHHhhC-CCCCeE
Confidence 466666554 5888855311 11233333333 567763
No 157
>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 PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=25.03 E-value=52 Score=31.40 Aligned_cols=42 Identities=21% Similarity=0.537 Sum_probs=27.1
Q ss_pred Ceeeecccccccccccc--ccccc--CeecccCcccc---cCCCCCCcc
Q 022025 52 ELLECPVCTNLMYPPIH--QCPNG--HTLCSNCKNRV---HNCCPTCRF 93 (304)
Q Consensus 52 ~~l~CpIC~~~l~~Pi~--qC~~G--H~fC~~C~~~~---~~~CP~Cr~ 93 (304)
..-.||||...-.--+. .=..| +..|+-|-..+ ...||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 34579999987543221 11335 46888888776 367888864
No 159
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=24.93 E-value=59 Score=22.73 Aligned_cols=28 Identities=29% Similarity=0.441 Sum_probs=18.1
Q ss_pred cccccCCCCCCCCccccCh-hhHHHHhhhhCCC
Q 022025 139 FRPYNCPYAGSECSVTGDI-PTLVAHLKDDHQV 170 (304)
Q Consensus 139 ~~p~~CP~~g~~C~~~g~~-~~L~~Hl~~~H~~ 170 (304)
..|-.||. |+-+.+. .+|..|++..|..
T Consensus 22 ~~PatCP~----C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 22 EQPATCPI----CGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp S--EE-TT----T--EESSHHHHHHHHHHHTTT
T ss_pred CCCCCCCc----chhhccchhhHHHHHHHHhcc
Confidence 34678887 8777644 7999999999964
No 160
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=24.73 E-value=27 Score=33.35 Aligned_cols=79 Identities=24% Similarity=0.361 Sum_probs=42.4
Q ss_pred eeecccccccccccccccc-ccccccccCCCCCccccccc------CCCCeeeecccccccc---ccc-ccccccCeecc
Q 022025 10 EVVESDHTVINYDIKAESN-TALTKTSFGLGGKQGIYSNN------GVHELLECPVCTNLMY---PPI-HQCPNGHTLCS 78 (304)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~------~l~~~l~CpIC~~~l~---~Pi-~qC~~GH~fC~ 78 (304)
+++++..|..+.-..+.++ ..-+-+|+. +...++.- .....|.|||=.+.-+ +|+ +.| ||++=.
T Consensus 289 ~~v~tG~iaf~~l~k~~si~~~kHvdWT~---~~eLP~eIklp~~~hfHs~FiCPVlKe~~t~ENpP~ml~C--gHVIsk 363 (396)
T COG5109 289 ELVETGTIAFLQLSKSGSILFDKHVDWTD---DSELPMEIKLPKGRHFHSLFICPVLKELCTDENPPVMLEC--GHVISK 363 (396)
T ss_pred HHHHhhhHHHHHHHHhhhHHHhhccCccC---CCCCceEEecCCcccccceeeccccHhhhcccCCCeeeec--cceeeH
Confidence 3444444444444444444 223334652 22333322 3567899999777654 565 577 998755
Q ss_pred cCcccc------cCCCCCCcc
Q 022025 79 NCKNRV------HNCCPTCRF 93 (304)
Q Consensus 79 ~C~~~~------~~~CP~Cr~ 93 (304)
.-..++ .-+||.|-.
T Consensus 364 eal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 364 EALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred HHHHHHhhcCcEEeeCCCCCc
Confidence 544433 245777733
No 161
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=24.31 E-value=17 Score=35.92 Aligned_cols=48 Identities=19% Similarity=0.293 Sum_probs=31.8
Q ss_pred ccccCCCCeeeecccccccccccccccccCeecccCcccccCCCCCCccCCC
Q 022025 45 YSNNGVHELLECPVCTNLMYPPIHQCPNGHTLCSNCKNRVHNCCPTCRFDLG 96 (304)
Q Consensus 45 ~~~~~l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~ 96 (304)
.-..+...++.|..|...+.||..-- -| -| .||-.+..+||.|.+.|+
T Consensus 259 ~~i~n~iGdyiCqLCK~kYeD~F~LA--QH-rC-~RIV~vEYrCPEC~KVFs 306 (500)
T KOG3993|consen 259 AGIPNVIGDYICQLCKEKYEDAFALA--QH-RC-PRIVHVEYRCPECDKVFS 306 (500)
T ss_pred ccCcccHHHHHHHHHHHhhhhHHHHh--hc-cC-CeeEEeeecCCccccccc
Confidence 34466778899999999999994110 11 11 234455578999988764
No 162
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=23.81 E-value=30 Score=28.76 Aligned_cols=22 Identities=18% Similarity=0.499 Sum_probs=14.8
Q ss_pred ccccccccccccccccCeecccC
Q 022025 58 VCTNLMYPPIHQCPNGHTLCSNC 80 (304)
Q Consensus 58 IC~~~l~~Pi~qC~~GH~fC~~C 80 (304)
||...-.. +..|.|||.||..=
T Consensus 62 i~qs~~~r-v~rcecghsf~d~r 83 (165)
T COG4647 62 ICQSAQKR-VIRCECGHSFGDYR 83 (165)
T ss_pred EEeccccc-EEEEeccccccChh
Confidence 45554444 56899999998653
No 163
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=23.64 E-value=38 Score=28.23 Aligned_cols=22 Identities=27% Similarity=0.970 Sum_probs=16.8
Q ss_pred eecccccccccccccccccCeecccCc
Q 022025 55 ECPVCTNLMYPPIHQCPNGHTLCSNCK 81 (304)
Q Consensus 55 ~CpIC~~~l~~Pi~qC~~GH~fC~~C~ 81 (304)
+||.|..+|.. -.|-+||..|-
T Consensus 30 hCp~Cg~PLF~-----KdG~v~CPvC~ 51 (131)
T COG1645 30 HCPKCGTPLFR-----KDGEVFCPVCG 51 (131)
T ss_pred hCcccCCccee-----eCCeEECCCCC
Confidence 79999987654 33888877776
No 164
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=23.18 E-value=60 Score=20.59 Aligned_cols=30 Identities=13% Similarity=0.413 Sum_probs=14.4
Q ss_pred eeeecccccccccccccccccCeecccCcc
Q 022025 53 LLECPVCTNLMYPPIHQCPNGHTLCSNCKN 82 (304)
Q Consensus 53 ~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~ 82 (304)
...|--|...+.+..+.=.-++.+|..|+.
T Consensus 3 ~~~C~eC~~~f~dSyL~~~F~~~VCD~CRD 32 (34)
T PF01286_consen 3 YPKCDECGKPFMDSYLLNNFDLPVCDKCRD 32 (34)
T ss_dssp -EE-TTT--EES-SSCCCCTS-S--TTT-S
T ss_pred CchHhHhCCHHHHHHHHHhCCccccccccC
Confidence 457888888888775444457778888764
No 165
>PRK05580 primosome assembly protein PriA; Validated
Probab=23.08 E-value=63 Score=34.09 Aligned_cols=42 Identities=24% Similarity=0.604 Sum_probs=28.0
Q ss_pred CCeeeeccccccccccccccc--------ccCeecccCcccc--cCCCCCCccC
Q 022025 51 HELLECPVCTNLMYPPIHQCP--------NGHTLCSNCKNRV--HNCCPTCRFD 94 (304)
Q Consensus 51 ~~~l~CpIC~~~l~~Pi~qC~--------~GH~fC~~C~~~~--~~~CP~Cr~~ 94 (304)
...+.|.-|...++-| .|. .+...|..|-.+. ...||.|...
T Consensus 379 ~~~~~C~~Cg~~~~C~--~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 379 APFLLCRDCGWVAECP--HCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred CCceEhhhCcCccCCC--CCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCC
Confidence 3456677777776655 242 2446899997653 4689999775
No 166
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=22.90 E-value=37 Score=31.00 Aligned_cols=18 Identities=28% Similarity=0.621 Sum_probs=13.5
Q ss_pred CCCeeeeccccccccccc
Q 022025 50 VHELLECPVCTNLMYPPI 67 (304)
Q Consensus 50 l~~~l~CpIC~~~l~~Pi 67 (304)
+.-.|.|+||+.+|.+|+
T Consensus 257 v~~GfvCsVCLsvfc~p~ 274 (296)
T COG5242 257 VLLGFVCSVCLSVFCRPV 274 (296)
T ss_pred EEEeeehhhhheeecCCc
Confidence 445578999998887774
No 167
>PLN02436 cellulose synthase A
Probab=22.82 E-value=47 Score=36.75 Aligned_cols=42 Identities=21% Similarity=0.714 Sum_probs=31.0
Q ss_pred eecccccccc-----ccccccc-ccCeecccCcccc----cCCCCCCccCCC
Q 022025 55 ECPVCTNLMY-----PPIHQCP-NGHTLCSNCKNRV----HNCCPTCRFDLG 96 (304)
Q Consensus 55 ~CpIC~~~l~-----~Pi~qC~-~GH~fC~~C~~~~----~~~CP~Cr~~~~ 96 (304)
.|.||.+-+- .|-+-|. ||--+|+.|.+-- .+.||.|+....
T Consensus 38 iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 38 TCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 7999999753 2434564 5888999998632 478999988754
No 168
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=22.63 E-value=48 Score=26.16 Aligned_cols=23 Identities=22% Similarity=0.781 Sum_probs=15.3
Q ss_pred eecccCcccc-------cCCCCCCccCCCC
Q 022025 75 TLCSNCKNRV-------HNCCPTCRFDLGN 97 (304)
Q Consensus 75 ~fC~~C~~~~-------~~~CP~Cr~~~~~ 97 (304)
+.|.-|...+ ...||.|+.+++.
T Consensus 63 iiCGvC~~~LT~~EY~~~~~Cp~C~spFNp 92 (105)
T COG4357 63 IICGVCRKLLTRAEYGMCGSCPYCQSPFNP 92 (105)
T ss_pred EEhhhhhhhhhHHHHhhcCCCCCcCCCCCc
Confidence 5666666543 2578999888764
No 169
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=22.55 E-value=84 Score=19.63 Aligned_cols=9 Identities=33% Similarity=0.892 Sum_probs=6.4
Q ss_pred CCCCCCccC
Q 022025 86 NCCPTCRFD 94 (304)
Q Consensus 86 ~~CP~Cr~~ 94 (304)
..||.|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 578888664
No 170
>PF15616 TerY-C: TerY-C metal binding domain
Probab=22.53 E-value=52 Score=27.39 Aligned_cols=46 Identities=22% Similarity=0.467 Sum_probs=32.8
Q ss_pred ccCCCCeeeecccccccccccccccccCeecccCcccccCCCCCCccCCC
Q 022025 47 NNGVHELLECPVCTNLMYPPIHQCPNGHTLCSNCKNRVHNCCPTCRFDLG 96 (304)
Q Consensus 47 ~~~l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~ 96 (304)
.++|...--||-|....--. .|.||+++|-.=-. ...||.|.....
T Consensus 71 tseL~g~PgCP~CGn~~~fa--~C~CGkl~Ci~g~~--~~~CPwCg~~g~ 116 (131)
T PF15616_consen 71 TSELIGAPGCPHCGNQYAFA--VCGCGKLFCIDGEG--EVTCPWCGNEGS 116 (131)
T ss_pred hHHhcCCCCCCCCcChhcEE--EecCCCEEEeCCCC--CEECCCCCCeee
Confidence 45666667899999876654 47779999854322 368999987643
No 171
>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=22.10 E-value=38 Score=32.99 Aligned_cols=11 Identities=45% Similarity=0.942 Sum_probs=8.1
Q ss_pred CCCCCCccCCC
Q 022025 86 NCCPTCRFDLG 96 (304)
Q Consensus 86 ~~CP~Cr~~~~ 96 (304)
..||+||..+.
T Consensus 341 ~~CPtCRa~FC 351 (358)
T PF10272_consen 341 CPCPTCRAKFC 351 (358)
T ss_pred CCCCCCcccce
Confidence 46888988764
No 172
>PF00751 DM: DM DNA binding domain; InterPro: IPR001275 This domain was first discovered in the doublesex proteins of Drosophila melanogaster and is also seen in proteins from Caenorhabditis elegans []. In D. melanogaster the doublesex gene controls somatic sexual differentiation by producing alternatively spliced mRNAs encoding related sex-specific polypeptides []. These proteins are believed to function as transcription factors on downstream sex-determination genes, especially on neuroblast differentiation and yolk protein genes transcription [, ]. The DM domain binds DNA as a dimer, allowing the recognition of pseudopalindromic sequences [, , ]. The NMR analysis of the DSX DM domain [] revealed a novel zinc module containing 'intertwined' CCHC and HCCC zinc-binding sites. The recognition of the DNA requires the carboxy-terminal basic tail which contacts the minor groove of the target sequence.; GO: 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0007548 sex differentiation, 0005634 nucleus; PDB: 1LPV_A.
Probab=21.59 E-value=36 Score=23.20 Aligned_cols=29 Identities=21% Similarity=0.414 Sum_probs=16.0
Q ss_pred cCccchhccccccCcccccCCCCCCCCccccCh
Q 022025 125 FPYYGKLKHEQHCRFRPYNCPYAGSECSVTGDI 157 (304)
Q Consensus 125 ~~~~~~~~He~~C~~~p~~CP~~g~~C~~~g~~ 157 (304)
+....+..|...|+|+.+.|.. |.....+
T Consensus 12 G~~~~lKgHk~~C~~~~C~C~k----C~li~eR 40 (47)
T PF00751_consen 12 GVIVPLKGHKRYCPFRDCQCDK----CALIAER 40 (47)
T ss_dssp T---TTTT-GGG-TTTT--SHH----HHHHHHH
T ss_pred CcccchhhhccccCcCCCcCCC----CcCcHHH
Confidence 3456678899999999999964 6555433
No 173
>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=21.28 E-value=49 Score=22.50 Aligned_cols=30 Identities=27% Similarity=0.666 Sum_probs=19.8
Q ss_pred eecccccccccc--ccccc-ccCeecccCcccc
Q 022025 55 ECPVCTNLMYPP--IHQCP-NGHTLCSNCKNRV 84 (304)
Q Consensus 55 ~CpIC~~~l~~P--i~qC~-~GH~fC~~C~~~~ 84 (304)
.|++|...|..- -..|. +|++||..|....
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 588887766532 13443 3999999998753
No 174
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.07 E-value=64 Score=29.92 Aligned_cols=55 Identities=18% Similarity=0.379 Sum_probs=38.9
Q ss_pred CCcccccccCCCCeeeeccccccccccc-----ccccccCeecccCcccc-cCCCCCCccCCC
Q 022025 40 GKQGIYSNNGVHELLECPVCTNLMYPPI-----HQCPNGHTLCSNCKNRV-HNCCPTCRFDLG 96 (304)
Q Consensus 40 ~~~~~~~~~~l~~~l~CpIC~~~l~~Pi-----~qC~~GH~fC~~C~~~~-~~~CP~Cr~~~~ 96 (304)
|+.+....+--...|.|||=...|..-. .+| ||+|=.+-+.++ ...|++|...+.
T Consensus 98 gD~~~~~~D~~~a~fiCPvtgleMng~~~F~~l~~C--GcV~SerAlKeikas~C~~C~a~y~ 158 (293)
T KOG3113|consen 98 GDKGNKHDDTQRARFICPVTGLEMNGKYRFCALRCC--GCVFSERALKEIKASVCHVCGAAYQ 158 (293)
T ss_pred cccCccccccccceeecccccceecceEEEEEEecc--ceeccHHHHHHhhhccccccCCccc
Confidence 3443344445578899999998888642 256 999877766655 378999999865
No 175
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=20.97 E-value=56 Score=25.89 Aligned_cols=36 Identities=14% Similarity=0.421 Sum_probs=26.0
Q ss_pred ccccCCCCeeeecccccccc-cccccccccCeecccC
Q 022025 45 YSNNGVHELLECPVCTNLMY-PPIHQCPNGHTLCSNC 80 (304)
Q Consensus 45 ~~~~~l~~~l~CpIC~~~l~-~Pi~qC~~GH~fC~~C 80 (304)
.++-.-.+.|+|..|+.+-- ..+-.=..|+.+|..|
T Consensus 62 ~ViP~q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 62 RVIPKQADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred EEecCCCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 34455578899999998865 3333334689999998
No 176
>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=20.94 E-value=70 Score=24.76 Aligned_cols=11 Identities=18% Similarity=0.474 Sum_probs=8.4
Q ss_pred CCCCCCccCCC
Q 022025 86 NCCPTCRFDLG 96 (304)
Q Consensus 86 ~~CP~Cr~~~~ 96 (304)
.+|..|+++++
T Consensus 59 GrCr~C~~~I~ 69 (92)
T PF06750_consen 59 GRCRYCGAPIP 69 (92)
T ss_pred CCCcccCCCCC
Confidence 67888887765
No 177
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=20.47 E-value=41 Score=25.45 Aligned_cols=42 Identities=19% Similarity=0.576 Sum_probs=15.7
Q ss_pred eecccccccc-----ccccccc-ccCeecccCccc----ccCCCCCCccCCC
Q 022025 55 ECPVCTNLMY-----PPIHQCP-NGHTLCSNCKNR----VHNCCPTCRFDLG 96 (304)
Q Consensus 55 ~CpIC~~~l~-----~Pi~qC~-~GH~fC~~C~~~----~~~~CP~Cr~~~~ 96 (304)
.|.||.+-+- .+..-|. |+-.+|+.|.+- -...||.|+.+..
T Consensus 11 iCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 11 ICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred ccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 5999998653 2323442 367889999862 2478999987654
No 178
>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=20.31 E-value=18 Score=30.28 Aligned_cols=31 Identities=23% Similarity=0.641 Sum_probs=23.8
Q ss_pred eeeeccccccccc--cc--cccccc-----CeecccCcccc
Q 022025 53 LLECPVCTNLMYP--PI--HQCPNG-----HTLCSNCKNRV 84 (304)
Q Consensus 53 ~l~CpIC~~~l~~--Pi--~qC~~G-----H~fC~~C~~~~ 84 (304)
..+|.||++-+.. -+ +.|. | |.||..|..++
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~-g~lnLEkmfc~~C~~rw 65 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDG-GTLNLEKMFCADCDKRW 65 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecC-CeehHHHHHHHHHHHHH
Confidence 6789999998876 33 3552 2 67999999987
Done!