Query 019539
Match_columns 339
No_of_seqs 311 out of 1445
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 02:34:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019539.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019539hhsearch_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 2.8E-54 6.1E-59 411.1 14.5 258 67-325 41-299 (299)
2 PF03145 Sina: Seven in absent 100.0 1.2E-43 2.6E-48 321.5 12.6 198 119-318 1-198 (198)
3 cd03829 Sina Seven in absentia 100.0 4.3E-39 9.3E-44 265.1 3.0 125 192-319 2-127 (127)
4 KOG0297 TNF receptor-associate 99.3 8.4E-12 1.8E-16 124.4 7.4 116 70-192 17-141 (391)
5 PF14835 zf-RING_6: zf-RING of 98.5 4E-08 8.6E-13 73.1 0.8 56 70-127 3-64 (65)
6 KOG0287 Postreplication repair 98.5 2.1E-08 4.5E-13 96.2 -1.1 70 60-131 8-85 (442)
7 TIGR00599 rad18 DNA repair pro 98.4 9.1E-08 2E-12 95.2 1.6 64 66-131 18-88 (397)
8 PF15227 zf-C3HC4_4: zinc fing 98.4 8E-08 1.7E-12 66.1 0.7 34 77-112 1-42 (42)
9 smart00504 Ubox Modified RING 98.3 3.2E-07 6.9E-12 67.6 2.5 55 74-130 1-62 (63)
10 PLN03208 E3 ubiquitin-protein 98.2 3.6E-07 7.7E-12 82.4 1.0 45 71-117 15-79 (193)
11 KOG0320 Predicted E3 ubiquitin 98.1 5.2E-07 1.1E-11 79.9 -0.5 44 72-117 129-178 (187)
12 PF13920 zf-C3HC4_3: Zinc fing 98.0 1.4E-06 3E-11 61.9 0.8 43 73-117 1-48 (50)
13 KOG0823 Predicted E3 ubiquitin 98.0 3.2E-06 6.8E-11 77.8 3.4 47 70-118 43-96 (230)
14 PF04564 U-box: U-box domain; 97.9 3.7E-06 8E-11 64.5 1.8 59 72-132 2-68 (73)
15 PF13923 zf-C3HC4_2: Zinc fing 97.8 7.1E-06 1.5E-10 55.2 1.3 34 77-112 1-39 (39)
16 COG5432 RAD18 RING-finger-cont 97.8 3.6E-06 7.7E-11 79.7 -0.2 52 64-117 15-70 (391)
17 PF02176 zf-TRAF: TRAF-type zi 97.8 7.5E-06 1.6E-10 59.8 1.6 53 130-184 7-60 (60)
18 PF14634 zf-RING_5: zinc-RING 97.7 6.5E-06 1.4E-10 56.9 0.1 37 76-114 1-44 (44)
19 PHA02929 N1R/p28-like protein; 97.7 1.1E-05 2.4E-10 75.3 0.8 45 72-118 172-228 (238)
20 PF13639 zf-RING_2: Ring finge 97.6 1.6E-05 3.6E-10 54.7 0.8 36 76-113 2-44 (44)
21 PF00097 zf-C3HC4: Zinc finger 97.6 1.8E-05 3.9E-10 53.5 0.9 34 77-112 1-41 (41)
22 KOG2177 Predicted E3 ubiquitin 97.6 2.5E-05 5.4E-10 71.9 1.1 67 68-136 7-78 (386)
23 cd00162 RING RING-finger (Real 97.4 3.7E-05 8.1E-10 51.5 0.4 38 76-115 1-44 (45)
24 KOG0317 Predicted E3 ubiquitin 97.3 5E-05 1.1E-09 72.0 0.3 46 71-118 236-285 (293)
25 PHA02926 zinc finger-like prot 97.2 5.9E-05 1.3E-09 69.3 -0.8 46 71-118 167-231 (242)
26 KOG2164 Predicted E3 ubiquitin 97.1 0.00011 2.4E-09 74.5 0.1 43 74-118 186-237 (513)
27 PF13445 zf-RING_UBOX: RING-ty 97.1 0.00011 2.3E-09 50.9 -0.4 26 77-105 1-31 (43)
28 smart00184 RING Ring finger. E 96.9 0.00025 5.3E-09 45.7 0.2 34 77-112 1-39 (39)
29 TIGR00570 cdk7 CDK-activating 96.9 0.0005 1.1E-08 66.4 2.2 42 74-117 3-54 (309)
30 KOG0311 Predicted E3 ubiquitin 96.8 5.4E-05 1.2E-09 73.6 -5.2 59 60-120 29-93 (381)
31 COG5574 PEX10 RING-finger-cont 96.7 0.00035 7.6E-09 65.6 -0.0 43 72-116 213-261 (271)
32 PLN03086 PRLI-interacting fact 96.6 0.0028 6.1E-08 66.0 5.3 106 70-187 403-536 (567)
33 KOG0978 E3 ubiquitin ligase in 96.6 0.00046 1E-08 72.9 -0.6 47 70-118 639-690 (698)
34 PF07800 DUF1644: Protein of u 96.4 0.0057 1.2E-07 53.6 5.5 29 161-191 106-134 (162)
35 KOG4159 Predicted E3 ubiquitin 95.9 0.0029 6.3E-08 63.4 1.0 48 69-118 79-130 (398)
36 PF02176 zf-TRAF: TRAF-type zi 95.8 0.0072 1.6E-07 43.9 2.4 38 154-193 1-38 (60)
37 PF12678 zf-rbx1: RING-H2 zinc 95.7 0.0032 7E-08 48.3 0.2 35 77-113 22-73 (73)
38 KOG2660 Locus-specific chromos 95.6 0.0031 6.6E-08 61.1 -0.3 48 69-118 10-62 (331)
39 KOG2879 Predicted E3 ubiquitin 95.5 0.0099 2.2E-07 56.3 2.9 45 70-116 235-286 (298)
40 COG5152 Uncharacterized conser 95.2 0.0068 1.5E-07 54.9 0.7 55 74-130 196-256 (259)
41 KOG4172 Predicted E3 ubiquitin 95.2 0.0021 4.5E-08 46.5 -2.2 41 75-117 8-54 (62)
42 PLN03086 PRLI-interacting fact 95.1 0.064 1.4E-06 56.1 7.7 50 134-193 455-504 (567)
43 KOG1813 Predicted E3 ubiquitin 95.1 0.016 3.4E-07 55.5 2.7 46 74-121 241-290 (313)
44 COG5222 Uncharacterized conser 94.7 0.012 2.6E-07 56.4 0.9 39 75-114 275-318 (427)
45 PF14570 zf-RING_4: RING/Ubox 94.6 0.013 2.7E-07 41.5 0.6 40 77-116 1-47 (48)
46 KOG0824 Predicted E3 ubiquitin 93.5 0.031 6.7E-07 53.7 1.1 43 74-118 7-54 (324)
47 COG5175 MOT2 Transcriptional r 93.2 0.023 4.9E-07 55.4 -0.3 49 69-118 10-65 (480)
48 KOG0802 E3 ubiquitin ligase [P 93.1 0.025 5.5E-07 59.0 -0.2 44 71-116 288-340 (543)
49 PF11789 zf-Nse: Zinc-finger o 93.1 0.027 5.9E-07 41.2 0.0 33 71-105 8-42 (57)
50 KOG4275 Predicted E3 ubiquitin 93.0 0.02 4.4E-07 54.7 -0.9 41 73-116 299-341 (350)
51 KOG4265 Predicted E3 ubiquitin 92.9 0.05 1.1E-06 53.4 1.6 46 70-117 286-336 (349)
52 PF14447 Prok-RING_4: Prokaryo 92.1 0.13 2.8E-06 37.4 2.5 43 73-117 6-50 (55)
53 KOG4739 Uncharacterized protei 92.0 0.089 1.9E-06 49.1 2.0 42 74-117 3-48 (233)
54 KOG4367 Predicted Zn-finger pr 91.6 0.05 1.1E-06 54.6 -0.1 31 71-103 1-32 (699)
55 COG5236 Uncharacterized conser 90.9 0.13 2.8E-06 50.5 1.9 47 69-117 56-108 (493)
56 PF12861 zf-Apc11: Anaphase-pr 90.3 0.11 2.3E-06 41.2 0.6 41 77-117 35-82 (85)
57 PF05605 zf-Di19: Drought indu 89.3 0.42 9E-06 34.2 3.0 50 132-190 2-54 (54)
58 COG5540 RING-finger-containing 87.9 0.22 4.9E-06 48.0 1.0 43 73-117 322-372 (374)
59 KOG1002 Nucleotide excision re 87.9 0.15 3.2E-06 52.5 -0.2 47 69-117 531-586 (791)
60 KOG1785 Tyrosine kinase negati 86.6 0.17 3.7E-06 50.5 -0.5 40 77-118 372-417 (563)
61 KOG1571 Predicted E3 ubiquitin 86.3 0.29 6.3E-06 48.2 0.9 45 70-117 301-347 (355)
62 PF05290 Baculo_IE-1: Baculovi 84.8 0.3 6.5E-06 41.8 0.1 45 73-118 79-133 (140)
63 KOG0804 Cytoplasmic Zn-finger 83.4 0.52 1.1E-05 47.8 1.2 45 70-116 171-221 (493)
64 KOG1039 Predicted E3 ubiquitin 83.1 0.43 9.3E-06 47.2 0.5 44 72-117 159-221 (344)
65 KOG4185 Predicted E3 ubiquitin 82.8 0.76 1.6E-05 43.9 2.0 56 74-131 3-77 (296)
66 KOG3161 Predicted E3 ubiquitin 82.1 0.28 6E-06 51.7 -1.4 40 69-110 6-51 (861)
67 PF04641 Rtf2: Rtf2 RING-finge 81.7 1.1 2.3E-05 42.6 2.5 49 68-118 107-162 (260)
68 PF07191 zinc-ribbons_6: zinc- 80.4 0.6 1.3E-05 35.7 0.3 38 75-117 2-41 (70)
69 PF13909 zf-H2C2_5: C2H2-type 79.2 1.2 2.5E-05 26.2 1.2 24 163-190 1-24 (24)
70 KOG0825 PHD Zn-finger protein 78.5 0.3 6.4E-06 52.5 -2.5 40 76-117 125-171 (1134)
71 KOG1645 RING-finger-containing 78.5 0.77 1.7E-05 46.1 0.4 41 74-116 4-55 (463)
72 KOG4628 Predicted E3 ubiquitin 78.0 1.4 3E-05 43.7 2.0 41 75-117 230-278 (348)
73 PF11793 FANCL_C: FANCL C-term 77.1 0.61 1.3E-05 35.4 -0.5 44 74-117 2-66 (70)
74 KOG2231 Predicted E3 ubiquitin 75.6 1 2.2E-05 48.0 0.5 40 76-117 2-52 (669)
75 PF13913 zf-C2HC_2: zinc-finge 74.9 1.7 3.7E-05 26.3 1.1 23 133-159 3-25 (25)
76 KOG2462 C2H2-type Zn-finger pr 74.8 1.6 3.4E-05 41.8 1.4 104 72-192 159-270 (279)
77 COG4306 Uncharacterized protei 73.7 0.77 1.7E-05 39.0 -0.8 48 97-150 30-82 (160)
78 COG5243 HRD1 HRD ubiquitin lig 73.5 1.5 3.3E-05 43.6 1.0 42 73-116 286-344 (491)
79 KOG2817 Predicted E3 ubiquitin 73.1 1.4 2.9E-05 44.2 0.6 43 71-115 331-383 (394)
80 PF12660 zf-TFIIIC: Putative z 72.6 1.8 3.9E-05 35.1 1.1 41 75-116 15-65 (99)
81 KOG1814 Predicted E3 ubiquitin 72.4 2 4.4E-05 43.2 1.6 101 72-177 182-322 (445)
82 KOG3579 Predicted E3 ubiquitin 71.7 3.6 7.7E-05 39.6 3.0 33 72-104 266-301 (352)
83 KOG3608 Zn finger proteins [Ge 71.5 3 6.5E-05 41.3 2.5 116 70-191 203-347 (467)
84 KOG3039 Uncharacterized conser 71.1 2.2 4.8E-05 40.2 1.5 43 73-117 220-270 (303)
85 PF05605 zf-Di19: Drought indu 71.0 4 8.7E-05 29.1 2.5 27 162-192 2-28 (54)
86 PRK11088 rrmA 23S rRNA methylt 68.5 2.4 5.2E-05 40.0 1.1 24 74-97 2-27 (272)
87 KOG2462 C2H2-type Zn-finger pr 68.1 32 0.0007 33.1 8.5 105 71-187 127-237 (279)
88 KOG1001 Helicase-like transcri 68.0 1.4 3E-05 47.5 -0.7 39 75-116 455-499 (674)
89 KOG3039 Uncharacterized conser 67.7 2.4 5.1E-05 40.1 0.9 35 69-104 38-72 (303)
90 KOG2114 Vacuolar assembly/sort 67.5 2.5 5.4E-05 46.1 1.1 43 72-116 838-882 (933)
91 PF10083 DUF2321: Uncharacteri 66.7 1.4 2.9E-05 38.8 -0.8 21 97-117 30-50 (158)
92 PF07975 C1_4: TFIIH C1-like d 61.2 5.8 0.00013 28.5 1.7 37 77-113 2-50 (51)
93 KOG2932 E3 ubiquitin ligase in 61.1 4.2 9.1E-05 39.6 1.3 64 74-145 90-156 (389)
94 KOG4692 Predicted E3 ubiquitin 60.9 2.6 5.7E-05 41.7 -0.2 42 73-116 421-466 (489)
95 KOG3002 Zn finger protein [Gen 60.6 4.6 9.9E-05 39.3 1.4 76 107-186 49-130 (299)
96 KOG0801 Predicted E3 ubiquitin 59.7 22 0.00048 31.6 5.4 20 72-91 136-155 (205)
97 COG5219 Uncharacterized conser 59.0 1.8 3.9E-05 47.8 -1.8 48 70-117 1465-1523(1525)
98 PF02891 zf-MIZ: MIZ/SP-RING z 57.9 3.1 6.6E-05 29.5 -0.2 40 74-115 2-50 (50)
99 KOG3800 Predicted E3 ubiquitin 57.2 3.5 7.5E-05 39.8 -0.0 39 76-116 2-50 (300)
100 PHA00616 hypothetical protein 55.7 19 0.00041 25.1 3.4 28 162-193 1-29 (44)
101 PRK04023 DNA polymerase II lar 53.6 11 0.00024 42.2 3.0 45 72-118 624-675 (1121)
102 COG2888 Predicted Zn-ribbon RN 52.2 9.6 0.00021 28.2 1.6 34 131-177 26-61 (61)
103 PF10571 UPF0547: Uncharacteri 51.2 7.2 0.00016 24.0 0.7 8 77-84 3-10 (26)
104 COG3813 Uncharacterized protei 51.1 11 0.00024 29.1 1.8 30 89-118 23-53 (84)
105 PF10367 Vps39_2: Vacuolar sor 50.0 11 0.00025 29.8 1.9 34 71-104 75-109 (109)
106 PF13894 zf-C2H2_4: C2H2-type 49.0 14 0.00031 20.6 1.8 22 164-189 2-24 (24)
107 KOG4362 Transcriptional regula 48.8 4.1 8.9E-05 43.7 -1.1 47 69-117 16-69 (684)
108 PF06906 DUF1272: Protein of u 46.2 11 0.00025 27.5 1.2 43 76-118 7-53 (57)
109 KOG1812 Predicted E3 ubiquitin 43.7 8.3 0.00018 38.8 0.2 31 73-105 145-180 (384)
110 PRK14890 putative Zn-ribbon RN 42.5 18 0.0004 26.7 1.8 36 130-177 23-59 (59)
111 PF12756 zf-C2H2_2: C2H2 type 41.7 21 0.00046 27.4 2.2 36 152-191 40-77 (100)
112 COG5194 APC11 Component of SCF 40.5 7.4 0.00016 30.6 -0.5 42 76-117 22-81 (88)
113 PF10235 Cript: Microtubule-as 40.3 15 0.00033 29.4 1.2 37 75-118 45-81 (90)
114 KOG1100 Predicted E3 ubiquitin 40.2 19 0.0004 33.2 2.0 38 77-117 161-200 (207)
115 PF04216 FdhE: Protein involve 39.9 13 0.00027 35.8 0.8 42 74-115 172-220 (290)
116 PRK14714 DNA polymerase II lar 39.6 24 0.00053 40.5 3.0 43 73-117 666-720 (1337)
117 PF12773 DZR: Double zinc ribb 39.0 21 0.00047 24.6 1.7 6 109-114 32-37 (50)
118 PRK14559 putative protein seri 37.9 22 0.00048 38.2 2.4 9 76-84 3-11 (645)
119 PF01363 FYVE: FYVE zinc finge 37.5 23 0.00049 26.1 1.7 33 72-104 7-42 (69)
120 PRK14892 putative transcriptio 37.4 37 0.0008 27.7 3.1 38 65-103 12-50 (99)
121 KOG0827 Predicted E3 ubiquitin 37.1 10 0.00022 38.1 -0.3 38 75-114 5-53 (465)
122 COG5109 Uncharacterized conser 36.2 16 0.00035 35.8 0.9 42 70-113 332-383 (396)
123 PF05502 Dynactin_p62: Dynacti 36.2 17 0.00038 37.6 1.2 68 71-145 2-95 (483)
124 PF05253 zf-U11-48K: U11-48K-l 35.0 12 0.00026 23.0 -0.1 24 133-159 3-26 (27)
125 COG1198 PriA Primosomal protei 34.4 38 0.00083 37.0 3.5 42 72-115 433-484 (730)
126 KOG0826 Predicted E3 ubiquitin 34.1 14 0.0003 36.4 0.1 44 72-115 298-344 (357)
127 TIGR01562 FdhE formate dehydro 33.1 29 0.00063 33.9 2.1 42 73-114 183-232 (305)
128 PF03145 Sina: Seven in absent 32.1 35 0.00076 30.6 2.4 47 112-158 24-70 (198)
129 smart00647 IBR In Between Ring 31.9 30 0.00064 24.6 1.5 31 76-106 20-59 (64)
130 KOG1734 Predicted RING-contain 31.9 17 0.00037 34.9 0.3 41 75-117 225-281 (328)
131 PF13240 zinc_ribbon_2: zinc-r 31.9 22 0.00047 21.1 0.6 7 108-114 15-21 (23)
132 PF00412 LIM: LIM domain; Int 31.7 22 0.00048 24.9 0.8 33 72-104 24-56 (58)
133 PF00096 zf-C2H2: Zinc finger, 31.7 28 0.0006 19.7 1.1 21 163-187 1-22 (23)
134 PF01485 IBR: IBR domain; Int 31.6 35 0.00076 24.1 1.9 33 73-105 17-58 (64)
135 COG5220 TFB3 Cdk activating ki 31.4 13 0.00029 35.0 -0.5 40 74-115 10-62 (314)
136 PF04606 Ogr_Delta: Ogr/Delta- 30.9 14 0.0003 25.7 -0.4 38 108-147 1-38 (47)
137 PF03854 zf-P11: P-11 zinc fin 30.3 16 0.00035 25.9 -0.1 29 88-117 15-46 (50)
138 PF08209 Sgf11: Sgf11 (transcr 29.0 23 0.00049 23.1 0.4 22 133-158 5-26 (33)
139 KOG0298 DEAD box-containing he 28.1 8.6 0.00019 44.0 -2.7 46 70-117 1149-1199(1394)
140 smart00301 DM Doublesex DNA-bi 28.1 34 0.00073 24.9 1.2 36 145-184 11-46 (54)
141 KOG2068 MOT2 transcription fac 26.8 40 0.00086 33.2 1.9 43 75-117 250-298 (327)
142 smart00734 ZnF_Rad18 Rad18-lik 26.5 37 0.00081 20.7 1.1 14 172-185 7-20 (26)
143 TIGR00622 ssl1 transcription f 26.2 53 0.0012 27.4 2.3 38 76-113 57-110 (112)
144 TIGR00595 priA primosomal prot 26.2 60 0.0013 33.8 3.2 41 73-115 212-262 (505)
145 PRK05580 primosome assembly pr 25.0 62 0.0014 35.0 3.1 42 74-115 381-430 (679)
146 KOG4218 Nuclear hormone recept 23.9 33 0.00071 34.1 0.7 22 77-102 18-39 (475)
147 PRK00420 hypothetical protein; 23.5 45 0.00097 27.8 1.3 25 75-103 24-48 (112)
148 smart00064 FYVE Protein presen 22.7 48 0.001 24.2 1.3 31 74-104 10-43 (68)
149 PF13912 zf-C2H2_6: C2H2-type 22.5 69 0.0015 18.8 1.7 25 162-190 1-26 (27)
150 PTZ00303 phosphatidylinositol 22.5 1E+02 0.0022 34.2 4.0 30 75-104 461-498 (1374)
151 cd00350 rubredoxin_like Rubred 22.1 68 0.0015 20.5 1.7 9 107-115 18-26 (33)
152 PRK03564 formate dehydrogenase 21.8 66 0.0014 31.5 2.3 42 73-114 186-234 (309)
153 PRK09678 DNA-binding transcrip 21.3 41 0.00088 25.9 0.6 45 108-154 3-47 (72)
154 KOG1940 Zn-finger protein [Gen 20.8 40 0.00088 32.5 0.6 58 74-134 158-225 (276)
155 KOG0297 TNF receptor-associate 20.7 63 0.0014 32.6 2.0 34 131-167 113-147 (391)
156 PF09297 zf-NADH-PPase: NADH p 20.4 28 0.0006 22.0 -0.4 20 95-114 3-29 (32)
157 KOG0828 Predicted E3 ubiquitin 20.1 24 0.00053 36.6 -1.1 44 72-117 569-634 (636)
No 1
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=100.00 E-value=2.8e-54 Score=411.08 Aligned_cols=258 Identities=45% Similarity=0.830 Sum_probs=243.8
Q ss_pred CccCCCCeeeecccCccCcccceeccCCceeccccccccCCCCCCcccccccchhhHHHHHhhhccccCCCCCCCCCCcc
Q 019539 67 PATSVHELLECPVCTNSMYPPIHQCHNGHTLCSTCKTRVHNRCPTCRQELGDIRCLALEKVAESLELPCKYYHLGCPEIF 146 (339)
Q Consensus 67 ~~~~l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~~~r~~alek~l~~l~v~C~~~~~GC~~~~ 146 (339)
+...+.++|+||||++++.+||+||.|||+.|++|+.++.++||.||.+++.+|+++||++++++.++|||+.+||++.+
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 66778899999999999999999999999999999988889999999999999999999999999999999999999999
Q ss_pred CcCcHHHHHhhCCCCCccCCCCCCCCccccChhHHHHHhhhcCCCCcccceeEEEEEeccCCccccccceEEEEeeecCc
Q 019539 147 PYYSKLKHEVMCTFRPYNCPYAGSDCSVVGDIPYLVAHLRDDHKVDMHTGCTFNHRYVKSNPREVENATWMLTVFHCFGQ 226 (339)
Q Consensus 147 ~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~~~~G~~f~~~~~~s~~~~~~~~~w~l~v~~cfg~ 226 (339)
+|.+..+||+.|.|+||.||.+|+.|+|.|.+++|..|++..|+.+++.+..|+++|..++++.....+|++.+..|+|+
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 99999999999999999999998999999999999999999999988877888889999999988899998777779999
Q ss_pred eEEEEeeeeecCC-CceEEEEEEEeCCccccCCcEEEEEEeeCCceEEEEeecceecccccccccCCCceEEecCcccee
Q 019539 227 YFCLHFEAYQLGT-APVYMAFLRFMGDETEARSYSYSLEVGGNGRKLSWEGTPRSIRDCHRKVRDSHDGLIIQRNMALFF 305 (339)
Q Consensus 227 ~F~l~~~~~~~g~-~~v~~a~v~~iG~~~~a~~FsY~Lei~~~~r~L~~es~p~Si~~~~~~~~~~~d~L~i~~~~a~~f 305 (339)
.|+++++.+.... .++|+++++++|.++++++|+|+|++.+++|+|+||++|+|+++.+...++..|||+||.+++++|
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 9999999988765 489999999999999999999999999999999999999999999999999999999999999998
Q ss_pred eCCCceeeEEEEEEEEeecc
Q 019539 306 SGGDRKELKLRVTGRIWKEQ 325 (339)
Q Consensus 306 ~~~~~~~l~l~V~~~i~~~~ 325 (339)
+. ..++|.|++++++|+++
T Consensus 281 ~~-~~~~l~i~~~~~~~~~~ 299 (299)
T KOG3002|consen 281 SL-LKMELKIRVTGRVQEEI 299 (299)
T ss_pred cc-cCCceeeccchhhhccC
Confidence 76 45599999999999864
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=1.2e-43 Score=321.54 Aligned_cols=198 Identities=44% Similarity=0.810 Sum_probs=153.4
Q ss_pred chhhHHHHHhhhccccCCCCCCCCCCccCcCcHHHHHhhCCCCCccCCCCCCCCccccChhHHHHHhhhcCCCCccccee
Q 019539 119 IRCLALEKVAESLELPCKYYHLGCPEIFPYYSKLKHEVMCTFRPYNCPYAGSDCSVVGDIPYLVAHLRDDHKVDMHTGCT 198 (339)
Q Consensus 119 ~r~~alek~l~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~~~~G~~ 198 (339)
+||++||++++++++||+|+.+||++.+++.++.+||++|+|+||.||.++.+|+|+|+.++|..|++.+|++.+..+..
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 58999999999999999999999999999999999999999999999997677999999999999999999998877667
Q ss_pred EEEEEeccCCccccccceEEEEeeecCceEEEEeeeeecCCCceEEEEEEEeCCccccCCcEEEEEEeeCCceEEEEeec
Q 019539 199 FNHRYVKSNPREVENATWMLTVFHCFGQYFCLHFEAYQLGTAPVYMAFLRFMGDETEARSYSYSLEVGGNGRKLSWEGTP 278 (339)
Q Consensus 199 f~~~~~~s~~~~~~~~~w~l~v~~cfg~~F~l~~~~~~~g~~~v~~a~v~~iG~~~~a~~FsY~Lei~~~~r~L~~es~p 278 (339)
+.++|..+++...+..+|+++.+.|||++|+|+++.+......+||++||++|++++|++|+|+|++.+++|||+||++|
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 77889988887667788998556999999999999888666789999999999999999999999999999999999999
Q ss_pred ceecccccccccCCCceEEecCccceeeCCCceeeEEEEE
Q 019539 279 RSIRDCHRKVRDSHDGLIIQRNMALFFSGGDRKELKLRVT 318 (339)
Q Consensus 279 ~Si~~~~~~~~~~~d~L~i~~~~a~~f~~~~~~~l~l~V~ 318 (339)
+|++++.+.++++.|||++..++++||+++ +.|.|+||
T Consensus 161 ~si~~~~~~~~~~~d~li~~~~~~~~f~~~--~~L~~~v~ 198 (198)
T PF03145_consen 161 RSIREDIDDAIESRDCLIINENAAQFFSED--GNLRYRVT 198 (198)
T ss_dssp EETTT-SHHHHHCT-SEEEEHHHHHHHECT--TEEEEEEE
T ss_pred cchhhhHHhhccCCcEEEEchHHHHhcCCC--CeEEEEeC
Confidence 999999999999999999999999999874 45999986
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=4.3e-39 Score=265.11 Aligned_cols=125 Identities=31% Similarity=0.588 Sum_probs=118.9
Q ss_pred CcccceeEEEEEeccCCccccccceEEEEeeecCceEEEEeeeeec-CCCceEEEEEEEeCCccccCCcEEEEEEeeCCc
Q 019539 192 DMHTGCTFNHRYVKSNPREVENATWMLTVFHCFGQYFCLHFEAYQL-GTAPVYMAFLRFMGDETEARSYSYSLEVGGNGR 270 (339)
Q Consensus 192 ~~~~G~~f~~~~~~s~~~~~~~~~w~l~v~~cfg~~F~l~~~~~~~-g~~~v~~a~v~~iG~~~~a~~FsY~Lei~~~~r 270 (339)
++++|+ +++|+++|+++++ ++|++++++|||++|+|++|++++ ++.++|||++|+||+.++|++|+|+||+.+++|
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 467898 6889999999998 777778999999999999999999 778999999999999999999999999999999
Q ss_pred eEEEEeecceecccccccccCCCceEEecCccceeeCCCceeeEEEEEE
Q 019539 271 KLSWEGTPRSIRDCHRKVRDSHDGLIIQRNMALFFSGGDRKELKLRVTG 319 (339)
Q Consensus 271 ~L~~es~p~Si~~~~~~~~~~~d~L~i~~~~a~~f~~~~~~~l~l~V~~ 319 (339)
||+||++||||||++.+++++.|||+|+++||+||++|++++|+|+||+
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 9999999999999999999999999999999999999999999999974
No 4
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=99.26 E-value=8.4e-12 Score=124.35 Aligned_cols=116 Identities=29% Similarity=0.611 Sum_probs=103.0
Q ss_pred CCCCeeeecccCccCcccce--eccCCceeccccccccC---CCCCCcccccccc----hhhHHHHHhhhccccCCCCCC
Q 019539 70 SVHELLECPVCTNSMYPPIH--QCHNGHTLCSTCKTRVH---NRCPTCRQELGDI----RCLALEKVAESLELPCKYYHL 140 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi~--qC~~GH~fC~~C~~~~~---~~CP~Cr~~~~~~----r~~alek~l~~l~v~C~~~~~ 140 (339)
.+++.+.|++|..++.+|+. +| ||.||..|+.++. ..||.|+..+... ...++.+++.++.+.|.++..
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 37889999999999999984 88 9999999998763 5899999887642 246788999999999999999
Q ss_pred CCCCccCcCcHHHHHhhCCCCCccCCCCCCCCccccChhHHHHHhhhcCCCC
Q 019539 141 GCPEIFPYYSKLKHEVMCTFRPYNCPYAGSDCSVVGDIPYLVAHLRDDHKVD 192 (339)
Q Consensus 141 GC~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~ 192 (339)
||+|.+....+++|+..| .+..||.. |+.++.++++..||+..+...
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 999999999999998877654
No 5
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.47 E-value=4e-08 Score=73.14 Aligned_cols=56 Identities=29% Similarity=0.711 Sum_probs=31.0
Q ss_pred CCCCeeeecccCccCcccc--eeccCCceecccccccc-CCCCCCcccccc--c-chhhHHHHH
Q 019539 70 SVHELLECPVCTNSMYPPI--HQCHNGHTLCSTCKTRV-HNRCPTCRQELG--D-IRCLALEKV 127 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~-~~~CP~Cr~~~~--~-~r~~alek~ 127 (339)
.++++|.|++|.++|+.|+ ..| .|+||+.|+.+- ...||+|..+.- . ..|+.++.+
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 4678899999999999997 588 999999999864 467999999853 1 345555554
No 6
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.46 E-value=2.1e-08 Score=96.22 Aligned_cols=70 Identities=29% Similarity=0.670 Sum_probs=56.3
Q ss_pred CCCcc-cCCccCCCCeeeecccCccCcccc-eeccCCceecccccccc---CCCCCCccccccc---chhhHHHHHhhhc
Q 019539 60 VGPTA-IAPATSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD---IRCLALEKVAESL 131 (339)
Q Consensus 60 ~~~~~-~~~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~---~r~~alek~l~~l 131 (339)
.|+.. +++.-.++++|.|-||+++|+.|+ +.| ||.||+-|+.+. ...||+|+.++.. ..++.++.+++++
T Consensus 8 dw~~tsipslk~lD~lLRC~IC~eyf~ip~itpC--sHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 8 DWPPTSIPSLKTLDDLLRCGICFEYFNIPMITPC--SHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSL 85 (442)
T ss_pred cCCCccCchhhhhHHHHHHhHHHHHhcCceeccc--cchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHH
Confidence 34443 888889999999999999999997 788 999999999875 3789999998763 3456666666654
No 7
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.40 E-value=9.1e-08 Score=95.22 Aligned_cols=64 Identities=28% Similarity=0.657 Sum_probs=51.6
Q ss_pred CCccCCCCeeeecccCccCcccc-eeccCCceeccccccccC---CCCCCccccccc---chhhHHHHHhhhc
Q 019539 66 APATSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH---NRCPTCRQELGD---IRCLALEKVAESL 131 (339)
Q Consensus 66 ~~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~---~~CP~Cr~~~~~---~r~~alek~l~~l 131 (339)
+....+++.+.|+||.+++..|+ ..| ||.||..|+..+. ..||.|+..+.. .+|.+++++++.+
T Consensus 18 ~~l~~Le~~l~C~IC~d~~~~PvitpC--gH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~ 88 (397)
T TIGR00599 18 PSLYPLDTSLRCHICKDFFDVPVLTSC--SHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVESF 88 (397)
T ss_pred ccccccccccCCCcCchhhhCccCCCC--CCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHHH
Confidence 45578999999999999999997 688 9999999998652 579999998764 4667777666643
No 8
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.39 E-value=8e-08 Score=66.13 Aligned_cols=34 Identities=38% Similarity=1.199 Sum_probs=26.1
Q ss_pred ecccCccCcccc-eeccCCceeccccccccC-------CCCCCc
Q 019539 77 CPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH-------NRCPTC 112 (339)
Q Consensus 77 CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~-------~~CP~C 112 (339)
||||+++|+.|+ +.| ||+||..|+.++. ..||.|
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 899999999998 799 9999999998752 258876
No 9
>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=98.32 E-value=3.2e-07 Score=67.56 Aligned_cols=55 Identities=25% Similarity=0.375 Sum_probs=44.9
Q ss_pred eeeecccCccCcccc-eeccCCceecccccccc---CCCCCCccccccc---chhhHHHHHhhh
Q 019539 74 LLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD---IRCLALEKVAES 130 (339)
Q Consensus 74 ~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~---~r~~alek~l~~ 130 (339)
.|.||||.++|..|+ ..| ||+||..|+.++ ...||.|+.++.. +++..+++.++.
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~--G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~~ 62 (63)
T smart00504 1 EFLCPISLEVMKDPVILPS--GQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQE 62 (63)
T ss_pred CcCCcCCCCcCCCCEECCC--CCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHHh
Confidence 367999999999998 566 999999999876 3679999999853 567777776653
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.22 E-value=3.6e-07 Score=82.41 Aligned_cols=45 Identities=24% Similarity=0.843 Sum_probs=38.1
Q ss_pred CCCeeeecccCccCcccc-eeccCCceeccccccccC-------------------CCCCCcccccc
Q 019539 71 VHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH-------------------NRCPTCRQELG 117 (339)
Q Consensus 71 l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~-------------------~~CP~Cr~~~~ 117 (339)
+.+.++|+||++.+++|+ +.| ||+||..|+.+|. ..||.||..+.
T Consensus 15 ~~~~~~CpICld~~~dPVvT~C--GH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVVTLC--GHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CCCccCCccCCCcCCCcEEcCC--CchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 446789999999999998 678 9999999997641 36999999875
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=5.2e-07 Score=79.86 Aligned_cols=44 Identities=39% Similarity=1.096 Sum_probs=36.9
Q ss_pred CCeeeecccCccCcc--cc-eeccCCceecccccccc---CCCCCCcccccc
Q 019539 72 HELLECPVCTNSMYP--PI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELG 117 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~--Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 117 (339)
...+.||||++.+.. |+ ..| ||+||+.|+... ..+||+|++.++
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkC--GHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKC--GHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhcccccccc--chhHHHHHHHHHHHhCCCCCCcccccc
Confidence 467999999999984 55 688 999999999865 378999998665
No 12
>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=1.4e-06 Score=61.86 Aligned_cols=43 Identities=37% Similarity=0.967 Sum_probs=35.1
Q ss_pred CeeeecccCccCcccc-eeccCCce-ecccccccc---CCCCCCcccccc
Q 019539 73 ELLECPVCTNSMYPPI-HQCHNGHT-LCSTCKTRV---HNRCPTCRQELG 117 (339)
Q Consensus 73 ~~l~CpIC~~~l~~Pi-~qC~~GH~-fC~~C~~~~---~~~CP~Cr~~~~ 117 (339)
+...|+||++....++ +.| ||. ||..|..++ ...||.||+++.
T Consensus 1 ~~~~C~iC~~~~~~~~~~pC--gH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPRDVVLLPC--GHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBSSEEEETT--CEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CcCCCccCCccCCceEEeCC--CChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 3567999999999887 688 999 999999887 378999999875
No 13
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.04 E-value=3.2e-06 Score=77.81 Aligned_cols=47 Identities=26% Similarity=0.730 Sum_probs=40.4
Q ss_pred CCCCeeeecccCccCcccce-eccCCceeccccccccC------CCCCCccccccc
Q 019539 70 SVHELLECPVCTNSMYPPIH-QCHNGHTLCSTCKTRVH------NRCPTCRQELGD 118 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi~-qC~~GH~fC~~C~~~~~------~~CP~Cr~~~~~ 118 (339)
.....|+|.||++..++||+ -| ||+||=.|+.+|. ..||+|+..++.
T Consensus 43 ~~~~~FdCNICLd~akdPVvTlC--GHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVTLC--GHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCCceeeeeeccccCCCEEeec--ccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 45678999999999999985 56 9999999999983 579999998763
No 14
>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=3.7e-06 Score=64.53 Aligned_cols=59 Identities=27% Similarity=0.351 Sum_probs=43.8
Q ss_pred CCeeeecccCccCcccc-eeccCCceeccccccccC----CCCCCccccccc---chhhHHHHHhhhcc
Q 019539 72 HELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH----NRCPTCRQELGD---IRCLALEKVAESLE 132 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~----~~CP~Cr~~~~~---~r~~alek~l~~l~ 132 (339)
++.|.|||+.++|.+|| ..+ ||+|++.++.++. ..||.++.++.. .+|..|.+.++.+.
T Consensus 2 P~~f~CpIt~~lM~dPVi~~~--G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~ 68 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILPS--GHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWC 68 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEETT--SEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHH
T ss_pred CcccCCcCcCcHhhCceeCCc--CCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHH
Confidence 57899999999999998 455 9999999998763 569999998864 67888888877653
No 15
>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=97.83 E-value=7.1e-06 Score=55.18 Aligned_cols=34 Identities=35% Similarity=1.262 Sum_probs=27.3
Q ss_pred ecccCccCcccc--eeccCCceecccccccc---CCCCCCc
Q 019539 77 CPVCTNSMYPPI--HQCHNGHTLCSTCKTRV---HNRCPTC 112 (339)
Q Consensus 77 CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~---~~~CP~C 112 (339)
|+||.+.+..|+ ..| ||+||..|+.++ ..+||.|
T Consensus 1 C~iC~~~~~~~~~~~~C--GH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPC--GHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTT--SEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCC--CCchhHHHHHHHHHCcCCCcCC
Confidence 899999999994 577 999999999875 3678876
No 16
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.83 E-value=3.6e-06 Score=79.66 Aligned_cols=52 Identities=33% Similarity=0.788 Sum_probs=45.1
Q ss_pred ccCCccCCCCeeeecccCccCcccc-eeccCCceeccccccccC---CCCCCcccccc
Q 019539 64 AIAPATSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH---NRCPTCRQELG 117 (339)
Q Consensus 64 ~~~~~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~---~~CP~Cr~~~~ 117 (339)
-+++.-.|...+.|-||.+.++.|+ +.| ||.||+-|+.+.. ..||.||.+..
T Consensus 15 ~IPSL~~LDs~lrC~IC~~~i~ip~~TtC--gHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 15 KIPSLKGLDSMLRCRICDCRISIPCETTC--GHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred cCcchhcchhHHHhhhhhheeecceeccc--ccchhHHHHHHHhcCCCCCccccccHH
Confidence 4566778889999999999999997 789 9999999998763 68999998753
No 17
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=97.83 E-value=7.5e-06 Score=59.85 Aligned_cols=53 Identities=28% Similarity=0.451 Sum_probs=37.9
Q ss_pred hccccCCCCCCCCCCccCcCcHHHHHh-hCCCCCccCCCCCCCCccccChhHHHHH
Q 019539 130 SLELPCKYYHLGCPEIFPYYSKLKHEV-MCTFRPYNCPYAGSDCSVVGDIPYLVAH 184 (339)
Q Consensus 130 ~l~v~C~~~~~GC~~~~~~~~~~~He~-~C~f~p~~CP~~g~~C~~~g~~~~L~~H 184 (339)
...++|++ .||...++..++.+|.+ +|+++++.||+...+|++.+.+.+|..|
T Consensus 7 ~~~v~C~~--~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 7 FRPVPCPN--GCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp TSEEE-TT----S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred CCEeeCCC--CCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence 45688987 36778899999999998 9999999999965569999999999887
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.75 E-value=6.5e-06 Score=56.94 Aligned_cols=37 Identities=32% Similarity=1.036 Sum_probs=30.5
Q ss_pred eecccCccCc---ccc-eeccCCceeccccccccC---CCCCCccc
Q 019539 76 ECPVCTNSMY---PPI-HQCHNGHTLCSTCKTRVH---NRCPTCRQ 114 (339)
Q Consensus 76 ~CpIC~~~l~---~Pi-~qC~~GH~fC~~C~~~~~---~~CP~Cr~ 114 (339)
+|++|++.+. .|. +.| ||+||..|+.++. ..||.|++
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 443 789 9999999999874 58999974
No 19
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.69 E-value=1.1e-05 Score=75.35 Aligned_cols=45 Identities=31% Similarity=0.806 Sum_probs=36.0
Q ss_pred CCeeeecccCccCccc--------c-eeccCCceeccccccccC---CCCCCccccccc
Q 019539 72 HELLECPVCTNSMYPP--------I-HQCHNGHTLCSTCKTRVH---NRCPTCRQELGD 118 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~P--------i-~qC~~GH~fC~~C~~~~~---~~CP~Cr~~~~~ 118 (339)
.+..+|+||++.+..+ + ..| ||.||..|+.++. ..||+||.++..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C--~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNC--NHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCC--CCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 3467899999987643 2 367 9999999998763 689999998764
No 20
>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=97.64 E-value=1.6e-05 Score=54.69 Aligned_cols=36 Identities=36% Similarity=1.010 Sum_probs=28.6
Q ss_pred eecccCccCcc--cc--eeccCCceecccccccc---CCCCCCcc
Q 019539 76 ECPVCTNSMYP--PI--HQCHNGHTLCSTCKTRV---HNRCPTCR 113 (339)
Q Consensus 76 ~CpIC~~~l~~--Pi--~qC~~GH~fC~~C~~~~---~~~CP~Cr 113 (339)
+|+||++.+.+ .+ +.| ||.||..|+.++ ...||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C--~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPC--GHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETT--SEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccC--CCeeCHHHHHHHHHhCCcCCccC
Confidence 59999999963 33 456 999999999886 47899997
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=97.63 E-value=1.8e-05 Score=53.45 Aligned_cols=34 Identities=35% Similarity=1.142 Sum_probs=29.0
Q ss_pred ecccCccCcccc--eeccCCceeccccccccC-----CCCCCc
Q 019539 77 CPVCTNSMYPPI--HQCHNGHTLCSTCKTRVH-----NRCPTC 112 (339)
Q Consensus 77 CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~~-----~~CP~C 112 (339)
|+||.+++..|+ +.| ||.||..|+.++. ..||.|
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 899999999987 588 9999999998752 468876
No 22
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=2.5e-05 Score=71.94 Aligned_cols=67 Identities=30% Similarity=0.618 Sum_probs=51.2
Q ss_pred ccCCCCeeeecccCccCcccc-eeccCCceeccccccccC---CCCCCcccccc-cchhhHHHHHhhhccccCC
Q 019539 68 ATSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH---NRCPTCRQELG-DIRCLALEKVAESLELPCK 136 (339)
Q Consensus 68 ~~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~---~~CP~Cr~~~~-~~r~~alek~l~~l~v~C~ 136 (339)
...+.+.+.||||++.+..|. ..| ||.||..|+..+. ..||.||.... ..+|..+.+++..++....
T Consensus 7 ~~~~~~~~~C~iC~~~~~~p~~l~C--~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~~~~~~~~ 78 (386)
T KOG2177|consen 7 LEVLQEELTCPICLEYFREPVLLPC--GHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVERLRQLRL 78 (386)
T ss_pred hhhccccccChhhHHHhhcCccccc--cchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHHHHHhcCC
Confidence 345778999999999999995 689 9999999998865 68999995111 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=97.43 E-value=3.7e-05 Score=51.55 Aligned_cols=38 Identities=39% Similarity=1.149 Sum_probs=30.6
Q ss_pred eecccCccCcccc-e-eccCCceecccccccc----CCCCCCcccc
Q 019539 76 ECPVCTNSMYPPI-H-QCHNGHTLCSTCKTRV----HNRCPTCRQE 115 (339)
Q Consensus 76 ~CpIC~~~l~~Pi-~-qC~~GH~fC~~C~~~~----~~~CP~Cr~~ 115 (339)
+|+||.+.+..++ + .| ||.||..|+.++ ...||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C--~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPC--GHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCC--CChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 4999999997665 3 47 999999999754 2579999875
No 24
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=5e-05 Score=72.00 Aligned_cols=46 Identities=26% Similarity=0.738 Sum_probs=39.4
Q ss_pred CCCeeeecccCccCcccc-eeccCCceecccccccc---CCCCCCccccccc
Q 019539 71 VHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD 118 (339)
Q Consensus 71 l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~ 118 (339)
.+...+|.+|++....|- +.| ||+||-+|+..| ...||.||..+..
T Consensus 236 ~~a~~kC~LCLe~~~~pSaTpC--GHiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSATPC--GHIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred CCCCCceEEEecCCCCCCcCcC--cchHHHHHHHHHHccccCCCcccccCCC
Confidence 355689999999999987 789 999999999877 3679999998754
No 25
>PHA02926 zinc finger-like protein; Provisional
Probab=97.21 E-value=5.9e-05 Score=69.30 Aligned_cols=46 Identities=33% Similarity=0.872 Sum_probs=35.7
Q ss_pred CCCeeeecccCccCcc---------cc-eeccCCceeccccccccC---------CCCCCccccccc
Q 019539 71 VHELLECPVCTNSMYP---------PI-HQCHNGHTLCSTCKTRVH---------NRCPTCRQELGD 118 (339)
Q Consensus 71 l~~~l~CpIC~~~l~~---------Pi-~qC~~GH~fC~~C~~~~~---------~~CP~Cr~~~~~ 118 (339)
..+..+|+||++.... ++ ..| +|.||..|+.+|. ..||.||..+..
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~C--nHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSC--NHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCC--CchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 3557889999998743 23 367 9999999999873 239999998764
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.13 E-value=0.00011 Score=74.48 Aligned_cols=43 Identities=30% Similarity=0.888 Sum_probs=36.1
Q ss_pred eeeecccCccCcccc-eeccCCceecccccccc--------CCCCCCccccccc
Q 019539 74 LLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV--------HNRCPTCRQELGD 118 (339)
Q Consensus 74 ~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~--------~~~CP~Cr~~~~~ 118 (339)
...||||+++..-|+ +.| ||+||-.|+-+. ...||.|+..+..
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 788999999999776 678 999999998753 2579999998764
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.08 E-value=0.00011 Score=50.91 Aligned_cols=26 Identities=35% Similarity=1.205 Sum_probs=17.0
Q ss_pred ecccCccCcc----cc-eeccCCceecccccccc
Q 019539 77 CPVCTNSMYP----PI-HQCHNGHTLCSTCKTRV 105 (339)
Q Consensus 77 CpIC~~~l~~----Pi-~qC~~GH~fC~~C~~~~ 105 (339)
||||.+ +.. |+ +.| ||+||..|+.++
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 766 76 788 999999999876
No 28
>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=96.92 E-value=0.00025 Score=45.75 Aligned_cols=34 Identities=41% Similarity=1.249 Sum_probs=27.8
Q ss_pred ecccCccCcccc-eeccCCceecccccccc----CCCCCCc
Q 019539 77 CPVCTNSMYPPI-HQCHNGHTLCSTCKTRV----HNRCPTC 112 (339)
Q Consensus 77 CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~----~~~CP~C 112 (339)
|+||.+....++ ..| ||.||..|+.++ ...||.|
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 789999988776 678 999999999864 2568876
No 29
>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=96.88 E-value=0.0005 Score=66.42 Aligned_cols=42 Identities=36% Similarity=0.880 Sum_probs=32.3
Q ss_pred eeeecccCc--cCcccc---e-eccCCceecccccccc----CCCCCCcccccc
Q 019539 74 LLECPVCTN--SMYPPI---H-QCHNGHTLCSTCKTRV----HNRCPTCRQELG 117 (339)
Q Consensus 74 ~l~CpIC~~--~l~~Pi---~-qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~ 117 (339)
...||+|.. ++.+-. + .| ||.||.+|+.++ ...||.|+.++.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~C--GH~~C~sCv~~l~~~~~~~CP~C~~~lr 54 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVC--GHTLCESCVDLLFVRGSGSCPECDTPLR 54 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCC--CCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence 457999999 555542 2 47 999999999885 257999998764
No 30
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=5.4e-05 Score=73.56 Aligned_cols=59 Identities=25% Similarity=0.613 Sum_probs=46.4
Q ss_pred CCCcccCCccCCCCeeeecccCccCcccc--eeccCCceecccccccc----CCCCCCcccccccch
Q 019539 60 VGPTAIAPATSVHELLECPVCTNSMYPPI--HQCHNGHTLCSTCKTRV----HNRCPTCRQELGDIR 120 (339)
Q Consensus 60 ~~~~~~~~~~~l~~~l~CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~~~r 120 (339)
.+.........+...+.||||+++++.-+ -.| +|.||..|+-+. .+.||+||+.+...|
T Consensus 29 d~~Ei~~~l~~~~~~v~c~icl~llk~tmttkeC--lhrfc~~ci~~a~r~gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 29 DPSEIMVDLAMFDIQVICPICLSLLKKTMTTKEC--LHRFCFDCIWKALRSGNNECPTCRKKLVSKR 93 (381)
T ss_pred CchhheecHHHhhhhhccHHHHHHHHhhcccHHH--HHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence 44444445567889999999999999776 378 999999999764 378999999887543
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.00035 Score=65.61 Aligned_cols=43 Identities=28% Similarity=0.664 Sum_probs=36.8
Q ss_pred CCeeeecccCccCcccc-eeccCCceeccccccc-c----CCCCCCccccc
Q 019539 72 HELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTR-V----HNRCPTCRQEL 116 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~-~----~~~CP~Cr~~~ 116 (339)
+..++|++|.+....|. ..| ||+||-.|+-. + ...||.||...
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~C--gHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPC--GHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccCCcccccc--cchhhHHHHHHHHHhhccccCchhhhhc
Confidence 57899999999999998 789 99999999876 3 14699999854
No 32
>PLN03086 PRLI-interacting factor K; Provisional
Probab=96.59 E-value=0.0028 Score=66.02 Aligned_cols=106 Identities=20% Similarity=0.473 Sum_probs=67.1
Q ss_pred CCCCeeeecccCccCcccc-----eeccCCceeccc--ccccc-------CCCCCCcccccccchhhHHHHHhh--hccc
Q 019539 70 SVHELLECPVCTNSMYPPI-----HQCHNGHTLCST--CKTRV-------HNRCPTCRQELGDIRCLALEKVAE--SLEL 133 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi-----~qC~~GH~fC~~--C~~~~-------~~~CP~Cr~~~~~~r~~alek~l~--~l~v 133 (339)
...+...|+-|......-- ..|..--+.|.. |...+ ...|+.|...+.. ..+++-.. ...+
T Consensus 403 ~~~~~V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~---s~LekH~~~~Hkpv 479 (567)
T PLN03086 403 MDVDTVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQ---GEMEKHMKVFHEPL 479 (567)
T ss_pred CCCCeEECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccch---HHHHHHHHhcCCCc
Confidence 3456778999998876432 256554455653 54432 1469999777642 22333322 3456
Q ss_pred cCCCCCCCCCCccCcCcHHHHHh-hCCCCCccCCCCCCCCccccC-----------hhHHHHHhhh
Q 019539 134 PCKYYHLGCPEIFPYYSKLKHEV-MCTFRPYNCPYAGSDCSVVGD-----------IPYLVAHLRD 187 (339)
Q Consensus 134 ~C~~~~~GC~~~~~~~~~~~He~-~C~f~p~~CP~~g~~C~~~g~-----------~~~L~~Hl~~ 187 (339)
.|+ |...+...++..|.. .|+.+++.|++ |+.... ...|..|...
T Consensus 480 ~Cp-----Cg~~~~R~~L~~H~~thCp~Kpi~C~f----C~~~v~~g~~~~d~~d~~s~Lt~HE~~ 536 (567)
T PLN03086 480 QCP-----CGVVLEKEQMVQHQASTCPLRLITCRF----CGDMVQAGGSAMDVRDRLRGMSEHESI 536 (567)
T ss_pred cCC-----CCCCcchhHHHhhhhccCCCCceeCCC----CCCccccCccccchhhhhhhHHHHHHh
Confidence 775 766777777888864 78888888887 776553 2367778766
No 33
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.58 E-value=0.00046 Score=72.94 Aligned_cols=47 Identities=32% Similarity=0.918 Sum_probs=39.8
Q ss_pred CCCCeeeecccCccCcccc-eeccCCceecccccccc----CCCCCCccccccc
Q 019539 70 SVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV----HNRCPTCRQELGD 118 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~~ 118 (339)
.....|.||+|..=.++-| ..| ||.||..|+.+. ..+||.|..+|+.
T Consensus 639 ~yK~~LkCs~Cn~R~Kd~vI~kC--~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 639 EYKELLKCSVCNTRWKDAVITKC--GHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred HHHhceeCCCccCchhhHHHHhc--chHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 4578999999997777765 789 999999999864 3689999999974
No 34
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=96.45 E-value=0.0057 Score=53.59 Aligned_cols=29 Identities=28% Similarity=0.541 Sum_probs=24.3
Q ss_pred CCccCCCCCCCCccccChhHHHHHhhhcCCC
Q 019539 161 RPYNCPYAGSDCSVVGDIPYLVAHLRDDHKV 191 (339)
Q Consensus 161 ~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~ 191 (339)
++-.|+.. +|.|.|.+.+|.+|.+.+|+.
T Consensus 106 K~RsC~~e--~C~F~GtY~eLrKHar~~HP~ 134 (162)
T PF07800_consen 106 KKRSCSQE--SCSFSGTYSELRKHARSEHPS 134 (162)
T ss_pred CCccCccc--ccccccCHHHHHHHHHhhCCC
Confidence 34467765 499999999999999999986
No 35
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.89 E-value=0.0029 Score=63.44 Aligned_cols=48 Identities=40% Similarity=1.072 Sum_probs=40.4
Q ss_pred cCCCCeeeecccCccCcccc-eeccCCceecccccccc---CCCCCCccccccc
Q 019539 69 TSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD 118 (339)
Q Consensus 69 ~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~ 118 (339)
..+...|.|.||...+.+|+ ..| ||.||..|+.+. ...||.||.++..
T Consensus 79 ~~~~sef~c~vc~~~l~~pv~tpc--ghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 79 EEIRSEFECCVCSRALYPPVVTPC--GHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccccchhhhhhhHhhcCCCccccc--cccccHHHHHHHhccCCCCccccccccc
Confidence 34578999999999999998 566 999999997764 3689999998753
No 36
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.75 E-value=0.0072 Score=43.90 Aligned_cols=38 Identities=32% Similarity=0.543 Sum_probs=29.7
Q ss_pred HHhhCCCCCccCCCCCCCCccccChhHHHHHhhhcCCCCc
Q 019539 154 HEVMCTFRPYNCPYAGSDCSVVGDIPYLVAHLRDDHKVDM 193 (339)
Q Consensus 154 He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~~ 193 (339)
|++.|+++++.||+.+ |.....+.+|..|+..+.....
T Consensus 1 H~~~C~~~~v~C~~~c--c~~~i~r~~l~~H~~~~C~~~~ 38 (60)
T PF02176_consen 1 HEEECPFRPVPCPNGC--CNEMIPRKELDDHLENECPKRP 38 (60)
T ss_dssp HHTTSTTSEEE-TT----S-BEEECCCHHHHHHTTSTTSE
T ss_pred CcccCCCCEeeCCCCC--cccceeHHHHHHHHHccCCCCc
Confidence 8889999999999853 6666788999999998888753
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=95.67 E-value=0.0032 Score=48.29 Aligned_cols=35 Identities=37% Similarity=1.014 Sum_probs=27.4
Q ss_pred ecccCccCccc------------c--eeccCCceecccccccc---CCCCCCcc
Q 019539 77 CPVCTNSMYPP------------I--HQCHNGHTLCSTCKTRV---HNRCPTCR 113 (339)
Q Consensus 77 CpIC~~~l~~P------------i--~qC~~GH~fC~~C~~~~---~~~CP~Cr 113 (339)
|.||++.|..| + ..| ||.|-..|+.++ ...||+||
T Consensus 22 C~IC~~~l~~~~~~~~~~~~~~~i~~~~C--~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 22 CAICREPLEDPCPECQAPQDECPIVWGPC--GHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp ETTTTSBTTSTTCCHHHCTTTS-EEEETT--SEEEEHHHHHHHHTTSSB-TTSS
T ss_pred ccccChhhhChhhhhcCCccccceEeccc--CCCEEHHHHHHHHhcCCcCCCCC
Confidence 99999999433 2 246 999999999976 36899997
No 38
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.56 E-value=0.0031 Score=61.10 Aligned_cols=48 Identities=25% Similarity=0.703 Sum_probs=40.6
Q ss_pred cCCCCeeeecccCccCcccc--eeccCCceecccccccc---CCCCCCccccccc
Q 019539 69 TSVHELLECPVCTNSMYPPI--HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD 118 (339)
Q Consensus 69 ~~l~~~l~CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~ 118 (339)
.++.....|.+|..+|.++. ..| =|+||++|+-+. .+.||.|...+..
T Consensus 10 ~~~n~~itC~LC~GYliDATTI~eC--LHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 10 TELNPHITCRLCGGYLIDATTITEC--LHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred hhcccceehhhccceeecchhHHHH--HHHHHHHHHHHHHHHhccCCccceeccC
Confidence 45678899999999999984 688 899999999875 3789999987653
No 39
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.51 E-value=0.0099 Score=56.32 Aligned_cols=45 Identities=31% Similarity=0.710 Sum_probs=36.3
Q ss_pred CCCCeeeecccCccCcccc-ee-ccCCceeccccccccC-----CCCCCccccc
Q 019539 70 SVHELLECPVCTNSMYPPI-HQ-CHNGHTLCSTCKTRVH-----NRCPTCRQEL 116 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi-~q-C~~GH~fC~~C~~~~~-----~~CP~Cr~~~ 116 (339)
.-....+||+|.+....|. .+ | ||++|-.|+.+-. ..||.|..+.
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~~~~~C--~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPHVIGKC--GHIYCYYCIATSRLWDASFTCPLCGENV 286 (298)
T ss_pred cccCCceeeccCCCCCCCeeeccc--cceeehhhhhhhhcchhhcccCccCCCC
Confidence 3456788999999999995 55 7 9999999998632 4899998764
No 40
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.20 E-value=0.0068 Score=54.93 Aligned_cols=55 Identities=25% Similarity=0.654 Sum_probs=41.2
Q ss_pred eeeecccCccCcccc-eeccCCceecccccccc---CCCCCCccccccc--chhhHHHHHhhh
Q 019539 74 LLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD--IRCLALEKVAES 130 (339)
Q Consensus 74 ~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~--~r~~alek~l~~ 130 (339)
.|.|-||.+-+..|| ..| ||.||+.|..+- ...|-.|....-. .-...+++++..
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 578999999999998 789 999999997643 3679999876421 233446666654
No 41
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.16 E-value=0.0021 Score=46.55 Aligned_cols=41 Identities=34% Similarity=0.924 Sum_probs=33.3
Q ss_pred eeecccCccCcccc-eeccCCc-eecccccccc----CCCCCCcccccc
Q 019539 75 LECPVCTNSMYPPI-HQCHNGH-TLCSTCKTRV----HNRCPTCRQELG 117 (339)
Q Consensus 75 l~CpIC~~~l~~Pi-~qC~~GH-~fC~~C~~~~----~~~CP~Cr~~~~ 117 (339)
-+|.||.+-..+-| +.| || -.|-.|-.++ ...||.||.++.
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 57999999888776 899 99 4899997654 368999999864
No 42
>PLN03086 PRLI-interacting factor K; Provisional
Probab=95.12 E-value=0.064 Score=56.13 Aligned_cols=50 Identities=26% Similarity=0.513 Sum_probs=38.6
Q ss_pred cCCCCCCCCCCccCcCcHHHHHhhCCCCCccCCCCCCCCccccChhHHHHHhhhcCCCCc
Q 019539 134 PCKYYHLGCPEIFPYYSKLKHEVMCTFRPYNCPYAGSDCSVVGDIPYLVAHLRDDHKVDM 193 (339)
Q Consensus 134 ~C~~~~~GC~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~~ 193 (339)
.|++ |...+...++.+|++.| +.++.|| |+....+.+|..|++..++...
T Consensus 455 ~C~~----Cgk~f~~s~LekH~~~~-Hkpv~Cp-----Cg~~~~R~~L~~H~~thCp~Kp 504 (567)
T PLN03086 455 HCEK----CGQAFQQGEMEKHMKVF-HEPLQCP-----CGVVLEKEQMVQHQASTCPLRL 504 (567)
T ss_pred cCCC----CCCccchHHHHHHHHhc-CCCccCC-----CCCCcchhHHHhhhhccCCCCc
Confidence 7887 88888888888898888 6888887 6555677888888877665543
No 43
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.05 E-value=0.016 Score=55.50 Aligned_cols=46 Identities=26% Similarity=0.766 Sum_probs=37.7
Q ss_pred eeeecccCccCcccc-eeccCCceecccccccc---CCCCCCcccccccchh
Q 019539 74 LLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGDIRC 121 (339)
Q Consensus 74 ~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~~r~ 121 (339)
-+.|-||..++..|| ..| ||.||..|..+. ...|++|.+++..+-+
T Consensus 241 Pf~c~icr~~f~~pVvt~c--~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~ 290 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKC--GHYFCEVCALKPYQKGEKCYVCSQQTHGSFN 290 (313)
T ss_pred CccccccccccccchhhcC--CceeehhhhccccccCCcceecccccccccc
Confidence 367999999999998 789 999999997654 2679999998754433
No 44
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.71 E-value=0.012 Score=56.42 Aligned_cols=39 Identities=36% Similarity=1.025 Sum_probs=33.2
Q ss_pred eeecccCccCcccc-eeccCCceeccccccccC----CCCCCccc
Q 019539 75 LECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH----NRCPTCRQ 114 (339)
Q Consensus 75 l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~----~~CP~Cr~ 114 (339)
|.||.|..+++.|+ ..| +||.||..|+.... ..||.|..
T Consensus 275 LkCplc~~Llrnp~kT~c-C~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPC-CGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCcc-ccchHHHHHHhhhhhhccccCCCccc
Confidence 99999999999998 545 39999999998542 68999976
No 45
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.57 E-value=0.013 Score=41.53 Aligned_cols=40 Identities=30% Similarity=0.919 Sum_probs=20.2
Q ss_pred ecccCccCcc---cceeccCCceecccccccc----CCCCCCccccc
Q 019539 77 CPVCTNSMYP---PIHQCHNGHTLCSTCKTRV----HNRCPTCRQEL 116 (339)
Q Consensus 77 CpIC~~~l~~---Pi~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~ 116 (339)
||+|.+.+.. -++.|++|..+|..|..++ .+.||-||++.
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 7899998832 2367999999999997665 36899999875
No 46
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.46 E-value=0.031 Score=53.70 Aligned_cols=43 Identities=28% Similarity=0.668 Sum_probs=36.0
Q ss_pred eeeecccCccCcccc-eeccCCceecccccccc----CCCCCCccccccc
Q 019539 74 LLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV----HNRCPTCRQELGD 118 (339)
Q Consensus 74 ~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~~ 118 (339)
.-+|+||+.-..-|+ +.| +|.||.-|++-. ...|++||.++..
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C--~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYC--FHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeeccCCcCccccc--cchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 346999999999887 789 999999999753 1459999999864
No 47
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.19 E-value=0.023 Score=55.43 Aligned_cols=49 Identities=31% Similarity=0.815 Sum_probs=38.9
Q ss_pred cCCCCeeeecccCccCccc---ceeccCCceecccccccc----CCCCCCccccccc
Q 019539 69 TSVHELLECPVCTNSMYPP---IHQCHNGHTLCSTCKTRV----HNRCPTCRQELGD 118 (339)
Q Consensus 69 ~~l~~~l~CpIC~~~l~~P---i~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~~ 118 (339)
++.++++ ||.|.++|-.- .+.|++|-.+|+.|+..+ .++||.||.....
T Consensus 10 sedeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 10 SEDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred ccccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 4566666 99999998743 368888999999998754 4799999987653
No 48
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.06 E-value=0.025 Score=59.04 Aligned_cols=44 Identities=30% Similarity=0.685 Sum_probs=36.7
Q ss_pred CCCeeeecccCccCcc-----c-ceeccCCceecccccccc---CCCCCCccccc
Q 019539 71 VHELLECPVCTNSMYP-----P-IHQCHNGHTLCSTCKTRV---HNRCPTCRQEL 116 (339)
Q Consensus 71 l~~~l~CpIC~~~l~~-----P-i~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~ 116 (339)
....-.|+||.+.|.. | +..| ||+|+..|+.+| ...||+||..+
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C--~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPC--GHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hhcCCeeeeechhhccccccccceeec--ccchHHHHHHHHHHHhCcCCcchhhh
Confidence 3456779999999986 4 4899 999999999887 47899999843
No 49
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=93.06 E-value=0.027 Score=41.23 Aligned_cols=33 Identities=24% Similarity=0.530 Sum_probs=22.5
Q ss_pred CCCeeeecccCccCcccce--eccCCceecccccccc
Q 019539 71 VHELLECPVCTNSMYPPIH--QCHNGHTLCSTCKTRV 105 (339)
Q Consensus 71 l~~~l~CpIC~~~l~~Pi~--qC~~GH~fC~~C~~~~ 105 (339)
-.-.+.|||...+|..|+. .| ||+|.+..+..+
T Consensus 8 ~~~~~~CPiT~~~~~~PV~s~~C--~H~fek~aI~~~ 42 (57)
T PF11789_consen 8 GTISLKCPITLQPFEDPVKSKKC--GHTFEKEAILQY 42 (57)
T ss_dssp SB--SB-TTTSSB-SSEEEESSS----EEEHHHHHHH
T ss_pred cEeccCCCCcCChhhCCcCcCCC--CCeecHHHHHHH
Confidence 3456889999999999984 67 999999888765
No 50
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.00 E-value=0.02 Score=54.70 Aligned_cols=41 Identities=34% Similarity=0.903 Sum_probs=34.9
Q ss_pred CeeeecccCccCcccc-eeccCCc-eeccccccccCCCCCCccccc
Q 019539 73 ELLECPVCTNSMYPPI-HQCHNGH-TLCSTCKTRVHNRCPTCRQEL 116 (339)
Q Consensus 73 ~~l~CpIC~~~l~~Pi-~qC~~GH-~fC~~C~~~~~~~CP~Cr~~~ 116 (339)
....|.||.+...+=+ +.| || +.|-.|-.++ +.||+||+.+
T Consensus 299 ~~~LC~ICmDaP~DCvfLeC--GHmVtCt~CGkrm-~eCPICRqyi 341 (350)
T KOG4275|consen 299 TRRLCAICMDAPRDCVFLEC--GHMVTCTKCGKRM-NECPICRQYI 341 (350)
T ss_pred HHHHHHHHhcCCcceEEeec--CcEEeehhhcccc-ccCchHHHHH
Confidence 3566999999999887 689 99 6899998887 7999999864
No 51
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.89 E-value=0.05 Score=53.36 Aligned_cols=46 Identities=33% Similarity=0.764 Sum_probs=37.8
Q ss_pred CCCCeeeecccCccCcccc-eeccCCce-ecccccccc---CCCCCCcccccc
Q 019539 70 SVHELLECPVCTNSMYPPI-HQCHNGHT-LCSTCKTRV---HNRCPTCRQELG 117 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi-~qC~~GH~-fC~~C~~~~---~~~CP~Cr~~~~ 117 (339)
+-++--+|-||+.-.++-+ +.| -|+ .|+.|-+.+ .++||+||+++.
T Consensus 286 ~~~~gkeCVIClse~rdt~vLPC--RHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 286 ESESGKECVICLSESRDTVVLPC--RHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cccCCCeeEEEecCCcceEEecc--hhhehhHhHHHHHHHhhcCCCccccchH
Confidence 4456788999999999764 789 884 999998865 378999999875
No 52
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=92.13 E-value=0.13 Score=37.40 Aligned_cols=43 Identities=26% Similarity=0.619 Sum_probs=32.4
Q ss_pred CeeeecccCccCc-ccceeccCCceeccccccccC-CCCCCcccccc
Q 019539 73 ELLECPVCTNSMY-PPIHQCHNGHTLCSTCKTRVH-NRCPTCRQELG 117 (339)
Q Consensus 73 ~~l~CpIC~~~l~-~Pi~qC~~GH~fC~~C~~~~~-~~CP~Cr~~~~ 117 (339)
....|-.|...-. .++.+| ||++|..|+.-.. +-||.|..++.
T Consensus 6 ~~~~~~~~~~~~~~~~~~pC--gH~I~~~~f~~~rYngCPfC~~~~~ 50 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPC--GHLICDNCFPGERYNGCPFCGTPFE 50 (55)
T ss_pred cceeEEEccccccccccccc--cceeeccccChhhccCCCCCCCccc
Confidence 4455667777744 456899 9999999997432 67999998875
No 53
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=92.03 E-value=0.089 Score=49.10 Aligned_cols=42 Identities=24% Similarity=0.743 Sum_probs=32.5
Q ss_pred eeeecccCccCc-ccc--eeccCCceeccccccccCC-CCCCcccccc
Q 019539 74 LLECPVCTNSMY-PPI--HQCHNGHTLCSTCKTRVHN-RCPTCRQELG 117 (339)
Q Consensus 74 ~l~CpIC~~~l~-~Pi--~qC~~GH~fC~~C~~~~~~-~CP~Cr~~~~ 117 (339)
-..|..|+.--. .|. +.| +|+||..|...... .||+|+.++.
T Consensus 3 ~VhCn~C~~~~~~~~f~LTaC--~HvfC~~C~k~~~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 3 FVHCNKCFRFPSQDPFFLTAC--RHVFCEPCLKASSPDVCPLCKKSIR 48 (233)
T ss_pred eEEeccccccCCCCceeeeec--hhhhhhhhcccCCccccccccceee
Confidence 457888877655 443 588 99999999976655 9999999864
No 54
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=91.61 E-value=0.05 Score=54.64 Aligned_cols=31 Identities=42% Similarity=0.984 Sum_probs=27.9
Q ss_pred CCCeeeecccCccCcccc-eeccCCceecccccc
Q 019539 71 VHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKT 103 (339)
Q Consensus 71 l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~ 103 (339)
+++.|+||||...+++|| +.| ||..|..|-.
T Consensus 1 meeelkc~vc~~f~~epiil~c--~h~lc~~ca~ 32 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYREPIILPC--SHNLCQACAR 32 (699)
T ss_pred CcccccCceehhhccCceEeec--ccHHHHHHHH
Confidence 368899999999999997 799 9999999964
No 55
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.93 E-value=0.13 Score=50.45 Aligned_cols=47 Identities=32% Similarity=0.841 Sum_probs=37.2
Q ss_pred cCCCCeeeecccCccCc-ccceeccCCceecccccccc-----CCCCCCcccccc
Q 019539 69 TSVHELLECPVCTNSMY-PPIHQCHNGHTLCSTCKTRV-----HNRCPTCRQELG 117 (339)
Q Consensus 69 ~~l~~~l~CpIC~~~l~-~Pi~qC~~GH~fC~~C~~~~-----~~~CP~Cr~~~~ 117 (339)
+..++.-.|-||-+-++ .-++.| ||..|.-|--++ .+.||.||....
T Consensus 56 dtDEen~~C~ICA~~~TYs~~~PC--~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 56 DTDEENMNCQICAGSTTYSARYPC--GHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccceeEEecCCceEEEeccC--CchHHHHHHHHHHHHHhccCCCccccccc
Confidence 34567778999999887 446889 999999997765 368999998643
No 56
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=90.33 E-value=0.11 Score=41.22 Aligned_cols=41 Identities=27% Similarity=0.588 Sum_probs=27.6
Q ss_pred ecccCccCcc-cceeccCCceecccccccc------CCCCCCcccccc
Q 019539 77 CPVCTNSMYP-PIHQCHNGHTLCSTCKTRV------HNRCPTCRQELG 117 (339)
Q Consensus 77 CpIC~~~l~~-Pi~qC~~GH~fC~~C~~~~------~~~CP~Cr~~~~ 117 (339)
||.|..+-.+ |+.-+.++|.|=..|+.++ ...||.||+++.
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 4555554432 5432234999999999876 268999999764
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=89.26 E-value=0.42 Score=34.23 Aligned_cols=50 Identities=28% Similarity=0.497 Sum_probs=33.2
Q ss_pred cccCCCCCCCCCCccCcCcHHHHHhhCC---CCCccCCCCCCCCccccChhHHHHHhhhcCC
Q 019539 132 ELPCKYYHLGCPEIFPYYSKLKHEVMCT---FRPYNCPYAGSDCSVVGDIPYLVAHLRDDHK 190 (339)
Q Consensus 132 ~v~C~~~~~GC~~~~~~~~~~~He~~C~---f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~ 190 (339)
.++||| |...+....+..|..+-- -..+.||. |... ...+|..|+...|.
T Consensus 2 ~f~CP~----C~~~~~~~~L~~H~~~~H~~~~~~v~CPi----C~~~-~~~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPY----CGKGFSESSLVEHCEDEHRSESKNVVCPI----CSSR-VTDNLIRHLNSQHR 54 (54)
T ss_pred CcCCCC----CCCccCHHHHHHHHHhHCcCCCCCccCCC----chhh-hhhHHHHHHHHhcC
Confidence 367887 777666667777743311 23578987 6654 33589999988874
No 58
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.87 E-value=0.22 Score=48.04 Aligned_cols=43 Identities=26% Similarity=0.767 Sum_probs=35.0
Q ss_pred CeeeecccCccCcc--c--ceeccCCceecccccccc----CCCCCCcccccc
Q 019539 73 ELLECPVCTNSMYP--P--IHQCHNGHTLCSTCKTRV----HNRCPTCRQELG 117 (339)
Q Consensus 73 ~~l~CpIC~~~l~~--P--i~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~~ 117 (339)
.-.+|.||.+-+.. - ++.| .|.|=..|+.+| ..+||+||.++.
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 34789999998863 2 2688 999999999997 378999999864
No 59
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=87.86 E-value=0.15 Score=52.55 Aligned_cols=47 Identities=26% Similarity=0.648 Sum_probs=38.7
Q ss_pred cCCCCeeeecccCccCcccc-eeccCCceecccccccc--------CCCCCCcccccc
Q 019539 69 TSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV--------HNRCPTCRQELG 117 (339)
Q Consensus 69 ~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~--------~~~CP~Cr~~~~ 117 (339)
.+......|.+|.++..++| ..| -|.||+-|+... .-.||+|...++
T Consensus 531 ~enk~~~~C~lc~d~aed~i~s~C--hH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPAEDYIESSC--HHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccccCceeecccCChhhhhHhhhh--hHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 34556788999999999998 789 899999999654 247999988765
No 60
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=86.64 E-value=0.17 Score=50.48 Aligned_cols=40 Identities=35% Similarity=0.919 Sum_probs=32.8
Q ss_pred ecccCccCccc-ceeccCCceeccccccccC-----CCCCCccccccc
Q 019539 77 CPVCTNSMYPP-IHQCHNGHTLCSTCKTRVH-----NRCPTCRQELGD 118 (339)
Q Consensus 77 CpIC~~~l~~P-i~qC~~GH~fC~~C~~~~~-----~~CP~Cr~~~~~ 118 (339)
|.||-+-=++- |-.| ||+.|..|+..|. ..||.||..+..
T Consensus 372 CKICaendKdvkIEPC--GHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 372 CKICAENDKDVKIEPC--GHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHhhccCCCcccccc--cchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 99999887753 3468 9999999998773 579999998853
No 61
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.30 E-value=0.29 Score=48.21 Aligned_cols=45 Identities=29% Similarity=0.754 Sum_probs=33.0
Q ss_pred CCCCeeeecccCccCcccc-eeccCCceec-cccccccCCCCCCcccccc
Q 019539 70 SVHELLECPVCTNSMYPPI-HQCHNGHTLC-STCKTRVHNRCPTCRQELG 117 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC-~~C~~~~~~~CP~Cr~~~~ 117 (339)
+++....|.||.+-.+.-+ ..| ||.-| -.|. +...+||.||+.+.
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 4555667999999999876 589 99866 2233 33477999998764
No 62
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=84.76 E-value=0.3 Score=41.80 Aligned_cols=45 Identities=24% Similarity=0.784 Sum_probs=36.3
Q ss_pred CeeeecccCccCcccce----eccCCceeccccccccC------CCCCCccccccc
Q 019539 73 ELLECPVCTNSMYPPIH----QCHNGHTLCSTCKTRVH------NRCPTCRQELGD 118 (339)
Q Consensus 73 ~~l~CpIC~~~l~~Pi~----qC~~GH~fC~~C~~~~~------~~CP~Cr~~~~~ 118 (339)
.+++|.||.+.-.+..+ .| +|-.+|..|...++ ..||.|+..+..
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 78999999999876643 34 29999999988753 789999998754
No 63
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=83.40 E-value=0.52 Score=47.75 Aligned_cols=45 Identities=31% Similarity=0.725 Sum_probs=37.0
Q ss_pred CCCCeeeecccCccCcccc-----eeccCCceeccccccccC-CCCCCccccc
Q 019539 70 SVHELLECPVCTNSMYPPI-----HQCHNGHTLCSTCKTRVH-NRCPTCRQEL 116 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi-----~qC~~GH~fC~~C~~~~~-~~CP~Cr~~~ 116 (339)
.+.++-+||||++-|-+-+ .-| .|.|=.+|..+|. ..||+||-..
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c--~Hsfh~~cl~~w~~~scpvcR~~q 221 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILC--NHSFHCSCLMKWWDSSCPVCRYCQ 221 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeec--ccccchHHHhhcccCcChhhhhhc
Confidence 4678889999999998654 367 8999999999885 6899998754
No 64
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.15 E-value=0.43 Score=47.20 Aligned_cols=44 Identities=25% Similarity=0.720 Sum_probs=36.0
Q ss_pred CCeeeecccCccCcccc---------eeccCCceeccccccccC----------CCCCCcccccc
Q 019539 72 HELLECPVCTNSMYPPI---------HQCHNGHTLCSTCKTRVH----------NRCPTCRQELG 117 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi---------~qC~~GH~fC~~C~~~~~----------~~CP~Cr~~~~ 117 (339)
.....|-||.+....+. -.| -|.||..|+.+|. ..||.||....
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 34778999999998665 358 8999999998873 57999999764
No 65
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.77 E-value=0.76 Score=43.95 Aligned_cols=56 Identities=32% Similarity=0.816 Sum_probs=40.2
Q ss_pred eeeecccCccCc------cc-ceeccCCceeccccccccC----CCCCCcccccc--c------chhhHHHHHhhhc
Q 019539 74 LLECPVCTNSMY------PP-IHQCHNGHTLCSTCKTRVH----NRCPTCRQELG--D------IRCLALEKVAESL 131 (339)
Q Consensus 74 ~l~CpIC~~~l~------~P-i~qC~~GH~fC~~C~~~~~----~~CP~Cr~~~~--~------~r~~alek~l~~l 131 (339)
.+.|-||.+.+. .| ++.| ||.+|..|..++. ..||.||.+.. . ..|.++-..+...
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 467999988876 24 4788 9999999999873 46899999843 2 3455555555443
No 66
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.10 E-value=0.28 Score=51.67 Aligned_cols=40 Identities=38% Similarity=0.867 Sum_probs=32.1
Q ss_pred cCCCCeeeecccCccCc----ccc-eeccCCceecccccccc-CCCCC
Q 019539 69 TSVHELLECPVCTNSMY----PPI-HQCHNGHTLCSTCKTRV-HNRCP 110 (339)
Q Consensus 69 ~~l~~~l~CpIC~~~l~----~Pi-~qC~~GH~fC~~C~~~~-~~~CP 110 (339)
....+.|.|+||+..+. .|+ .+| ||+.|+.|..++ ...||
T Consensus 6 ~~w~~~l~c~ic~n~f~~~~~~Pvsl~c--ghtic~~c~~~lyn~scp 51 (861)
T KOG3161|consen 6 LKWVLLLLCDICLNLFVVQRLEPVSLQC--GHTICGHCVQLLYNASCP 51 (861)
T ss_pred hhhHHHhhchHHHHHHHHHhcCcccccc--cchHHHHHHHhHhhccCC
Confidence 35678899999966654 577 799 999999999886 35788
No 67
>PF04641 Rtf2: Rtf2 RING-finger
Probab=81.74 E-value=1.1 Score=42.59 Aligned_cols=49 Identities=16% Similarity=0.536 Sum_probs=39.1
Q ss_pred ccCCCCeeeecccCccCcc--c-c--eeccCCceeccccccccC--CCCCCccccccc
Q 019539 68 ATSVHELLECPVCTNSMYP--P-I--HQCHNGHTLCSTCKTRVH--NRCPTCRQELGD 118 (339)
Q Consensus 68 ~~~l~~~l~CpIC~~~l~~--P-i--~qC~~GH~fC~~C~~~~~--~~CP~Cr~~~~~ 118 (339)
.......|.|||....|.. + + ..| ||+|+..++.++. ..||.|..++..
T Consensus 107 ~~~~~~~~~CPvt~~~~~~~~~fv~l~~c--G~V~s~~alke~k~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 107 GDNSEGRFICPVTGKEFNGKHKFVYLRPC--GCVFSEKALKELKKSKKCPVCGKPFTE 162 (260)
T ss_pred cccCCceeECCCCCcccCCceeEEEEcCC--CCEeeHHHHHhhcccccccccCCcccc
Confidence 3445788999999999964 2 2 377 9999999999874 379999999863
No 68
>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=80.38 E-value=0.6 Score=35.65 Aligned_cols=38 Identities=32% Similarity=0.760 Sum_probs=23.2
Q ss_pred eeecccCccCcccceeccCCceecccccccc--CCCCCCcccccc
Q 019539 75 LECPVCTNSMYPPIHQCHNGHTLCSTCKTRV--HNRCPTCRQELG 117 (339)
Q Consensus 75 l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~--~~~CP~Cr~~~~ 117 (339)
+.||.|...|..- +|+..|..|-... ...||.|.+++.
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 5799999997653 1788999998754 367999998875
No 69
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=79.21 E-value=1.2 Score=26.22 Aligned_cols=24 Identities=38% Similarity=0.740 Sum_probs=17.8
Q ss_pred ccCCCCCCCCccccChhHHHHHhhhcCC
Q 019539 163 YNCPYAGSDCSVVGDIPYLVAHLRDDHK 190 (339)
Q Consensus 163 ~~CP~~g~~C~~~g~~~~L~~Hl~~~H~ 190 (339)
+.|+. |+|......|..|++..|.
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 46776 8998888899999998774
No 70
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.49 E-value=0.3 Score=52.51 Aligned_cols=40 Identities=30% Similarity=0.741 Sum_probs=30.7
Q ss_pred eecccCccCcccc----eeccCCceeccccccccC---CCCCCcccccc
Q 019539 76 ECPVCTNSMYPPI----HQCHNGHTLCSTCKTRVH---NRCPTCRQELG 117 (339)
Q Consensus 76 ~CpIC~~~l~~Pi----~qC~~GH~fC~~C~~~~~---~~CP~Cr~~~~ 117 (339)
.||+|..-+.+-. ..| +|.||..|+..|. ..||+||..|.
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 4777776666442 356 9999999998763 78999999875
No 71
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.46 E-value=0.77 Score=46.08 Aligned_cols=41 Identities=32% Similarity=0.695 Sum_probs=33.6
Q ss_pred eeeecccCccCcccc------eeccCCceeccccccccC-----CCCCCccccc
Q 019539 74 LLECPVCTNSMYPPI------HQCHNGHTLCSTCKTRVH-----NRCPTCRQEL 116 (339)
Q Consensus 74 ~l~CpIC~~~l~~Pi------~qC~~GH~fC~~C~~~~~-----~~CP~Cr~~~ 116 (339)
--.||||++-..-|. .+| ||.|=+.|+++|. ..||.|...-
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~c--ghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQC--GHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred cccCceeeeeeeecCceEEeeecc--cccccHHHHHHHHhhhhhhhCcccCChh
Confidence 347999999988663 588 9999999999873 5799998753
No 72
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.99 E-value=1.4 Score=43.70 Aligned_cols=41 Identities=22% Similarity=0.634 Sum_probs=34.0
Q ss_pred eeecccCccCccc----ceeccCCceeccccccccC----CCCCCcccccc
Q 019539 75 LECPVCTNSMYPP----IHQCHNGHTLCSTCKTRVH----NRCPTCRQELG 117 (339)
Q Consensus 75 l~CpIC~~~l~~P----i~qC~~GH~fC~~C~~~~~----~~CP~Cr~~~~ 117 (339)
..|.||+|-+.+= ++.| +|.|=..|+..|. ..||+|+..+.
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 5899999999843 3789 9999999999873 45999998764
No 73
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=77.08 E-value=0.61 Score=35.40 Aligned_cols=44 Identities=25% Similarity=0.579 Sum_probs=17.7
Q ss_pred eeeecccCccCc----ccceecc---CCceeccccccccC--------------CCCCCcccccc
Q 019539 74 LLECPVCTNSMY----PPIHQCH---NGHTLCSTCKTRVH--------------NRCPTCRQELG 117 (339)
Q Consensus 74 ~l~CpIC~~~l~----~Pi~qC~---~GH~fC~~C~~~~~--------------~~CP~Cr~~~~ 117 (339)
.++|+||+..+. .|...|. ++..|=..|+.++. +.||.|+.++.
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 468999999865 2455563 25555566766541 45888888764
No 74
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.57 E-value=1 Score=48.02 Aligned_cols=40 Identities=40% Similarity=0.943 Sum_probs=31.7
Q ss_pred eecccCccCcccc-eeccCCc-eeccccccccC---------CCCCCcccccc
Q 019539 76 ECPVCTNSMYPPI-HQCHNGH-TLCSTCKTRVH---------NRCPTCRQELG 117 (339)
Q Consensus 76 ~CpIC~~~l~~Pi-~qC~~GH-~fC~~C~~~~~---------~~CP~Cr~~~~ 117 (339)
.|+||..-..-+. ..| || .+|.+|..++. +.||.||..+.
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 4899988888776 588 99 89999988752 45799998654
No 75
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=74.89 E-value=1.7 Score=26.35 Aligned_cols=23 Identities=35% Similarity=0.697 Sum_probs=15.5
Q ss_pred ccCCCCCCCCCCccCcCcHHHHHhhCC
Q 019539 133 LPCKYYHLGCPEIFPYYSKLKHEVMCT 159 (339)
Q Consensus 133 v~C~~~~~GC~~~~~~~~~~~He~~C~ 159 (339)
++|++ |...+....+.+|+..|.
T Consensus 3 ~~C~~----CgR~F~~~~l~~H~~~C~ 25 (25)
T PF13913_consen 3 VPCPI----CGRKFNPDRLEKHEKICK 25 (25)
T ss_pred CcCCC----CCCEECHHHHHHHHHhcC
Confidence 45665 777777777777777663
No 76
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=74.75 E-value=1.6 Score=41.79 Aligned_cols=104 Identities=17% Similarity=0.323 Sum_probs=64.5
Q ss_pred CCeeeecccCccCc-ccceeccCCceeccccccccCCCCCCcccccccchhhHHHH----HhhhccccCCCCCCCCCCcc
Q 019539 72 HELLECPVCTNSMY-PPIHQCHNGHTLCSTCKTRVHNRCPTCRQELGDIRCLALEK----VAESLELPCKYYHLGCPEIF 146 (339)
Q Consensus 72 ~~~l~CpIC~~~l~-~Pi~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~~~r~~alek----~l~~l~v~C~~~~~GC~~~~ 146 (339)
...+.|++|..... -|-+. .|+- -..+.-.|++|.+.|. |...|+. -..+-.|.|+. |...|
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 56788999998776 34332 2321 0012346888888765 3333333 33455777875 77655
Q ss_pred C-cCcHHHHHhh-CCCCCccCCCCCCCCccccChh-HHHHHhhhcCCCC
Q 019539 147 P-YYSKLKHEVM-CTFRPYNCPYAGSDCSVVGDIP-YLVAHLRDDHKVD 192 (339)
Q Consensus 147 ~-~~~~~~He~~-C~f~p~~CP~~g~~C~~~g~~~-~L~~Hl~~~H~~~ 192 (339)
- ..+++.|+.+ =..+++.|+. |+...+++ .|..|++..+...
T Consensus 226 ADRSNLRAHmQTHS~~K~~qC~~----C~KsFsl~SyLnKH~ES~C~~~ 270 (279)
T KOG2462|consen 226 ADRSNLRAHMQTHSDVKKHQCPR----CGKSFALKSYLNKHSESACLKY 270 (279)
T ss_pred cchHHHHHHHHhhcCCccccCcc----hhhHHHHHHHHHHhhhhccccc
Confidence 4 3467888753 4567888985 88877664 6678888776543
No 77
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.73 E-value=0.77 Score=38.98 Aligned_cols=48 Identities=25% Similarity=0.578 Sum_probs=30.2
Q ss_pred eccccccccCCCCCCcccccccchhhHHHHHhh-----hccccCCCCCCCCCCccCcCc
Q 019539 97 LCSTCKTRVHNRCPTCRQELGDIRCLALEKVAE-----SLELPCKYYHLGCPEIFPYYS 150 (339)
Q Consensus 97 fC~~C~~~~~~~CP~Cr~~~~~~r~~alek~l~-----~l~v~C~~~~~GC~~~~~~~~ 150 (339)
||+.|-.....+||.|..++. -+..+|.++. +.+-.|.| |...+|+.+
T Consensus 30 fcskcgeati~qcp~csasir--gd~~vegvlglg~dye~psfchn----cgs~fpwte 82 (160)
T COG4306 30 FCSKCGEATITQCPICSASIR--GDYYVEGVLGLGGDYEPPSFCHN----CGSRFPWTE 82 (160)
T ss_pred HHhhhchHHHhcCCccCCccc--ccceeeeeeccCCCCCCcchhhc----CCCCCCcHH
Confidence 899998766678999988763 2333444443 23344655 666666654
No 78
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=73.54 E-value=1.5 Score=43.60 Aligned_cols=42 Identities=31% Similarity=0.827 Sum_probs=32.9
Q ss_pred CeeeecccCccCc-cc------------c-eeccCCceecccccccc---CCCCCCccccc
Q 019539 73 ELLECPVCTNSMY-PP------------I-HQCHNGHTLCSTCKTRV---HNRCPTCRQEL 116 (339)
Q Consensus 73 ~~l~CpIC~~~l~-~P------------i-~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~ 116 (339)
++-.|.||.+-|- +| - +.| ||++=-.|.+.| ...||.||.++
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpC--GHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPC--GHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccc--cceeeHHHHHHHHHhccCCCcccCcc
Confidence 4556999998843 43 2 678 999999998876 47899999984
No 79
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.10 E-value=1.4 Score=44.15 Aligned_cols=43 Identities=33% Similarity=0.797 Sum_probs=33.0
Q ss_pred CCCeeeecccCccCc---ccc-eeccCCceeccccccccC------CCCCCcccc
Q 019539 71 VHELLECPVCTNSMY---PPI-HQCHNGHTLCSTCKTRVH------NRCPTCRQE 115 (339)
Q Consensus 71 l~~~l~CpIC~~~l~---~Pi-~qC~~GH~fC~~C~~~~~------~~CP~Cr~~ 115 (339)
....|.|||=.+--. ||+ +.| ||+.|..-+.++. .+||.|-..
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 467889999777765 787 799 9999998887763 467777543
No 80
>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=72.65 E-value=1.8 Score=35.12 Aligned_cols=41 Identities=29% Similarity=0.739 Sum_probs=15.1
Q ss_pred eeecccCccCc--cc-ceeccCCceeccccccccC-------CCCCCccccc
Q 019539 75 LECPVCTNSMY--PP-IHQCHNGHTLCSTCKTRVH-------NRCPTCRQEL 116 (339)
Q Consensus 75 l~CpIC~~~l~--~P-i~qC~~GH~fC~~C~~~~~-------~~CP~Cr~~~ 116 (339)
=.|++|...+. ++ +.+|.+||.+ .+|..... ..|+.|....
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~ 65 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRA 65 (99)
T ss_dssp --------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EE
T ss_pred ccccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEE
Confidence 35999999875 44 3799999986 56654431 5799998764
No 81
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.42 E-value=2 Score=43.22 Aligned_cols=101 Identities=22% Similarity=0.433 Sum_probs=61.6
Q ss_pred CCeeeecccCccCcccc----eeccCCceecccccccc-----------CCCCCCccccccc--------------ch--
Q 019539 72 HELLECPVCTNSMYPPI----HQCHNGHTLCSTCKTRV-----------HNRCPTCRQELGD--------------IR-- 120 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi----~qC~~GH~fC~~C~~~~-----------~~~CP~Cr~~~~~--------------~r-- 120 (339)
..++.|.||++-....+ +.| +|.||..|.... .-+||.+.-.-.. .|
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC--~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe 259 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPC--SHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARYE 259 (445)
T ss_pred hhcccceeeehhhcCcceeeeccc--chHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHHH
Confidence 56899999999988643 478 999999998753 1468875543211 01
Q ss_pred hhHHHHHhhhcc--ccCCCCCCCCCCccCcCcHHHHHhh---CCCCCc-cCCC---CCCCCccccC
Q 019539 121 CLALEKVAESLE--LPCKYYHLGCPEIFPYYSKLKHEVM---CTFRPY-NCPY---AGSDCSVVGD 177 (339)
Q Consensus 121 ~~alek~l~~l~--v~C~~~~~GC~~~~~~~~~~~He~~---C~f~p~-~CP~---~g~~C~~~g~ 177 (339)
.+.+++-++.+. +.||++ -|.... ..+...-... |.|+-| -|.. .+..|++.+.
T Consensus 260 ~l~lqk~l~~msdv~yCPr~--~Cq~p~-~~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~ 322 (445)
T KOG1814|consen 260 KLMLQKTLELMSDVVYCPRA--CCQLPV-KQDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAE 322 (445)
T ss_pred HHHHHHHHHhhcccccCChh--hccCcc-ccCchhhhhhhccCccHHHHHHHHhhcCCCcccCchH
Confidence 233455555555 899985 466544 4444444444 555544 2431 1457888765
No 82
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.72 E-value=3.6 Score=39.64 Aligned_cols=33 Identities=24% Similarity=0.629 Sum_probs=27.8
Q ss_pred CCeeeecccCccCcccc-eeccC--Cceeccccccc
Q 019539 72 HELLECPVCTNSMYPPI-HQCHN--GHTLCSTCKTR 104 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi-~qC~~--GH~fC~~C~~~ 104 (339)
...|.|-+|.+-|.+-- +||+. .|-||..|-.+
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSRe 301 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRE 301 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHH
Confidence 45599999999999876 69985 89999999653
No 83
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=71.45 E-value=3 Score=41.35 Aligned_cols=116 Identities=18% Similarity=0.368 Sum_probs=77.8
Q ss_pred CCCCeeeecccCccCcccc--e-----ec--cCCceecccccccc---------------CCCCCCccccccc---chhh
Q 019539 70 SVHELLECPVCTNSMYPPI--H-----QC--HNGHTLCSTCKTRV---------------HNRCPTCRQELGD---IRCL 122 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~Pi--~-----qC--~~GH~fC~~C~~~~---------------~~~CP~Cr~~~~~---~r~~ 122 (339)
+-+..+-||-|.+.|..-. + |= ...+-.|+.|..+. ..+||.|....+. .++.
T Consensus 203 s~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H 282 (467)
T KOG3608|consen 203 SNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTH 282 (467)
T ss_pred CCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHH
Confidence 4467889999999987421 1 11 11467788888653 1579999876653 2334
Q ss_pred HHHHHhhhccccCCCCCCCCCCc-cCcCcHHHHHhhCCCCCccCCCCCCCCcccc-ChhHHHHHhhhcCCC
Q 019539 123 ALEKVAESLELPCKYYHLGCPEI-FPYYSKLKHEVMCTFRPYNCPYAGSDCSVVG-DIPYLVAHLRDDHKV 191 (339)
Q Consensus 123 alek~l~~l~v~C~~~~~GC~~~-~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g-~~~~L~~Hl~~~H~~ 191 (339)
.+-+-.+.-.+.|.- |... +...++.+|...=.-..|.|..+ +|.+.. .+.+|..|++..|..
T Consensus 283 ~r~rHs~dkpfKCd~----Cd~~c~~esdL~kH~~~HS~~~y~C~h~--~C~~s~r~~~q~~~H~~evhEg 347 (467)
T KOG3608|consen 283 IRYRHSKDKPFKCDE----CDTRCVRESDLAKHVQVHSKTVYQCEHP--DCHYSVRTYTQMRRHFLEVHEG 347 (467)
T ss_pred HHhhhccCCCccccc----hhhhhccHHHHHHHHHhccccceecCCC--CCcHHHHHHHHHHHHHHHhccC
Confidence 445555667777764 5543 45668889987544556788775 488876 467999999998854
No 84
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.11 E-value=2.2 Score=40.24 Aligned_cols=43 Identities=19% Similarity=0.397 Sum_probs=35.3
Q ss_pred CeeeecccCccCcccc-----eeccCCceeccccccccC---CCCCCcccccc
Q 019539 73 ELLECPVCTNSMYPPI-----HQCHNGHTLCSTCKTRVH---NRCPTCRQELG 117 (339)
Q Consensus 73 ~~l~CpIC~~~l~~Pi-----~qC~~GH~fC~~C~~~~~---~~CP~Cr~~~~ 117 (339)
..+.||||.+.|..-+ ..| ||+||..|.+++. ..||+|..++.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~s--g~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPS--GHVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred cceecccchhhhcCccceEEeccC--CcEeeHHHHHHhccccccccCCCCcCc
Confidence 6789999999998532 255 9999999999874 57999988875
No 85
>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=71.00 E-value=4 Score=29.06 Aligned_cols=27 Identities=33% Similarity=0.753 Sum_probs=22.8
Q ss_pred CccCCCCCCCCccccChhHHHHHhhhcCCCC
Q 019539 162 PYNCPYAGSDCSVVGDIPYLVAHLRDDHKVD 192 (339)
Q Consensus 162 p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~ 192 (339)
.+.||+ |+...+...|..|+...|..+
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 368998 888567889999999999974
No 86
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=68.45 E-value=2.4 Score=40.00 Aligned_cols=24 Identities=21% Similarity=0.657 Sum_probs=19.8
Q ss_pred eeeecccCccCc--ccceeccCCcee
Q 019539 74 LLECPVCTNSMY--PPIHQCHNGHTL 97 (339)
Q Consensus 74 ~l~CpIC~~~l~--~Pi~qC~~GH~f 97 (339)
.|.||+|..+|. ...+.|.+||.|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 378999999997 334889999987
No 87
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=68.05 E-value=32 Score=33.06 Aligned_cols=105 Identities=23% Similarity=0.371 Sum_probs=65.6
Q ss_pred CCCeeeecccCccCcccc-eeccCCc--eeccccccccCCCCCCcccccccchhhHHHHHhhhccccCCCCCCCCCCccC
Q 019539 71 VHELLECPVCTNSMYPPI-HQCHNGH--TLCSTCKTRVHNRCPTCRQELGDIRCLALEKVAESLELPCKYYHLGCPEIFP 147 (339)
Q Consensus 71 l~~~l~CpIC~~~l~~Pi-~qC~~GH--~fC~~C~~~~~~~CP~Cr~~~~~~r~~alek~l~~l~v~C~~~~~GC~~~~~ 147 (339)
....+.|+-|...+..-- +. -| .-|..=- +....|+.|.+.......+.|-...-.|...|.. |...|.
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---RHKQTHRSLDS-KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGI----CGKAFS 198 (279)
T ss_pred cCCceeccccccccccccccc---hhhcccccccc-cccccCCCCCceeeehHHHhhHhhccCCCccccc----cccccc
Confidence 467888999888776421 10 01 1111111 2236899998877666666666666667777766 777766
Q ss_pred cC-cHHHHHhh-CCCCCccCCCCCCCCcccc-ChhHHHHHhhh
Q 019539 148 YY-SKLKHEVM-CTFRPYNCPYAGSDCSVVG-DIPYLVAHLRD 187 (339)
Q Consensus 148 ~~-~~~~He~~-C~f~p~~CP~~g~~C~~~g-~~~~L~~Hl~~ 187 (339)
.- -++.|.++ =.=+|+.||. |+... ++.+|..|++.
T Consensus 199 RPWLLQGHiRTHTGEKPF~C~h----C~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 199 RPWLLQGHIRTHTGEKPFSCPH----CGKAFADRSNLRAHMQT 237 (279)
T ss_pred chHHhhcccccccCCCCccCCc----ccchhcchHHHHHHHHh
Confidence 43 23445432 2337899996 77655 67899999986
No 88
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=67.96 E-value=1.4 Score=47.47 Aligned_cols=39 Identities=31% Similarity=0.858 Sum_probs=32.0
Q ss_pred eeecccCccCcccc-eeccCCceeccccccccC-----CCCCCccccc
Q 019539 75 LECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH-----NRCPTCRQEL 116 (339)
Q Consensus 75 l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~-----~~CP~Cr~~~ 116 (339)
+.|++|.+ ...++ ..| ||.+|..|+.+.. ..||.||..+
T Consensus 455 ~~c~ic~~-~~~~~it~c--~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRC--GHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc-cccceeecc--cchHHHHHHHhccccccCCCCcHHHHHH
Confidence 89999999 66665 789 9999999998752 4699997754
No 89
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.69 E-value=2.4 Score=40.07 Aligned_cols=35 Identities=11% Similarity=0.175 Sum_probs=28.3
Q ss_pred cCCCCeeeecccCccCcccceeccCCceeccccccc
Q 019539 69 TSVHELLECPVCTNSMYPPIHQCHNGHTLCSTCKTR 104 (339)
Q Consensus 69 ~~l~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~ 104 (339)
+++.+.-.|..|+.+..+||. |+.||+||+.||.+
T Consensus 38 DsiK~FdcCsLtLqPc~dPvi-t~~GylfdrEaILe 72 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPCRDPVI-TPDGYLFDREAILE 72 (303)
T ss_pred cccCCcceeeeecccccCCcc-CCCCeeeeHHHHHH
Confidence 344455568999999999976 77799999999875
No 90
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=67.50 E-value=2.5 Score=46.08 Aligned_cols=43 Identities=28% Similarity=0.814 Sum_probs=36.3
Q ss_pred CCeeeecccCccCcccc--eeccCCceeccccccccCCCCCCccccc
Q 019539 72 HELLECPVCTNSMYPPI--HQCHNGHTLCSTCKTRVHNRCPTCRQEL 116 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~~~~CP~Cr~~~ 116 (339)
-..-+|..|.-.|.-|. +.| ||.|=..|..+-...||.|+...
T Consensus 838 ~q~skCs~C~~~LdlP~VhF~C--gHsyHqhC~e~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 838 FQVSKCSACEGTLDLPFVHFLC--GHSYHQHCLEDKEDKCPKCLPEL 882 (933)
T ss_pred eeeeeecccCCccccceeeeec--ccHHHHHhhccCcccCCccchhh
Confidence 34568999999999885 799 99999999986668999997743
No 91
>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=66.70 E-value=1.4 Score=38.78 Aligned_cols=21 Identities=29% Similarity=0.948 Sum_probs=17.6
Q ss_pred eccccccccCCCCCCcccccc
Q 019539 97 LCSTCKTRVHNRCPTCRQELG 117 (339)
Q Consensus 97 fC~~C~~~~~~~CP~Cr~~~~ 117 (339)
||+.|-.+....||.|..++.
T Consensus 30 fC~kCG~~tI~~Cp~C~~~Ir 50 (158)
T PF10083_consen 30 FCSKCGAKTITSCPNCSTPIR 50 (158)
T ss_pred HHHHhhHHHHHHCcCCCCCCC
Confidence 899998887788999988874
No 92
>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=61.21 E-value=5.8 Score=28.46 Aligned_cols=37 Identities=22% Similarity=0.674 Sum_probs=17.9
Q ss_pred ecccCccCccc--------ceeccC-Cceecccccc---ccCCCCCCcc
Q 019539 77 CPVCTNSMYPP--------IHQCHN-GHTLCSTCKT---RVHNRCPTCR 113 (339)
Q Consensus 77 CpIC~~~l~~P--------i~qC~~-GH~fC~~C~~---~~~~~CP~Cr 113 (339)
|--|...|..+ +++|+. ++.||..|=. +.+..||-|.
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 44555565543 366654 7889999943 3346899883
No 93
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=61.11 E-value=4.2 Score=39.62 Aligned_cols=64 Identities=20% Similarity=0.497 Sum_probs=41.8
Q ss_pred eeeecccCccCccc--ceeccCCceecccccccc-CCCCCCcccccccchhhHHHHHhhhccccCCCCCCCCCCc
Q 019539 74 LLECPVCTNSMYPP--IHQCHNGHTLCSTCKTRV-HNRCPTCRQELGDIRCLALEKVAESLELPCKYYHLGCPEI 145 (339)
Q Consensus 74 ~l~CpIC~~~l~~P--i~qC~~GH~fC~~C~~~~-~~~CP~Cr~~~~~~r~~alek~l~~l~v~C~~~~~GC~~~ 145 (339)
.-.|--|..++..- ++.| -|+||-.|-... .+.||.|...+ .-+|.....-.|-|. ...||..+
T Consensus 90 VHfCd~Cd~PI~IYGRmIPC--kHvFCl~CAr~~~dK~Cp~C~d~V-----qrIeq~~~g~iFmC~-~~~GC~RT 156 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPC--KHVFCLECARSDSDKICPLCDDRV-----QRIEQIMMGGIFMCA-APHGCLRT 156 (389)
T ss_pred eEeecccCCcceeeeccccc--chhhhhhhhhcCccccCcCcccHH-----HHHHHhcccceEEee-cchhHHHH
Confidence 45588898887743 3578 899999997543 26799996644 335555444455565 35566543
No 94
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.87 E-value=2.6 Score=41.69 Aligned_cols=42 Identities=29% Similarity=0.672 Sum_probs=31.3
Q ss_pred CeeeecccCccCcccc-eeccCCceeccccccccC---CCCCCccccc
Q 019539 73 ELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH---NRCPTCRQEL 116 (339)
Q Consensus 73 ~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~~---~~CP~Cr~~~ 116 (339)
++-.||||+---...+ ..| ||.-|+.|+.++. +.|-.|+..+
T Consensus 421 Ed~lCpICyA~pi~Avf~PC--~H~SC~~CI~qHlmN~k~CFfCktTv 466 (489)
T KOG4692|consen 421 EDNLCPICYAGPINAVFAPC--SHRSCYGCITQHLMNCKRCFFCKTTV 466 (489)
T ss_pred ccccCcceecccchhhccCC--CCchHHHHHHHHHhcCCeeeEeccee
Confidence 4556999987666555 478 9999999999863 5677776654
No 95
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=60.60 E-value=4.6 Score=39.29 Aligned_cols=76 Identities=17% Similarity=0.152 Sum_probs=51.5
Q ss_pred CCCCCccccccc---chh---hHHHHHhhhccccCCCCCCCCCCccCcCcHHHHHhhCCCCCccCCCCCCCCccccChhH
Q 019539 107 NRCPTCRQELGD---IRC---LALEKVAESLELPCKYYHLGCPEIFPYYSKLKHEVMCTFRPYNCPYAGSDCSVVGDIPY 180 (339)
Q Consensus 107 ~~CP~Cr~~~~~---~r~---~alek~l~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~ 180 (339)
..||.|...+.. ..+ ++-..--.++...||. |...++...-+.=|+.+.-..++||+...+|.+...+..
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 457777776643 111 2333333367788987 888777544455678999999999998888999987755
Q ss_pred HHHHhh
Q 019539 181 LVAHLR 186 (339)
Q Consensus 181 L~~Hl~ 186 (339)
-..|.+
T Consensus 125 ~~~HE~ 130 (299)
T KOG3002|consen 125 KSKHEK 130 (299)
T ss_pred cccccc
Confidence 455543
No 96
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.69 E-value=22 Score=31.63 Aligned_cols=20 Identities=25% Similarity=0.559 Sum_probs=14.7
Q ss_pred CCeeeecccCccCcccceec
Q 019539 72 HELLECPVCTNSMYPPIHQC 91 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi~qC 91 (339)
..-++||||..++.+--..|
T Consensus 136 ~~g~KCPvC~K~V~sDd~e~ 155 (205)
T KOG0801|consen 136 HSGMKCPVCHKVVPSDDAEI 155 (205)
T ss_pred cCCccCCccccccCCCcceE
Confidence 34589999999887654555
No 97
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=58.99 E-value=1.8 Score=47.81 Aligned_cols=48 Identities=23% Similarity=0.628 Sum_probs=33.2
Q ss_pred CCCCeeeecccCccCc-----ccceeccC-Cceecccccccc-----CCCCCCcccccc
Q 019539 70 SVHELLECPVCTNSMY-----PPIHQCHN-GHTLCSTCKTRV-----HNRCPTCRQELG 117 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~-----~Pi~qC~~-GH~fC~~C~~~~-----~~~CP~Cr~~~~ 117 (339)
.+...-+|+||+.++. -|--.|+. -|-|=.+|+-+| ...||.||..++
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 3455667999999987 24434431 466667777766 368999998765
No 98
>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=57.91 E-value=3.1 Score=29.50 Aligned_cols=40 Identities=25% Similarity=0.706 Sum_probs=19.4
Q ss_pred eeeecccCccCcccc--eeccCCceecccccccc-------CCCCCCcccc
Q 019539 74 LLECPVCTNSMYPPI--HQCHNGHTLCSTCKTRV-------HNRCPTCRQE 115 (339)
Q Consensus 74 ~l~CpIC~~~l~~Pi--~qC~~GH~fC~~C~~~~-------~~~CP~Cr~~ 115 (339)
.|.||+-...+..|+ ..| -|.-|-+=..-+ .-+||.|.++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C--~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNC--KHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT----SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcC--cccceECHHHHHHHhhccCCeECcCCcCc
Confidence 378999999999998 467 888653321111 1469999763
No 99
>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=57.25 E-value=3.5 Score=39.76 Aligned_cols=39 Identities=38% Similarity=1.122 Sum_probs=28.2
Q ss_pred eecccCcc--Ccccc----eeccCCceecccccccc----CCCCCCccccc
Q 019539 76 ECPVCTNS--MYPPI----HQCHNGHTLCSTCKTRV----HNRCPTCRQEL 116 (339)
Q Consensus 76 ~CpIC~~~--l~~Pi----~qC~~GH~fC~~C~~~~----~~~CP~Cr~~~ 116 (339)
.||+|.-- +.+-+ -.| ||..|.+|..++ ...||.|...+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C--~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINEC--GHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccc--cchHHHHHHHHHHhcCCCCCCcccchh
Confidence 48888643 33333 256 999999999876 36899998765
No 100
>PHA00616 hypothetical protein
Probab=55.69 E-value=19 Score=25.07 Aligned_cols=28 Identities=25% Similarity=0.405 Sum_probs=21.9
Q ss_pred CccCCCCCCCCcccc-ChhHHHHHhhhcCCCCc
Q 019539 162 PYNCPYAGSDCSVVG-DIPYLVAHLRDDHKVDM 193 (339)
Q Consensus 162 p~~CP~~g~~C~~~g-~~~~L~~Hl~~~H~~~~ 193 (339)
|+.||. |+... .+.+|..|++..|..+.
T Consensus 1 pYqC~~----CG~~F~~~s~l~~H~r~~hg~~~ 29 (44)
T PHA00616 1 MYQCLR----CGGIFRKKKEVIEHLLSVHKQNK 29 (44)
T ss_pred CCccch----hhHHHhhHHHHHHHHHHhcCCCc
Confidence 577885 77766 46799999999998753
No 101
>PRK04023 DNA polymerase II large subunit; Validated
Probab=53.57 E-value=11 Score=42.22 Aligned_cols=45 Identities=24% Similarity=0.608 Sum_probs=33.2
Q ss_pred CCeeeecccCccCcccceecc-CCc-----eeccccccccC-CCCCCccccccc
Q 019539 72 HELLECPVCTNSMYPPIHQCH-NGH-----TLCSTCKTRVH-NRCPTCRQELGD 118 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi~qC~-~GH-----~fC~~C~~~~~-~~CP~Cr~~~~~ 118 (339)
.....||-|.... +.+.|+ ||. .+|..|..... ..||.|......
T Consensus 624 Vg~RfCpsCG~~t--~~frCP~CG~~Te~i~fCP~CG~~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 624 IGRRKCPSCGKET--FYRRCPFCGTHTEPVYRCPRCGIEVEEDECEKCGREPTP 675 (1121)
T ss_pred ccCccCCCCCCcC--CcccCCCCCCCCCcceeCccccCcCCCCcCCCCCCCCCc
Confidence 3456799999986 446787 563 59999987653 579999887653
No 102
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=52.15 E-value=9.6 Score=28.24 Aligned_cols=34 Identities=35% Similarity=0.792 Sum_probs=20.7
Q ss_pred ccccCCCCCCCCCCccCcCcH--HHHHhhCCCCCccCCCCCCCCccccC
Q 019539 131 LELPCKYYHLGCPEIFPYYSK--LKHEVMCTFRPYNCPYAGSDCSVVGD 177 (339)
Q Consensus 131 l~v~C~~~~~GC~~~~~~~~~--~~He~~C~f~p~~CP~~g~~C~~~g~ 177 (339)
.+++||| |.+...+.-. ++| -.+|.||. |+|+|+
T Consensus 26 v~F~CPn----CGe~~I~Rc~~CRk~-----g~~Y~Cp~----CGF~GP 61 (61)
T COG2888 26 VKFPCPN----CGEVEIYRCAKCRKL-----GNPYRCPK----CGFEGP 61 (61)
T ss_pred eEeeCCC----CCceeeehhhhHHHc-----CCceECCC----cCccCC
Confidence 5778887 7744433322 122 25788986 888874
No 103
>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=51.19 E-value=7.2 Score=23.97 Aligned_cols=8 Identities=38% Similarity=1.211 Sum_probs=3.6
Q ss_pred ecccCccC
Q 019539 77 CPVCTNSM 84 (339)
Q Consensus 77 CpIC~~~l 84 (339)
||.|...+
T Consensus 3 CP~C~~~V 10 (26)
T PF10571_consen 3 CPECGAEV 10 (26)
T ss_pred CCCCcCCc
Confidence 44444443
No 104
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.10 E-value=11 Score=29.08 Aligned_cols=30 Identities=37% Similarity=0.851 Sum_probs=24.5
Q ss_pred eeccCCceecccccc-ccCCCCCCccccccc
Q 019539 89 HQCHNGHTLCSTCKT-RVHNRCPTCRQELGD 118 (339)
Q Consensus 89 ~qC~~GH~fC~~C~~-~~~~~CP~Cr~~~~~ 118 (339)
..|.-.++||..|.+ ++...||.|...+..
T Consensus 23 ~ICtfEcTFCadCae~~l~g~CPnCGGelv~ 53 (84)
T COG3813 23 RICTFECTFCADCAENRLHGLCPNCGGELVA 53 (84)
T ss_pred eEEEEeeehhHhHHHHhhcCcCCCCCchhhc
Confidence 457667899999998 556899999998764
No 105
>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=49.99 E-value=11 Score=29.77 Aligned_cols=34 Identities=24% Similarity=0.513 Sum_probs=24.7
Q ss_pred CCCeeeecccCccCcccc-eeccCCceeccccccc
Q 019539 71 VHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTR 104 (339)
Q Consensus 71 l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~ 104 (339)
+.+.-.|++|...+.... .-.++||.+-..|..+
T Consensus 75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIKR 109 (109)
T ss_pred ECCCCCccCcCCcCCCceEEEeCCCeEEecccccC
Confidence 445556999999998653 3334499999999753
No 106
>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=49.01 E-value=14 Score=20.56 Aligned_cols=22 Identities=32% Similarity=0.620 Sum_probs=14.8
Q ss_pred cCCCCCCCCcccc-ChhHHHHHhhhcC
Q 019539 164 NCPYAGSDCSVVG-DIPYLVAHLRDDH 189 (339)
Q Consensus 164 ~CP~~g~~C~~~g-~~~~L~~Hl~~~H 189 (339)
.|+. |+... ...+|..|++..|
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 5665 77765 4679999998766
No 107
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=48.79 E-value=4.1 Score=43.66 Aligned_cols=47 Identities=23% Similarity=0.809 Sum_probs=38.2
Q ss_pred cCCCCeeeecccCccCcccc-eeccCCceecccccccc------CCCCCCcccccc
Q 019539 69 TSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV------HNRCPTCRQELG 117 (339)
Q Consensus 69 ~~l~~~l~CpIC~~~l~~Pi-~qC~~GH~fC~~C~~~~------~~~CP~Cr~~~~ 117 (339)
..+...++||||......|+ +.| -|.||..|+... ...||+|+..+.
T Consensus 16 ~~~~k~lEc~ic~~~~~~p~~~kc--~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 16 NAMQKILECPICLEHVKEPSLLKC--DHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred HHHhhhccCCceeEEeeccchhhh--hHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 34567889999999999996 799 899999998754 257999986654
No 108
>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=46.22 E-value=11 Score=27.49 Aligned_cols=43 Identities=28% Similarity=0.734 Sum_probs=30.3
Q ss_pred eecccCccCccc---ceeccCCceecccccccc-CCCCCCccccccc
Q 019539 76 ECPVCTNSMYPP---IHQCHNGHTLCSTCKTRV-HNRCPTCRQELGD 118 (339)
Q Consensus 76 ~CpIC~~~l~~P---i~qC~~GH~fC~~C~~~~-~~~CP~Cr~~~~~ 118 (339)
.|-.|..-|.+- -+-|.--.+||..|...+ .+.||.|...+..
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 466666665532 245655559999999876 6899999987753
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.73 E-value=8.3 Score=38.78 Aligned_cols=31 Identities=26% Similarity=0.712 Sum_probs=22.4
Q ss_pred CeeeecccC-ccCccc----ceeccCCceecccccccc
Q 019539 73 ELLECPVCT-NSMYPP----IHQCHNGHTLCSTCKTRV 105 (339)
Q Consensus 73 ~~l~CpIC~-~~l~~P----i~qC~~GH~fC~~C~~~~ 105 (339)
....|.||. +..... +..| ||.||..|+.+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C--~H~fC~~C~k~~ 180 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKC--GHRFCKDCVKQH 180 (384)
T ss_pred ccccCccCccccccHhhhHHHhcc--cchhhhHHhHHH
Confidence 467899999 444432 2347 999999999864
No 110
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=42.49 E-value=18 Score=26.69 Aligned_cols=36 Identities=28% Similarity=0.714 Sum_probs=20.0
Q ss_pred hccccCCCCCCCCCCc-cCcCcHHHHHhhCCCCCccCCCCCCCCccccC
Q 019539 130 SLELPCKYYHLGCPEI-FPYYSKLKHEVMCTFRPYNCPYAGSDCSVVGD 177 (339)
Q Consensus 130 ~l~v~C~~~~~GC~~~-~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~ 177 (339)
..++.||+ |.+. +..-..=.- ...+|.||. |+|+|+
T Consensus 23 ~~~F~CPn----CG~~~I~RC~~CRk----~~~~Y~CP~----CGF~GP 59 (59)
T PRK14890 23 AVKFLCPN----CGEVIIYRCEKCRK----QSNPYTCPK----CGFEGP 59 (59)
T ss_pred cCEeeCCC----CCCeeEeechhHHh----cCCceECCC----CCCcCc
Confidence 35677776 6655 222111111 136788986 888874
No 111
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=41.72 E-value=21 Score=27.39 Aligned_cols=36 Identities=28% Similarity=0.453 Sum_probs=20.2
Q ss_pred HHHHhhCCCCCccCCCCCCCCcccc-ChhHHHHHhhhc-CCC
Q 019539 152 LKHEVMCTFRPYNCPYAGSDCSVVG-DIPYLVAHLRDD-HKV 191 (339)
Q Consensus 152 ~~He~~C~f~p~~CP~~g~~C~~~g-~~~~L~~Hl~~~-H~~ 191 (339)
..+...-......|+. |+... +...|..|++.. |..
T Consensus 40 ~~~~~~~~~~~~~C~~----C~~~f~s~~~l~~Hm~~~~H~~ 77 (100)
T PF12756_consen 40 LNYLRKKVKESFRCPY----CNKTFRSREALQEHMRSKHHKK 77 (100)
T ss_dssp ---------SSEEBSS----SS-EESSHHHHHHHHHHTTTTC
T ss_pred ccccccccCCCCCCCc----cCCCCcCHHHHHHHHcCccCCC
Confidence 3444444444788987 77765 678999999976 554
No 112
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=40.47 E-value=7.4 Score=30.57 Aligned_cols=42 Identities=26% Similarity=0.554 Sum_probs=27.3
Q ss_pred eecccCccCcccceeccC---------------CceeccccccccC---CCCCCcccccc
Q 019539 76 ECPVCTNSMYPPIHQCHN---------------GHTLCSTCKTRVH---NRCPTCRQELG 117 (339)
Q Consensus 76 ~CpIC~~~l~~Pi~qC~~---------------GH~fC~~C~~~~~---~~CP~Cr~~~~ 117 (339)
.|.||...+..+-.+|.. .|.|=-.|+.++. +.||.+|+.+.
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 366666666554333432 5677777887763 68999998764
No 113
>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=40.32 E-value=15 Score=29.40 Aligned_cols=37 Identities=27% Similarity=0.792 Sum_probs=29.7
Q ss_pred eeecccCccCcccceeccCCceeccccccccCCCCCCccccccc
Q 019539 75 LECPVCTNSMYPPIHQCHNGHTLCSTCKTRVHNRCPTCRQELGD 118 (339)
Q Consensus 75 l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~~~~CP~Cr~~~~~ 118 (339)
-.|-+|..-+..| |+.||..|--+. +.|..|...+..
T Consensus 45 ~~C~~CK~~v~q~------g~~YCq~CAYkk-GiCamCGKki~d 81 (90)
T PF10235_consen 45 SKCKICKTKVHQP------GAKYCQTCAYKK-GICAMCGKKILD 81 (90)
T ss_pred ccccccccccccC------CCccChhhhccc-CcccccCCeecc
Confidence 3599998877665 999999997764 789999987743
No 114
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.21 E-value=19 Score=33.19 Aligned_cols=38 Identities=29% Similarity=0.778 Sum_probs=27.9
Q ss_pred ecccCccCcccc-eeccCCc-eeccccccccCCCCCCcccccc
Q 019539 77 CPVCTNSMYPPI-HQCHNGH-TLCSTCKTRVHNRCPTCRQELG 117 (339)
Q Consensus 77 CpIC~~~l~~Pi-~qC~~GH-~fC~~C~~~~~~~CP~Cr~~~~ 117 (339)
|-.|.+--..-+ +.| -| .+|..|-..+ ..||.|+.+..
T Consensus 161 Cr~C~~~~~~VlllPC--rHl~lC~~C~~~~-~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPC--RHLCLCGICDESL-RICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecc--cceEecccccccC-ccCCCCcChhh
Confidence 888877655433 578 55 7999998763 67999988643
No 115
>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=39.86 E-value=13 Score=35.76 Aligned_cols=42 Identities=29% Similarity=0.578 Sum_probs=19.5
Q ss_pred eeeecccCccCcccceeccC--C--ceeccccccccC---CCCCCcccc
Q 019539 74 LLECPVCTNSMYPPIHQCHN--G--HTLCSTCKTRVH---NRCPTCRQE 115 (339)
Q Consensus 74 ~l~CpIC~~~l~~Pi~qC~~--G--H~fC~~C~~~~~---~~CP~Cr~~ 115 (339)
.-.||||...-.--++.=.. | +.+|+.|-..|. ..||.|...
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 35799999875543332221 5 579999988873 679999664
No 116
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=39.57 E-value=24 Score=40.52 Aligned_cols=43 Identities=33% Similarity=0.845 Sum_probs=31.0
Q ss_pred CeeeecccCccCcccceecc-CCce-----eccccccccC------CCCCCcccccc
Q 019539 73 ELLECPVCTNSMYPPIHQCH-NGHT-----LCSTCKTRVH------NRCPTCRQELG 117 (339)
Q Consensus 73 ~~l~CpIC~~~l~~Pi~qC~-~GH~-----fC~~C~~~~~------~~CP~Cr~~~~ 117 (339)
..+.||-|...... ..|+ ||.. .|..|-.++. ..||.|..++.
T Consensus 666 ~~rkCPkCG~~t~~--~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 666 GRRRCPSCGTETYE--NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EEEECCCCCCcccc--ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 46889999997543 2565 4754 5999987652 27999998765
No 117
>PF12773 DZR: Double zinc ribbon
Probab=39.02 E-value=21 Score=24.55 Aligned_cols=6 Identities=50% Similarity=1.658 Sum_probs=2.7
Q ss_pred CCCccc
Q 019539 109 CPTCRQ 114 (339)
Q Consensus 109 CP~Cr~ 114 (339)
||.|..
T Consensus 32 C~~Cg~ 37 (50)
T PF12773_consen 32 CPNCGA 37 (50)
T ss_pred CcCCcC
Confidence 444444
No 118
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=37.91 E-value=22 Score=38.23 Aligned_cols=9 Identities=33% Similarity=0.789 Sum_probs=4.9
Q ss_pred eecccCccC
Q 019539 76 ECPVCTNSM 84 (339)
Q Consensus 76 ~CpIC~~~l 84 (339)
.||-|....
T Consensus 3 ~Cp~Cg~~n 11 (645)
T PRK14559 3 ICPQCQFEN 11 (645)
T ss_pred cCCCCCCcC
Confidence 466665543
No 119
>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=37.48 E-value=23 Score=26.10 Aligned_cols=33 Identities=30% Similarity=0.784 Sum_probs=16.4
Q ss_pred CCeeeecccCccCcccc--eeccC-Cceeccccccc
Q 019539 72 HELLECPVCTNSMYPPI--HQCHN-GHTLCSTCKTR 104 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi--~qC~~-GH~fC~~C~~~ 104 (339)
.+.-.|.+|...|..-. ..|.. |++||+.|...
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 44567999999986322 44542 99999999865
No 120
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=37.44 E-value=37 Score=27.68 Aligned_cols=38 Identities=24% Similarity=0.582 Sum_probs=24.1
Q ss_pred cCCccCCCCeeeecccCccCc-ccceeccCCceecccccc
Q 019539 65 IAPATSVHELLECPVCTNSMY-PPIHQCHNGHTLCSTCKT 103 (339)
Q Consensus 65 ~~~~~~l~~~l~CpIC~~~l~-~Pi~qC~~GH~fC~~C~~ 103 (339)
+.....++..+.||-|.+... .++-. .-+|+.|..|-.
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 444567789999999996422 23333 336777777754
No 121
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.09 E-value=10 Score=38.08 Aligned_cols=38 Identities=37% Similarity=0.885 Sum_probs=28.1
Q ss_pred eeecccCccCc-----ccceeccCCceecccccccc-----C-CCCCCccc
Q 019539 75 LECPVCTNSMY-----PPIHQCHNGHTLCSTCKTRV-----H-NRCPTCRQ 114 (339)
Q Consensus 75 l~CpIC~~~l~-----~Pi~qC~~GH~fC~~C~~~~-----~-~~CP~Cr~ 114 (339)
-.|.||-+..- .||..| ||+|=-.|+..| + ..||.|+-
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 36999955432 255578 999999999876 2 37999983
No 122
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=36.20 E-value=16 Score=35.76 Aligned_cols=42 Identities=31% Similarity=0.782 Sum_probs=28.1
Q ss_pred CCCCeeeecccCccCc---ccc-eeccCCceeccccccccC------CCCCCcc
Q 019539 70 SVHELLECPVCTNSMY---PPI-HQCHNGHTLCSTCKTRVH------NRCPTCR 113 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~---~Pi-~qC~~GH~fC~~C~~~~~------~~CP~Cr 113 (339)
.+...|.|||=.+.-. ||+ +.| ||++-..-..+++ .+||.|.
T Consensus 332 hfHs~FiCPVlKe~~t~ENpP~ml~C--gHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 332 HFHSLFICPVLKELCTDENPPVMLEC--GHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred cccceeeccccHhhhcccCCCeeeec--cceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 4578999999777665 676 789 9987554444332 3566663
No 123
>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=36.15 E-value=17 Score=37.63 Aligned_cols=68 Identities=25% Similarity=0.512 Sum_probs=37.9
Q ss_pred CCCeeeecccCccCcccceeccC---CceeccccccccC---------------CCCCCcccccccchhh--------HH
Q 019539 71 VHELLECPVCTNSMYPPIHQCHN---GHTLCSTCKTRVH---------------NRCPTCRQELGDIRCL--------AL 124 (339)
Q Consensus 71 l~~~l~CpIC~~~l~~Pi~qC~~---GH~fC~~C~~~~~---------------~~CP~Cr~~~~~~r~~--------al 124 (339)
|.+++-|..|..+-.+- |.. --.||..|+..+. ..||.|...+.....- .-
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 56677788887765532 221 1257777765431 3599998877532110 00
Q ss_pred HHHhhhccccCCCCCCCCCCc
Q 019539 125 EKVAESLELPCKYYHLGCPEI 145 (339)
Q Consensus 125 ek~l~~l~v~C~~~~~GC~~~ 145 (339)
...-....+.|.| |.|.
T Consensus 79 ~~~~~~~~l~C~~----C~Ws 95 (483)
T PF05502_consen 79 DSGGKPYYLSCSY----CRWS 95 (483)
T ss_pred cCCCCCEEEECCC----ceee
Confidence 1112345668887 8885
No 124
>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=34.98 E-value=12 Score=22.97 Aligned_cols=24 Identities=25% Similarity=0.398 Sum_probs=14.2
Q ss_pred ccCCCCCCCCCCccCcCcHHHHHhhCC
Q 019539 133 LPCKYYHLGCPEIFPYYSKLKHEVMCT 159 (339)
Q Consensus 133 v~C~~~~~GC~~~~~~~~~~~He~~C~ 159 (339)
+.|||. -...++..++..|...|+
T Consensus 3 v~CPyn---~~H~v~~~~l~~Hi~~C~ 26 (27)
T PF05253_consen 3 VRCPYN---PSHRVPASELQKHIKKCP 26 (27)
T ss_dssp EE-TTT---SS-EEEGGGHHHHHHHHH
T ss_pred eeCCCC---CCcCcCHHHHHHHHHHcC
Confidence 456663 456677777777777663
No 125
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=34.39 E-value=38 Score=37.00 Aligned_cols=42 Identities=31% Similarity=0.734 Sum_probs=30.7
Q ss_pred CCeeeecccCccCcccceecc--------CCceeccccccc--cCCCCCCcccc
Q 019539 72 HELLECPVCTNSMYPPIHQCH--------NGHTLCSTCKTR--VHNRCPTCRQE 115 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi~qC~--------~GH~fC~~C~~~--~~~~CP~Cr~~ 115 (339)
...+.|..|..++.-| .|. .|.+.|..|-.+ ....||.|...
T Consensus 433 s~~l~C~~Cg~v~~Cp--~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 433 APLLLCRDCGYIAECP--NCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred cceeecccCCCcccCC--CCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 3467788888888765 232 367899999765 34789999886
No 126
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=34.06 E-value=14 Score=36.37 Aligned_cols=44 Identities=23% Similarity=0.452 Sum_probs=31.4
Q ss_pred CCeeeecccCccCcccceeccCCceecccccccc---CCCCCCcccc
Q 019539 72 HELLECPVCTNSMYPPIHQCHNGHTLCSTCKTRV---HNRCPTCRQE 115 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~~---~~~CP~Cr~~ 115 (339)
.+.-.||||..--..|..-=..|-+||-+|+-+. .+.||+=..+
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 3455699999988887432223999999998764 3789974333
No 127
>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=33.12 E-value=29 Score=33.91 Aligned_cols=42 Identities=29% Similarity=0.661 Sum_probs=28.5
Q ss_pred CeeeecccCccCcccc-eec--cCC--ceeccccccccC---CCCCCccc
Q 019539 73 ELLECPVCTNSMYPPI-HQC--HNG--HTLCSTCKTRVH---NRCPTCRQ 114 (339)
Q Consensus 73 ~~l~CpIC~~~l~~Pi-~qC--~~G--H~fC~~C~~~~~---~~CP~Cr~ 114 (339)
..-.||||...-.--+ ..- ..| +..|+.|-..|. .+||.|..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 3457999998764332 221 235 578999988874 57999965
No 128
>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=32.09 E-value=35 Score=30.64 Aligned_cols=47 Identities=17% Similarity=0.130 Sum_probs=28.0
Q ss_pred cccccccchhhHHHHHhhhccccCCCCCCCCCCccCcCcHHHHHhhC
Q 019539 112 CRQELGDIRCLALEKVAESLELPCKYYHLGCPEIFPYYSKLKHEVMC 158 (339)
Q Consensus 112 Cr~~~~~~r~~alek~l~~l~v~C~~~~~GC~~~~~~~~~~~He~~C 158 (339)
|...+....-..=|+...-.+..||....||.|.+++.++.+|....
T Consensus 24 C~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~ 70 (198)
T PF03145_consen 24 CTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDK 70 (198)
T ss_dssp ---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHH
T ss_pred CcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHH
Confidence 44444443334456666777889998778999999999999998653
No 129
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=31.93 E-value=30 Score=24.61 Aligned_cols=31 Identities=29% Similarity=0.714 Sum_probs=20.9
Q ss_pred eec--ccCccCcc------cceec-cCCceeccccccccC
Q 019539 76 ECP--VCTNSMYP------PIHQC-HNGHTLCSTCKTRVH 106 (339)
Q Consensus 76 ~Cp--IC~~~l~~------Pi~qC-~~GH~fC~~C~~~~~ 106 (339)
-|| -|..++.. +.++| .+|+.||..|...+.
T Consensus 20 ~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 20 WCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCC
Confidence 477 66555542 23677 569999999987653
No 130
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.91 E-value=17 Score=34.88 Aligned_cols=41 Identities=22% Similarity=0.634 Sum_probs=30.0
Q ss_pred eeecccCccCccc---------c--eeccCCceecccccccc-----CCCCCCcccccc
Q 019539 75 LECPVCTNSMYPP---------I--HQCHNGHTLCSTCKTRV-----HNRCPTCRQELG 117 (339)
Q Consensus 75 l~CpIC~~~l~~P---------i--~qC~~GH~fC~~C~~~~-----~~~CP~Cr~~~~ 117 (339)
-.|.||..-+..- + +.| +|+|=..|+.-+ ...||.|++.+.
T Consensus 225 ~vCaVCg~~~~~s~~eegvienty~LsC--nHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 225 SVCAVCGQQIDVSVDEEGVIENTYKLSC--NHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred chhHhhcchheeecchhhhhhhheeeec--ccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 3489998776532 2 467 999988888754 368999988764
No 131
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=31.88 E-value=22 Score=21.11 Aligned_cols=7 Identities=43% Similarity=1.279 Sum_probs=3.4
Q ss_pred CCCCccc
Q 019539 108 RCPTCRQ 114 (339)
Q Consensus 108 ~CP~Cr~ 114 (339)
.||.|..
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 4555544
No 132
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=31.73 E-value=22 Score=24.85 Aligned_cols=33 Identities=18% Similarity=0.509 Sum_probs=22.3
Q ss_pred CCeeeecccCccCcccceeccCCceeccccccc
Q 019539 72 HELLECPVCTNSMYPPIHQCHNGHTLCSTCKTR 104 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~~ 104 (339)
.+=|.|..|...|.+..+.=.+|.++|..|..+
T Consensus 24 ~~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 24 PECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp TTTSBETTTTCBTTTSSEEEETTEEEEHHHHHH
T ss_pred ccccccCCCCCccCCCeeEeECCEEECHHHHhh
Confidence 456778888888876544344578888877643
No 133
>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=31.70 E-value=28 Score=19.70 Aligned_cols=21 Identities=33% Similarity=0.687 Sum_probs=14.6
Q ss_pred ccCCCCCCCCccccC-hhHHHHHhhh
Q 019539 163 YNCPYAGSDCSVVGD-IPYLVAHLRD 187 (339)
Q Consensus 163 ~~CP~~g~~C~~~g~-~~~L~~Hl~~ 187 (339)
+.||. |+.... ...|..|++.
T Consensus 1 y~C~~----C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPI----CGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETT----TTEEESSHHHHHHHHHH
T ss_pred CCCCC----CCCccCCHHHHHHHHhH
Confidence 35764 777664 5688888875
No 134
>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=31.57 E-value=35 Score=24.14 Aligned_cols=33 Identities=21% Similarity=0.500 Sum_probs=19.0
Q ss_pred Ceeeecc--cCccCccc----c--eecc-CCceecccccccc
Q 019539 73 ELLECPV--CTNSMYPP----I--HQCH-NGHTLCSTCKTRV 105 (339)
Q Consensus 73 ~~l~CpI--C~~~l~~P----i--~qC~-~GH~fC~~C~~~~ 105 (339)
+..-||- |..++... . ++|. +|+.||..|...+
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 3347987 99888732 1 5677 6899999998765
No 135
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=31.36 E-value=13 Score=35.01 Aligned_cols=40 Identities=35% Similarity=0.947 Sum_probs=28.2
Q ss_pred eeeecccCc--cCcccc--e---eccCCceecccccccc----CCCCC--Ccccc
Q 019539 74 LLECPVCTN--SMYPPI--H---QCHNGHTLCSTCKTRV----HNRCP--TCRQE 115 (339)
Q Consensus 74 ~l~CpIC~~--~l~~Pi--~---qC~~GH~fC~~C~~~~----~~~CP--~Cr~~ 115 (339)
.-.||+|.. +|.|-+ + .| =|..|.+|..++ ...|| -|.+-
T Consensus 10 d~~CPvCksDrYLnPdik~linPEC--yHrmCESCvdRIFs~GpAqCP~~gC~kI 62 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPEC--YHRMCESCVDRIFSRGPAQCPYKGCGKI 62 (314)
T ss_pred cccCCccccccccCCCeEEEECHHH--HHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence 346999974 344444 2 47 899999999886 36899 57553
No 136
>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=30.91 E-value=14 Score=25.69 Aligned_cols=38 Identities=24% Similarity=0.467 Sum_probs=26.9
Q ss_pred CCCCcccccccchhhHHHHHhhhccccCCCCCCCCCCccC
Q 019539 108 RCPTCRQELGDIRCLALEKVAESLELPCKYYHLGCPEIFP 147 (339)
Q Consensus 108 ~CP~Cr~~~~~~r~~alek~l~~l~v~C~~~~~GC~~~~~ 147 (339)
.||.|...........+.+.+.++-..|.|.+ |.+.+.
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~~~~Y~qC~N~~--Cg~tfv 38 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLTRELYCQCTNPE--CGHTFV 38 (47)
T ss_pred CcCCCCCeeEEEEchhhCcceEEEEEEECCCc--CCCEEE
Confidence 49999887655555667777788888898864 555443
No 137
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=30.34 E-value=16 Score=25.92 Aligned_cols=29 Identities=38% Similarity=0.941 Sum_probs=20.1
Q ss_pred ceeccCCceecccccccc---CCCCCCcccccc
Q 019539 88 IHQCHNGHTLCSTCKTRV---HNRCPTCRQELG 117 (339)
Q Consensus 88 i~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 117 (339)
...|. .|-.|-.|+..+ +..||.|..++.
T Consensus 15 Li~C~-dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 15 LIKCS-DHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp EEE-S-S-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred eeeec-chhHHHHHHHHHhccccCCCcccCcCc
Confidence 35674 799999999865 478999998875
No 138
>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=29.00 E-value=23 Score=23.11 Aligned_cols=22 Identities=18% Similarity=0.318 Sum_probs=11.2
Q ss_pred ccCCCCCCCCCCccCcCcHHHHHhhC
Q 019539 133 LPCKYYHLGCPEIFPYYSKLKHEVMC 158 (339)
Q Consensus 133 v~C~~~~~GC~~~~~~~~~~~He~~C 158 (339)
+.|+| |.-.+.-..+..|++.|
T Consensus 5 ~~C~n----C~R~v~a~RfA~HLekC 26 (33)
T PF08209_consen 5 VECPN----CGRPVAASRFAPHLEKC 26 (33)
T ss_dssp EE-TT----TSSEEEGGGHHHHHHHH
T ss_pred EECCC----CcCCcchhhhHHHHHHH
Confidence 44554 55555555555555544
No 139
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=28.14 E-value=8.6 Score=43.95 Aligned_cols=46 Identities=28% Similarity=0.765 Sum_probs=36.9
Q ss_pred CCCCeeeecccCccCcc--cceeccCCceecccccccc---CCCCCCcccccc
Q 019539 70 SVHELLECPVCTNSMYP--PIHQCHNGHTLCSTCKTRV---HNRCPTCRQELG 117 (339)
Q Consensus 70 ~l~~~l~CpIC~~~l~~--Pi~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 117 (339)
.+.....|++|++++.. -|++| ||-+|.+|...+ ...||.|....+
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 45667789999999993 36899 999999998765 368999986543
No 140
>smart00301 DM Doublesex DNA-binding motif.
Probab=28.09 E-value=34 Score=24.87 Aligned_cols=36 Identities=25% Similarity=0.339 Sum_probs=27.0
Q ss_pred ccCcCcHHHHHhhCCCCCccCCCCCCCCccccChhHHHHH
Q 019539 145 IFPYYSKLKHEVMCTFRPYNCPYAGSDCSVVGDIPYLVAH 184 (339)
Q Consensus 145 ~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~H 184 (339)
-+....++.|-..|+|+.+.|+- |..+..+..++..
T Consensus 11 Hg~~~~lKGHKr~C~~r~C~C~k----C~Li~~Rq~vma~ 46 (54)
T smart00301 11 HGVKVPLKGHKPECPFRDCECEK----CTLVEKRRALMAL 46 (54)
T ss_pred CCCeeccCCcCCCCCCCCCcCCC----CcChHHHHHHHHH
Confidence 34455678899999999999985 8887766655544
No 141
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=26.84 E-value=40 Score=33.21 Aligned_cols=43 Identities=30% Similarity=0.857 Sum_probs=33.7
Q ss_pred eeecccCccCc---ccceeccCCceecccccccc---CCCCCCcccccc
Q 019539 75 LECPVCTNSMY---PPIHQCHNGHTLCSTCKTRV---HNRCPTCRQELG 117 (339)
Q Consensus 75 l~CpIC~~~l~---~Pi~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~ 117 (339)
-.||+|.+.+. .+.+.|++|+..|-.|.... ...||.||.+..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 45999999874 34467888999999998775 378999997654
No 142
>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=26.52 E-value=37 Score=20.67 Aligned_cols=14 Identities=21% Similarity=0.214 Sum_probs=5.1
Q ss_pred CccccChhHHHHHh
Q 019539 172 CSVVGDIPYLVAHL 185 (339)
Q Consensus 172 C~~~g~~~~L~~Hl 185 (339)
|.+..+...+-.|+
T Consensus 7 C~~~v~~~~in~HL 20 (26)
T smart00734 7 CFREVPENLINSHL 20 (26)
T ss_pred CcCcccHHHHHHHH
Confidence 33333333333333
No 143
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.24 E-value=53 Score=27.40 Aligned_cols=38 Identities=26% Similarity=0.612 Sum_probs=24.9
Q ss_pred eecccCccCccc------------ceeccC-Cceecccccccc---CCCCCCcc
Q 019539 76 ECPVCTNSMYPP------------IHQCHN-GHTLCSTCKTRV---HNRCPTCR 113 (339)
Q Consensus 76 ~CpIC~~~l~~P------------i~qC~~-GH~fC~~C~~~~---~~~CP~Cr 113 (339)
.|--|...|..+ .++|+. .+.||.+|-.-+ ...||-|.
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 377777766532 366654 678999985432 46799884
No 144
>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=26.15 E-value=60 Score=33.76 Aligned_cols=41 Identities=29% Similarity=0.737 Sum_probs=26.6
Q ss_pred CeeeecccCccCcccceecc--------CCceecccccccc--CCCCCCcccc
Q 019539 73 ELLECPVCTNSMYPPIHQCH--------NGHTLCSTCKTRV--HNRCPTCRQE 115 (339)
Q Consensus 73 ~~l~CpIC~~~l~~Pi~qC~--------~GH~fC~~C~~~~--~~~CP~Cr~~ 115 (339)
..+.|.-|..++.-| .|. .+...|..|-.+. ...||.|...
T Consensus 212 ~~~~C~~Cg~~~~C~--~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 212 KNLLCRSCGYILCCP--NCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred CeeEhhhCcCccCCC--CCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 345677777777655 232 2456788886653 3689999764
No 145
>PRK05580 primosome assembly protein PriA; Validated
Probab=25.03 E-value=62 Score=34.96 Aligned_cols=42 Identities=21% Similarity=0.455 Sum_probs=24.9
Q ss_pred eeeecccCccCcccc------eeccCCceecccccccc--CCCCCCcccc
Q 019539 74 LLECPVCTNSMYPPI------HQCHNGHTLCSTCKTRV--HNRCPTCRQE 115 (339)
Q Consensus 74 ~l~CpIC~~~l~~Pi------~qC~~GH~fC~~C~~~~--~~~CP~Cr~~ 115 (339)
.+.|.-|..+++-|. +.=..+...|..|-.+. ...||.|...
T Consensus 381 ~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 381 FLLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred ceEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCC
Confidence 455666666555331 10012456899997653 3689999775
No 146
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=23.89 E-value=33 Score=34.15 Aligned_cols=22 Identities=36% Similarity=0.845 Sum_probs=11.9
Q ss_pred ecccCccCcccceeccCCceeccccc
Q 019539 77 CPVCTNSMYPPIHQCHNGHTLCSTCK 102 (339)
Q Consensus 77 CpIC~~~l~~Pi~qC~~GH~fC~~C~ 102 (339)
||||.+-...--+ |-+-|.+|+
T Consensus 18 CPVCGDkVSGYHY----GLLTCESCK 39 (475)
T KOG4218|consen 18 CPVCGDKVSGYHY----GLLTCESCK 39 (475)
T ss_pred cccccCcccccee----eeeehhhhh
Confidence 7777776654322 444555554
No 147
>PRK00420 hypothetical protein; Validated
Probab=23.52 E-value=45 Score=27.83 Aligned_cols=25 Identities=24% Similarity=0.732 Sum_probs=16.8
Q ss_pred eeecccCccCcccceeccCCceecccccc
Q 019539 75 LECPVCTNSMYPPIHQCHNGHTLCSTCKT 103 (339)
Q Consensus 75 l~CpIC~~~l~~Pi~qC~~GH~fC~~C~~ 103 (339)
-.||+|..+|..- .+|..||..|-.
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 5699999776642 237777666654
No 148
>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 PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=22.51 E-value=69 Score=18.77 Aligned_cols=25 Identities=24% Similarity=0.514 Sum_probs=17.3
Q ss_pred CccCCCCCCCCcccc-ChhHHHHHhhhcCC
Q 019539 162 PYNCPYAGSDCSVVG-DIPYLVAHLRDDHK 190 (339)
Q Consensus 162 p~~CP~~g~~C~~~g-~~~~L~~Hl~~~H~ 190 (339)
|+.|.. |+... ....|..|.+..|+
T Consensus 1 ~~~C~~----C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDE----CGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETT----TTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCc----cCCccCChhHHHHHhHHhcC
Confidence 456764 76655 56899999976654
No 150
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=22.49 E-value=1e+02 Score=34.16 Aligned_cols=30 Identities=33% Similarity=0.850 Sum_probs=21.3
Q ss_pred eeecccCccCccc---c----eecc-CCceeccccccc
Q 019539 75 LECPVCTNSMYPP---I----HQCH-NGHTLCSTCKTR 104 (339)
Q Consensus 75 l~CpIC~~~l~~P---i----~qC~-~GH~fC~~C~~~ 104 (339)
-.|..|...|..- + .-|. ||.+||..|-.+
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSn 498 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITK 498 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCC
Confidence 4599999999531 1 2243 299999999864
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=22.12 E-value=68 Score=20.45 Aligned_cols=9 Identities=33% Similarity=0.863 Sum_probs=6.4
Q ss_pred CCCCCcccc
Q 019539 107 NRCPTCRQE 115 (339)
Q Consensus 107 ~~CP~Cr~~ 115 (339)
..||.|..+
T Consensus 18 ~~CP~Cg~~ 26 (33)
T cd00350 18 WVCPVCGAP 26 (33)
T ss_pred CcCcCCCCc
Confidence 478888664
No 152
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=21.82 E-value=66 Score=31.51 Aligned_cols=42 Identities=26% Similarity=0.647 Sum_probs=28.5
Q ss_pred CeeeecccCccCcccce--eccCC--ceeccccccccC---CCCCCccc
Q 019539 73 ELLECPVCTNSMYPPIH--QCHNG--HTLCSTCKTRVH---NRCPTCRQ 114 (339)
Q Consensus 73 ~~l~CpIC~~~l~~Pi~--qC~~G--H~fC~~C~~~~~---~~CP~Cr~ 114 (339)
..-.||||...-.--+. .=..| +..|+.|-..|. .+||.|..
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 45679999987542221 11336 578999988874 57999965
No 153
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=21.26 E-value=41 Score=25.86 Aligned_cols=45 Identities=16% Similarity=0.428 Sum_probs=27.1
Q ss_pred CCCCcccccccchhhHHHHHhhhccccCCCCCCCCCCccCcCcHHHH
Q 019539 108 RCPTCRQELGDIRCLALEKVAESLELPCKYYHLGCPEIFPYYSKLKH 154 (339)
Q Consensus 108 ~CP~Cr~~~~~~r~~alek~l~~l~v~C~~~~~GC~~~~~~~~~~~H 154 (339)
.||.|+...-....+.+...+..+...|.|- .|...+...+-..|
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 6999988763334455555566677778774 36555544443333
No 154
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=20.83 E-value=40 Score=32.46 Aligned_cols=58 Identities=28% Similarity=0.702 Sum_probs=39.8
Q ss_pred eeeecccCccCcc----c-ceeccCCceecccccccc---CCCCCCccccccc--chhhHHHHHhhhcccc
Q 019539 74 LLECPVCTNSMYP----P-IHQCHNGHTLCSTCKTRV---HNRCPTCRQELGD--IRCLALEKVAESLELP 134 (339)
Q Consensus 74 ~l~CpIC~~~l~~----P-i~qC~~GH~fC~~C~~~~---~~~CP~Cr~~~~~--~r~~alek~l~~l~v~ 134 (339)
...||+|.+.+.. | ++.| ||..=..|.... ...||.|.. +.. .-..-++++|+.-++|
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~C--gH~~h~~cf~e~~~~~y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p 225 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKC--GHYMHSRCFEEMICEGYTCPICSK-PGDMSHYFRKLDKELAGSPMP 225 (276)
T ss_pred cCCCchhHHHhccccccCCccCc--ccchHHHHHHHHhccCCCCCcccc-hHHHHHHHHHHHHHHhcCCCC
Confidence 3449999998862 2 3789 997656777653 267999988 543 2345577777766665
No 155
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=20.66 E-value=63 Score=32.55 Aligned_cols=34 Identities=24% Similarity=0.387 Sum_probs=27.1
Q ss_pred ccccCCCCCCCCCCccCcCcHHHHH-hhCCCCCccCCC
Q 019539 131 LELPCKYYHLGCPEIFPYYSKLKHE-VMCTFRPYNCPY 167 (339)
Q Consensus 131 l~v~C~~~~~GC~~~~~~~~~~~He-~~C~f~p~~CP~ 167 (339)
-.+.|++ +|...++..++.+|. ..|+++...|..
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 3577887 488888888888886 688888888876
No 156
>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=20.40 E-value=28 Score=22.00 Aligned_cols=20 Identities=35% Similarity=1.100 Sum_probs=10.0
Q ss_pred ceecccccccc-------CCCCCCccc
Q 019539 95 HTLCSTCKTRV-------HNRCPTCRQ 114 (339)
Q Consensus 95 H~fC~~C~~~~-------~~~CP~Cr~ 114 (339)
|.||..|-... ...||.|..
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 67777776543 145777754
No 157
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.11 E-value=24 Score=36.60 Aligned_cols=44 Identities=23% Similarity=0.562 Sum_probs=31.6
Q ss_pred CCeeeecccCccCcc-----c-------------ceeccCCceeccccccccC----CCCCCcccccc
Q 019539 72 HELLECPVCTNSMYP-----P-------------IHQCHNGHTLCSTCKTRVH----NRCPTCRQELG 117 (339)
Q Consensus 72 ~~~l~CpIC~~~l~~-----P-------------i~qC~~GH~fC~~C~~~~~----~~CP~Cr~~~~ 117 (339)
+..-.|+||.....- | +..| .|+|=..|+.++- -.||+||.++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC--~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPC--HHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccch--HHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 455679999876531 1 0146 8999999998863 37999999874
Done!