Query 020563
Match_columns 324
No_of_seqs 299 out of 1370
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 03:23:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020563.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020563hhsearch_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 1.9E-55 4.1E-60 416.2 16.0 258 52-310 41-299 (299)
2 PF03145 Sina: Seven in absent 100.0 2.4E-44 5.1E-49 323.7 12.2 198 104-303 1-198 (198)
3 cd03829 Sina Seven in absentia 100.0 9.3E-40 2E-44 267.3 2.8 125 177-304 2-127 (127)
4 KOG0297 TNF receptor-associate 99.3 6.7E-12 1.4E-16 124.1 6.9 116 55-177 17-141 (391)
5 PF14835 zf-RING_6: zf-RING of 98.5 2.9E-08 6.2E-13 73.4 0.3 57 55-113 3-65 (65)
6 TIGR00599 rad18 DNA repair pro 98.4 1.2E-07 2.5E-12 93.8 2.1 64 51-116 18-88 (397)
7 PF15227 zf-C3HC4_4: zinc fing 98.4 9.3E-08 2E-12 65.3 0.7 34 62-97 1-42 (42)
8 smart00504 Ubox Modified RING 98.3 2.9E-07 6.4E-12 67.3 2.7 55 59-115 1-62 (63)
9 KOG0287 Postreplication repair 98.3 1.2E-07 2.5E-12 90.5 -1.2 64 51-116 15-85 (442)
10 PLN03208 E3 ubiquitin-protein 98.2 2.9E-07 6.4E-12 82.4 1.0 47 55-103 14-80 (193)
11 KOG0823 Predicted E3 ubiquitin 98.1 1.7E-06 3.8E-11 78.9 2.7 46 55-102 43-95 (230)
12 PF13920 zf-C3HC4_3: Zinc fing 98.1 9.1E-07 2E-11 62.3 0.4 43 58-102 1-48 (50)
13 KOG0320 Predicted E3 ubiquitin 98.0 9.2E-07 2E-11 77.8 0.0 44 57-102 129-178 (187)
14 PF04564 U-box: U-box domain; 98.0 3.6E-06 7.8E-11 64.1 1.8 60 56-117 1-68 (73)
15 PF02176 zf-TRAF: TRAF-type zi 97.9 3.7E-06 8.1E-11 61.0 0.9 53 115-169 7-60 (60)
16 PF13923 zf-C3HC4_2: Zinc fing 97.8 4.7E-06 1E-10 55.7 0.6 34 62-97 1-39 (39)
17 PHA02929 N1R/p28-like protein; 97.8 7.8E-06 1.7E-10 75.8 1.0 45 57-103 172-228 (238)
18 PF14634 zf-RING_5: zinc-RING 97.8 6.2E-06 1.3E-10 56.6 0.2 37 61-99 1-44 (44)
19 PF13639 zf-RING_2: Ring finge 97.7 9.7E-06 2.1E-10 55.4 0.4 38 61-98 2-44 (44)
20 PF00097 zf-C3HC4: Zinc finger 97.6 1.5E-05 3.3E-10 53.4 0.8 34 62-97 1-41 (41)
21 COG5432 RAD18 RING-finger-cont 97.6 1.1E-05 2.4E-10 75.9 -0.0 50 51-102 17-70 (391)
22 KOG0317 Predicted E3 ubiquitin 97.5 3.8E-05 8.2E-10 72.3 1.2 45 57-103 237-285 (293)
23 cd00162 RING RING-finger (Real 97.4 3.7E-05 8.1E-10 51.2 0.4 38 61-100 1-44 (45)
24 KOG2177 Predicted E3 ubiquitin 97.4 3.3E-05 7.2E-10 70.5 -0.6 68 52-121 6-78 (386)
25 PHA02926 zinc finger-like prot 97.3 4.2E-05 9.2E-10 69.8 -0.5 46 56-103 167-231 (242)
26 TIGR00570 cdk7 CDK-activating 97.1 0.00022 4.9E-09 68.3 2.3 43 58-102 2-54 (309)
27 KOG0311 Predicted E3 ubiquitin 97.1 2.9E-05 6.2E-10 74.9 -4.7 54 49-104 33-92 (381)
28 KOG2164 Predicted E3 ubiquitin 97.0 0.00019 4E-09 72.4 0.5 43 59-103 186-237 (513)
29 PF13445 zf-RING_UBOX: RING-ty 97.0 0.00013 2.9E-09 50.1 -0.3 26 62-90 1-31 (43)
30 smart00184 RING Ring finger. E 97.0 0.0002 4.4E-09 45.8 0.1 34 62-97 1-39 (39)
31 COG5574 PEX10 RING-finger-cont 96.7 0.00035 7.6E-09 65.2 -0.0 43 57-101 213-261 (271)
32 KOG0978 E3 ubiquitin ligase in 96.7 0.00031 6.8E-09 73.7 -0.4 49 53-103 637-690 (698)
33 PLN03086 PRLI-interacting fact 96.6 0.0022 4.7E-08 66.4 4.6 106 55-172 403-536 (567)
34 PF07800 DUF1644: Protein of u 96.3 0.0037 8.1E-08 54.3 3.7 28 147-176 107-134 (162)
35 KOG4159 Predicted E3 ubiquitin 96.3 0.0013 2.9E-08 65.3 0.7 59 43-103 68-130 (398)
36 PF02176 zf-TRAF: TRAF-type zi 95.7 0.0055 1.2E-07 44.2 1.7 38 139-178 1-38 (60)
37 PF12678 zf-rbx1: RING-H2 zinc 95.7 0.004 8.7E-08 47.4 0.9 35 62-98 22-73 (73)
38 KOG4172 Predicted E3 ubiquitin 95.6 0.0016 3.4E-08 46.8 -1.7 41 60-102 8-54 (62)
39 PLN03086 PRLI-interacting fact 95.4 0.039 8.5E-07 57.3 7.3 49 119-177 455-503 (567)
40 KOG2879 Predicted E3 ubiquitin 95.4 0.0091 2E-07 56.2 2.2 45 55-101 235-286 (298)
41 COG5222 Uncharacterized conser 95.2 0.0075 1.6E-07 57.4 1.0 39 60-99 275-318 (427)
42 KOG2660 Locus-specific chromos 95.1 0.0058 1.3E-07 58.8 -0.1 49 53-103 9-62 (331)
43 COG5152 Uncharacterized conser 94.9 0.0083 1.8E-07 54.0 0.5 55 59-115 196-256 (259)
44 KOG1813 Predicted E3 ubiquitin 94.6 0.024 5.2E-07 53.9 2.8 46 60-107 242-291 (313)
45 PF14570 zf-RING_4: RING/Ubox 94.4 0.013 2.9E-07 41.1 0.4 40 62-101 1-47 (48)
46 KOG0802 E3 ubiquitin ligase [P 93.4 0.019 4.2E-07 59.5 -0.5 44 56-101 288-340 (543)
47 PF14447 Prok-RING_4: Prokaryo 93.2 0.076 1.6E-06 38.3 2.4 43 58-102 6-50 (55)
48 PF11789 zf-Nse: Zinc-finger o 92.9 0.024 5.2E-07 41.2 -0.4 32 57-90 9-42 (57)
49 KOG0824 Predicted E3 ubiquitin 92.9 0.046 9.9E-07 52.2 1.2 43 59-103 7-54 (324)
50 COG5175 MOT2 Transcriptional r 92.6 0.031 6.7E-07 54.1 -0.2 48 54-102 10-64 (480)
51 KOG4275 Predicted E3 ubiquitin 92.0 0.038 8.1E-07 52.6 -0.5 41 58-101 299-341 (350)
52 KOG4265 Predicted E3 ubiquitin 90.9 0.11 2.5E-06 50.6 1.5 46 55-102 286-336 (349)
53 KOG4739 Uncharacterized protei 90.7 0.13 2.8E-06 47.7 1.6 42 59-102 3-48 (233)
54 COG5236 Uncharacterized conser 89.8 0.2 4.3E-06 48.9 2.1 48 52-101 54-107 (493)
55 KOG4367 Predicted Zn-finger pr 89.8 0.086 1.9E-06 52.7 -0.4 31 56-88 1-32 (699)
56 KOG1785 Tyrosine kinase negati 89.6 0.085 1.8E-06 52.2 -0.5 40 62-103 372-417 (563)
57 COG5540 RING-finger-containing 89.0 0.17 3.8E-06 48.5 1.1 43 58-102 322-372 (374)
58 PF12861 zf-Apc11: Anaphase-pr 88.9 0.14 3.1E-06 40.3 0.4 26 77-102 51-82 (85)
59 PF05605 zf-Di19: Drought indu 88.9 0.42 9.2E-06 33.9 2.8 50 117-175 2-54 (54)
60 KOG1002 Nucleotide excision re 87.9 0.16 3.4E-06 52.0 0.0 47 54-102 531-586 (791)
61 PF04641 Rtf2: Rtf2 RING-finge 85.8 0.71 1.5E-05 43.4 3.2 49 53-103 107-162 (260)
62 PF05290 Baculo_IE-1: Baculovi 85.5 0.28 6.1E-06 41.7 0.3 45 58-103 79-133 (140)
63 KOG1039 Predicted E3 ubiquitin 84.9 0.33 7.3E-06 47.6 0.5 44 57-102 159-221 (344)
64 KOG3161 Predicted E3 ubiquitin 84.0 0.23 5E-06 51.9 -1.0 41 54-96 6-52 (861)
65 KOG3039 Uncharacterized conser 83.9 0.52 1.1E-05 44.0 1.3 44 58-103 220-271 (303)
66 KOG1571 Predicted E3 ubiquitin 83.5 0.45 9.7E-06 46.6 0.7 45 55-102 301-347 (355)
67 PF07191 zinc-ribbons_6: zinc- 83.2 0.46 9.9E-06 36.0 0.5 38 60-102 2-41 (70)
68 KOG4185 Predicted E3 ubiquitin 82.5 0.78 1.7E-05 43.5 1.9 56 59-116 3-77 (296)
69 KOG0804 Cytoplasmic Zn-finger 82.1 0.63 1.4E-05 46.8 1.2 47 54-102 170-222 (493)
70 PF13909 zf-H2C2_5: C2H2-type 80.4 0.97 2.1E-05 26.4 1.1 24 148-175 1-24 (24)
71 KOG0825 PHD Zn-finger protein 79.8 0.33 7.1E-06 51.8 -1.7 41 61-103 125-172 (1134)
72 PF11793 FANCL_C: FANCL C-term 79.1 0.53 1.1E-05 35.5 -0.4 44 59-102 2-66 (70)
73 COG5243 HRD1 HRD ubiquitin lig 78.5 0.91 2E-05 44.8 0.9 42 58-101 286-344 (491)
74 KOG1645 RING-finger-containing 78.0 0.77 1.7E-05 45.7 0.3 41 59-101 4-55 (463)
75 KOG4628 Predicted E3 ubiquitin 77.4 1.2 2.6E-05 43.7 1.5 41 60-102 230-278 (348)
76 PF13913 zf-C2HC_2: zinc-finge 76.8 1.2 2.6E-05 26.8 0.8 23 118-144 3-25 (25)
77 COG4306 Uncharacterized protei 74.6 0.81 1.8E-05 38.6 -0.5 48 82-135 30-82 (160)
78 KOG2231 Predicted E3 ubiquitin 74.0 1.6 3.4E-05 46.4 1.3 40 61-102 2-52 (669)
79 KOG2462 C2H2-type Zn-finger pr 73.7 1.6 3.4E-05 41.5 1.1 103 57-176 159-269 (279)
80 KOG3800 Predicted E3 ubiquitin 73.4 1.1 2.4E-05 42.8 0.0 39 61-101 2-50 (300)
81 KOG2462 C2H2-type Zn-finger pr 71.7 17 0.00037 34.6 7.5 106 55-172 126-237 (279)
82 PF10083 DUF2321: Uncharacteri 71.6 0.98 2.1E-05 39.4 -0.7 21 82-102 30-50 (158)
83 PRK11088 rrmA 23S rRNA methylt 69.3 2.1 4.5E-05 40.1 0.9 24 59-82 2-27 (272)
84 KOG1814 Predicted E3 ubiquitin 68.5 2.5 5.4E-05 42.3 1.3 102 56-162 181-322 (445)
85 KOG3579 Predicted E3 ubiquitin 68.0 5.3 0.00012 38.2 3.3 34 55-88 264-300 (352)
86 COG5219 Uncharacterized conser 67.2 1.2 2.5E-05 48.8 -1.3 47 56-102 1466-1523(1525)
87 KOG2817 Predicted E3 ubiquitin 67.1 2.2 4.7E-05 42.4 0.6 43 55-99 330-382 (394)
88 KOG4692 Predicted E3 ubiquitin 66.9 1.9 4.2E-05 42.3 0.2 42 58-101 421-466 (489)
89 COG2888 Predicted Zn-ribbon RN 64.6 4.6 9.9E-05 29.7 1.7 37 115-162 25-61 (61)
90 KOG1001 Helicase-like transcri 64.4 1.7 3.8E-05 46.4 -0.8 39 60-101 455-499 (674)
91 PF05605 zf-Di19: Drought indu 64.1 6.9 0.00015 27.6 2.6 27 147-177 2-28 (54)
92 KOG3608 Zn finger proteins [Ge 62.3 5.7 0.00012 39.2 2.4 116 55-176 203-347 (467)
93 KOG3002 Zn finger protein [Gen 62.2 3.9 8.4E-05 39.5 1.3 76 92-171 49-130 (299)
94 PF07975 C1_4: TFIIH C1-like d 62.0 4.8 0.0001 28.6 1.4 26 73-98 21-50 (51)
95 PF06906 DUF1272: Protein of u 61.1 4 8.7E-05 29.6 0.8 41 62-102 8-52 (57)
96 COG3813 Uncharacterized protei 61.0 5.6 0.00012 30.4 1.7 30 74-103 23-53 (84)
97 KOG2114 Vacuolar assembly/sort 57.9 4.3 9.2E-05 44.1 0.8 44 55-100 836-881 (933)
98 PF12660 zf-TFIIIC: Putative z 57.7 4.1 8.9E-05 32.8 0.5 40 61-101 16-65 (99)
99 PF10571 UPF0547: Uncharacteri 56.4 5.5 0.00012 24.3 0.8 8 62-69 3-10 (26)
100 KOG3039 Uncharacterized conser 55.1 5.9 0.00013 37.2 1.1 38 51-89 35-72 (303)
101 PRK14890 putative Zn-ribbon RN 55.0 9 0.0002 28.1 1.8 36 115-162 23-59 (59)
102 KOG2932 E3 ubiquitin ligase in 53.7 5.8 0.00013 38.4 0.9 64 59-130 90-156 (389)
103 PRK04023 DNA polymerase II lar 53.2 15 0.00033 40.9 3.9 44 58-103 625-675 (1121)
104 KOG3576 Ovo and related transc 52.0 17 0.00036 33.5 3.4 115 53-177 111-239 (267)
105 PF02891 zf-MIZ: MIZ/SP-RING z 51.4 4.8 0.0001 28.3 -0.1 39 60-100 3-50 (50)
106 PF10367 Vps39_2: Vacuolar sor 49.6 9.8 0.00021 29.9 1.5 34 56-89 75-109 (109)
107 PHA00616 hypothetical protein 46.5 34 0.00074 23.6 3.5 28 147-178 1-29 (44)
108 PF04216 FdhE: Protein involve 46.2 8.5 0.00019 36.6 0.7 42 59-100 172-220 (290)
109 PF12773 DZR: Double zinc ribb 45.5 15 0.00032 25.2 1.7 6 94-99 32-37 (50)
110 KOG0826 Predicted E3 ubiquitin 45.0 9 0.00019 37.4 0.7 46 56-101 297-345 (357)
111 KOG1812 Predicted E3 ubiquitin 45.0 8.3 0.00018 38.5 0.5 31 58-90 145-180 (384)
112 KOG1100 Predicted E3 ubiquitin 43.9 15 0.00032 33.6 1.9 38 62-102 161-200 (207)
113 PF05502 Dynactin_p62: Dynacti 43.8 13 0.00027 38.4 1.6 69 56-131 2-96 (483)
114 PF05253 zf-U11-48K: U11-48K-l 42.9 7.6 0.00017 23.7 -0.1 24 118-144 3-26 (27)
115 smart00647 IBR In Between Ring 41.9 17 0.00036 25.7 1.5 33 59-91 18-59 (64)
116 PRK14892 putative transcriptio 40.9 20 0.00044 29.0 2.0 35 54-89 16-51 (99)
117 PRK14559 putative protein seri 40.5 19 0.00042 38.4 2.4 8 61-68 3-10 (645)
118 TIGR01562 FdhE formate dehydro 40.2 19 0.00042 34.9 2.1 42 58-99 183-232 (305)
119 KOG0298 DEAD box-containing he 39.9 4.1 9E-05 46.0 -2.7 46 55-102 1149-1199(1394)
120 smart00301 DM Doublesex DNA-bi 39.5 22 0.00047 25.7 1.8 39 127-169 8-46 (54)
121 PF13894 zf-C2H2_4: C2H2-type 38.3 25 0.00053 19.4 1.6 22 149-174 2-24 (24)
122 KOG0827 Predicted E3 ubiquitin 38.1 9.1 0.0002 38.2 -0.5 37 60-99 5-53 (465)
123 PF01485 IBR: IBR domain; Int 37.9 26 0.00056 24.7 2.0 33 59-91 18-59 (64)
124 COG5194 APC11 Component of SCF 37.8 9.4 0.0002 29.8 -0.3 43 61-103 22-82 (88)
125 PF04606 Ogr_Delta: Ogr/Delta- 37.8 7.5 0.00016 26.8 -0.8 38 93-132 1-38 (47)
126 KOG4362 Transcriptional regula 36.4 9 0.0002 40.9 -0.8 47 54-102 16-69 (684)
127 PF01363 FYVE: FYVE zinc finge 35.9 23 0.00051 25.8 1.6 33 57-89 7-42 (69)
128 PF10235 Cript: Microtubule-as 33.9 24 0.00052 28.1 1.4 37 60-103 45-81 (90)
129 PF08209 Sgf11: Sgf11 (transcr 33.3 17 0.00036 23.5 0.3 24 117-144 4-27 (33)
130 PRK09678 DNA-binding transcrip 32.7 15 0.00033 28.0 0.1 45 93-139 3-47 (72)
131 PF13240 zinc_ribbon_2: zinc-r 32.0 21 0.00046 21.0 0.6 7 93-99 15-21 (23)
132 PRK14714 DNA polymerase II lar 31.4 49 0.0011 37.9 3.7 44 58-103 666-721 (1337)
133 cd00350 rubredoxin_like Rubred 30.8 39 0.00085 21.4 1.8 9 92-100 18-26 (33)
134 PF00412 LIM: LIM domain; Int 30.5 21 0.00045 24.8 0.5 33 57-89 24-56 (58)
135 PF03145 Sina: Seven in absent 29.8 32 0.0007 30.6 1.7 47 97-143 24-70 (198)
136 PRK03564 formate dehydrogenase 29.3 38 0.00083 32.9 2.2 42 58-99 186-234 (309)
137 COG5109 Uncharacterized conser 29.0 25 0.00054 34.3 0.9 34 54-89 331-368 (396)
138 PF12756 zf-C2H2_2: C2H2 type 29.0 40 0.00086 25.6 1.9 34 139-176 42-77 (100)
139 TIGR00595 priA primosomal prot 29.0 52 0.0011 34.0 3.3 41 58-100 212-262 (505)
140 PRK00420 hypothetical protein; 28.5 32 0.0007 28.5 1.3 25 60-88 24-48 (112)
141 COG1198 PriA Primosomal protei 26.9 49 0.0011 35.9 2.7 42 57-100 433-484 (730)
142 cd00729 rubredoxin_SM Rubredox 26.8 57 0.0012 21.0 2.0 9 92-100 19-27 (34)
143 KOG0297 TNF receptor-associate 26.8 38 0.00083 33.8 1.8 34 116-152 113-147 (391)
144 KOG3576 Ovo and related transc 26.8 24 0.00052 32.5 0.3 78 92-177 118-200 (267)
145 COG5220 TFB3 Cdk activating ki 26.6 9.8 0.00021 35.6 -2.2 40 59-100 10-62 (314)
146 TIGR00622 ssl1 transcription f 26.2 49 0.0011 27.4 2.0 38 61-98 57-110 (112)
147 PRK05580 primosome assembly pr 24.6 60 0.0013 34.8 2.9 40 59-100 381-430 (679)
148 KOG4218 Nuclear hormone recept 24.5 31 0.00066 34.1 0.6 22 62-87 18-39 (475)
149 KOG2068 MOT2 transcription fac 24.0 50 0.0011 32.3 2.0 43 60-102 250-298 (327)
150 PF09297 zf-NADH-PPase: NADH p 23.7 22 0.00048 22.3 -0.3 20 80-99 3-29 (32)
151 PF00751 DM: DM DNA binding do 23.3 7.9 0.00017 27.1 -2.7 28 131-162 12-39 (47)
152 COG1592 Rubrerythrin [Energy p 23.2 56 0.0012 28.9 1.9 25 59-100 134-158 (166)
153 KOG1734 Predicted RING-contain 23.1 21 0.00045 34.1 -0.8 40 61-102 226-281 (328)
154 PF14353 CpXC: CpXC protein 22.7 63 0.0014 26.6 2.1 35 93-131 3-48 (128)
155 PF13248 zf-ribbon_3: zinc-rib 22.6 41 0.00089 20.1 0.7 6 62-67 5-10 (26)
156 KOG3268 Predicted E3 ubiquitin 22.4 42 0.00092 30.2 1.0 27 45-71 134-160 (234)
157 PF14446 Prok-RING_1: Prokaryo 21.7 43 0.00094 24.1 0.8 36 60-96 6-44 (54)
158 PF05883 Baculo_RING: Baculovi 21.7 16 0.00035 31.2 -1.7 32 59-90 26-65 (134)
159 PF00096 zf-C2H2: Zinc finger, 21.6 41 0.00088 18.8 0.5 16 157-172 6-22 (23)
160 COG4357 Zinc finger domain con 21.4 50 0.0011 26.7 1.2 22 81-102 63-91 (105)
161 smart00064 FYVE Protein presen 20.8 56 0.0012 23.7 1.3 31 59-89 10-43 (68)
162 KOG0828 Predicted E3 ubiquitin 20.4 22 0.00049 36.6 -1.2 45 56-102 568-634 (636)
No 1
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=100.00 E-value=1.9e-55 Score=416.21 Aligned_cols=258 Identities=46% Similarity=0.837 Sum_probs=244.0
Q ss_pred CCcCCCCeeeecccccccccccccccCCceecccccccccCCCCCcccccCcccchHHHHHhhhccccCCCCCCCCCccc
Q 020563 52 GTTSVHELLECPVCTNSMYPPIHQCHNGHTLCSTCKTRVHNRCPTCRQELGDIRCLALEKVAESLELPCKYMSLGCPEIF 131 (324)
Q Consensus 52 ~~~~l~~~L~CpIC~~~l~~Pi~qC~~GH~~C~~C~~~~~~~CP~Cr~~~~~~rn~ale~~l~~l~v~C~~~~~GC~~~~ 131 (324)
....+.++|+||||++.+++||+||.|||+.|++|+.++.++||.||.+++.+|+++||++++++.++|||+.+||++.+
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 55678899999999999999999999999999999988889999999999999999999999999999999999999999
Q ss_pred CccchhhhhcccCCCccCCCCCCCCCccccChhHHHHHhhhcCCCCCcccceeEEEEeccCCCcccccceEEEEeeecCc
Q 020563 132 PYYSKLKHEAICNFRPYNCPYAGSECSIVGDIPFLVAHLRDDHKVDMHSGCTFNHRYVKSNPHEVENATWMLTVFHCFGQ 211 (324)
Q Consensus 132 ~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~~~~G~~~~~~f~~s~~~~v~~~~w~l~v~~cfg~ 211 (324)
+|.+..+||+.|.|+|+.||.+|..|+|.|.+++|..|++..|+.+++.+..++++|..++++.....+|++.+..|+|+
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 99999999999999999999999999999999999999999999988878888899999999988899998777779999
Q ss_pred eeEEEEeeeeeCC-ccEEEEEEEEecCccccCCcEEEEEEeeCCceEEEEeecceecccccccccCCCceEEecCcccee
Q 020563 212 YFCLHFEAFQLGM-APVYMAFLRFMGDETEARNYTYSLEVGGNGRKLTWEGTPRSIRDSHKKVRDSHDGLIIQRNMALFF 290 (324)
Q Consensus 212 ~F~l~~~~~~~~~-~~v~~a~v~~iG~~~~a~~FsY~Lei~~~~r~L~~es~p~si~~~~~~~~~~~D~L~i~~~~~~~f 290 (324)
.|++++..+..+. .++|+++++++|++++|++|+|+|++++++|+|+||++|+|+++.+...++..|||+||.+++++|
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 9999999988754 599999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eCCCceeeEEEEEEEEeecc
Q 020563 291 SGGDRKELKLRVTGRIWKEQ 310 (324)
Q Consensus 291 ~~~~~~~l~l~V~~~i~~~~ 310 (324)
..+ .++|.|++++++|+++
T Consensus 281 ~~~-~~~l~i~~~~~~~~~~ 299 (299)
T KOG3002|consen 281 SLL-KMELKIRVTGRVQEEI 299 (299)
T ss_pred ccc-CCceeeccchhhhccC
Confidence 764 4599999999999864
No 2
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=100.00 E-value=2.4e-44 Score=323.74 Aligned_cols=198 Identities=45% Similarity=0.824 Sum_probs=153.8
Q ss_pred ccchHHHHHhhhccccCCCCCCCCCcccCccchhhhhcccCCCccCCCCCCCCCccccChhHHHHHhhhcCCCCCcccce
Q 020563 104 IRCLALEKVAESLELPCKYMSLGCPEIFPYYSKLKHEAICNFRPYNCPYAGSECSIVGDIPFLVAHLRDDHKVDMHSGCT 183 (324)
Q Consensus 104 ~rn~ale~~l~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~~~~G~~ 183 (324)
+||++||++++++++||+|+.+||++.+++.++.+||+.|+|+|+.||.++.+|+|.|+.++|..|++.+|++.+..+..
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 58999999999999999999999999999999999999999999999997678999999999999999999998876667
Q ss_pred eEEEEeccCCCcccccceEEEEeeecCceeEEEEeeeeeCCccEEEEEEEEecCccccCCcEEEEEEeeCCceEEEEeec
Q 020563 184 FNHRYVKSNPHEVENATWMLTVFHCFGQYFCLHFEAFQLGMAPVYMAFLRFMGDETEARNYTYSLEVGGNGRKLTWEGTP 263 (324)
Q Consensus 184 ~~~~f~~s~~~~v~~~~w~l~v~~cfg~~F~l~~~~~~~~~~~v~~a~v~~iG~~~~a~~FsY~Lei~~~~r~L~~es~p 263 (324)
+.++|..+++...+..+|+++.+.|||++|+|+++++...+..+|+++||++|++++|++|+|+|++.+++|||+||++|
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 78889988887677789998556999999999999988667789999999999999999999999999999999999999
Q ss_pred ceecccccccccCCCceEEecCccceeeCCCceeeEEEEE
Q 020563 264 RSIRDSHKKVRDSHDGLIIQRNMALFFSGGDRKELKLRVT 303 (324)
Q Consensus 264 ~si~~~~~~~~~~~D~L~i~~~~~~~f~~~~~~~l~l~V~ 303 (324)
+|++++.+.++++.|||++.+++++||+++ +.|.|+||
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 999999999999999999999999999875 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=9.3e-40 Score=267.32 Aligned_cols=125 Identities=34% Similarity=0.602 Sum_probs=118.3
Q ss_pred CCcccceeEEEEeccCCCcccccceEEEEeeecCceeEEEEeeeee-CCccEEEEEEEEecCccccCCcEEEEEEeeCCc
Q 020563 177 DMHSGCTFNHRYVKSNPHEVENATWMLTVFHCFGQYFCLHFEAFQL-GMAPVYMAFLRFMGDETEARNYTYSLEVGGNGR 255 (324)
Q Consensus 177 ~~~~G~~~~~~f~~s~~~~v~~~~w~l~v~~cfg~~F~l~~~~~~~-~~~~v~~a~v~~iG~~~~a~~FsY~Lei~~~~r 255 (324)
++++|+ +++|+++|+++++ ++|++++++|||++|+|++|++++ +++++|||++|+||+.++|++|+|+||+.+++|
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 467888 6899999999998 777778999999999999999999 778999999999999999999999999999999
Q ss_pred eEEEEeecceecccccccccCCCceEEecCccceeeCCCceeeEEEEEE
Q 020563 256 KLTWEGTPRSIRDSHKKVRDSHDGLIIQRNMALFFSGGDRKELKLRVTG 304 (324)
Q Consensus 256 ~L~~es~p~si~~~~~~~~~~~D~L~i~~~~~~~f~~~~~~~l~l~V~~ 304 (324)
||+||++||||||++.+++++.|||+|+++||+||++|++++|+|+||+
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 9999999999999999999999999999999999999999999999874
No 4
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=99.26 E-value=6.7e-12 Score=124.14 Aligned_cols=116 Identities=29% Similarity=0.623 Sum_probs=103.5
Q ss_pred CCCCeeeecccccccccccc--cccCCceeccccccccc---CCCCCcccccCcc----cchHHHHHhhhccccCCCCCC
Q 020563 55 SVHELLECPVCTNSMYPPIH--QCHNGHTLCSTCKTRVH---NRCPTCRQELGDI----RCLALEKVAESLELPCKYMSL 125 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi~--qC~~GH~~C~~C~~~~~---~~CP~Cr~~~~~~----rn~ale~~l~~l~v~C~~~~~ 125 (324)
.+++.|.|++|..++.+|+. +| ||.||..|+.++. ..||.|+..+... ...++.+++.++.+.|.+...
T Consensus 17 ~~~~~l~C~~C~~vl~~p~~~~~c--gh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~ 94 (391)
T KOG0297|consen 17 PLDENLLCPICMSVLRDPVQTTTC--GHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASR 94 (391)
T ss_pred CCcccccCccccccccCCCCCCCC--CCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccccccCCC
Confidence 38889999999999999974 88 9999999998763 5899999887643 247788999999999999999
Q ss_pred CCCcccCccchhhhhcccCCCccCCCCCCCCCccccChhHHHHHhhhcCCCC
Q 020563 126 GCPEIFPYYSKLKHEAICNFRPYNCPYAGSECSIVGDIPFLVAHLRDDHKVD 177 (324)
Q Consensus 126 GC~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~ 177 (324)
||+|.+.+..++.|+..| .+..||.. |+..+..+++..||+..+...
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 99999984 999999999999998877654
No 5
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.48 E-value=2.9e-08 Score=73.39 Aligned_cols=57 Identities=28% Similarity=0.694 Sum_probs=31.7
Q ss_pred CCCCeeeeccccccccccc--ccccCCceecccccccc-cCCCCCcccccC--c-ccchHHHHHh
Q 020563 55 SVHELLECPVCTNSMYPPI--HQCHNGHTLCSTCKTRV-HNRCPTCRQELG--D-IRCLALEKVA 113 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi--~qC~~GH~~C~~C~~~~-~~~CP~Cr~~~~--~-~rn~ale~~l 113 (324)
.++++|.|++|.++|+.|+ ..| .|+||+.|+..- ...||+|+.|.- + ..|+.+..++
T Consensus 3 ~le~lLrCs~C~~~l~~pv~l~~C--eH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqLd~~i 65 (65)
T PF14835_consen 3 RLEELLRCSICFDILKEPVCLGGC--EHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQLDSMI 65 (65)
T ss_dssp HHHHTTS-SSS-S--SS-B---SS--S--B-TTTGGGGTTTB-SSS--B-S-SS----HHHHHHH
T ss_pred HHHHhcCCcHHHHHhcCCceeccC--ccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhhhccC
Confidence 4667899999999999997 478 999999999764 467999999863 2 3566666543
No 6
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.39 E-value=1.2e-07 Score=93.76 Aligned_cols=64 Identities=30% Similarity=0.710 Sum_probs=51.9
Q ss_pred CCCcCCCCeeeeccccccccccc-ccccCCceecccccccc---cCCCCCcccccCc---ccchHHHHHhhhc
Q 020563 51 PGTTSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD---IRCLALEKVAESL 116 (324)
Q Consensus 51 ~~~~~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~---~rn~ale~~l~~l 116 (324)
++...+++.|.|+||.+++..|+ ..| ||.||..|+..+ ...||+|+..+.. .+|.+|+++++.+
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 45678999999999999999887 578 999999999865 2579999998764 4677777766643
No 7
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.37 E-value=9.3e-08 Score=65.34 Aligned_cols=34 Identities=38% Similarity=1.199 Sum_probs=25.8
Q ss_pred eccccccccccc-ccccCCceeccccccccc-------CCCCCc
Q 020563 62 CPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH-------NRCPTC 97 (324)
Q Consensus 62 CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~~-------~~CP~C 97 (324)
||||+++|+.|+ +.| ||+||..|+.++. ..||.|
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 689 9999999998751 258776
No 8
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.34 E-value=2.9e-07 Score=67.27 Aligned_cols=55 Identities=25% Similarity=0.375 Sum_probs=45.0
Q ss_pred eeeeccccccccccc-ccccCCceecccccccc---cCCCCCcccccCc---ccchHHHHHhhh
Q 020563 59 LLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD---IRCLALEKVAES 115 (324)
Q Consensus 59 ~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~---~rn~ale~~l~~ 115 (324)
.|.||||.++|..|+ ..| ||+||..|+.++ ...||.|+.++.. +.+..+++.++.
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 368999999999997 466 999999999876 3689999999853 577777777653
No 9
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.26 E-value=1.2e-07 Score=90.54 Aligned_cols=64 Identities=30% Similarity=0.742 Sum_probs=51.9
Q ss_pred CCCcCCCCeeeeccccccccccc-ccccCCceecccccccc---cCCCCCcccccCc---ccchHHHHHhhhc
Q 020563 51 PGTTSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD---IRCLALEKVAESL 116 (324)
Q Consensus 51 ~~~~~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~---~rn~ale~~l~~l 116 (324)
++.-.++++|.|.||+++|+.|+ +.| ||+||+-|+.+. ...||+|+.++.. ..|+.++.++.++
T Consensus 15 pslk~lD~lLRC~IC~eyf~ip~itpC--sHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 15 PSLKTLDDLLRCGICFEYFNIPMITPC--SHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSL 85 (442)
T ss_pred chhhhhHHHHHHhHHHHHhcCceeccc--cchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHH
Confidence 56678899999999999999986 688 999999999875 3789999998864 3456666666554
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.24 E-value=2.9e-07 Score=82.36 Aligned_cols=47 Identities=23% Similarity=0.830 Sum_probs=38.6
Q ss_pred CCCCeeeeccccccccccc-ccccCCceeccccccccc-------------------CCCCCcccccCc
Q 020563 55 SVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH-------------------NRCPTCRQELGD 103 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~~-------------------~~CP~Cr~~~~~ 103 (324)
+..+.++|+||++.++.|+ +.| ||+||..|+.+|. ..||.||.++..
T Consensus 14 ~~~~~~~CpICld~~~dPVvT~C--GH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVTLC--GHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred cCCCccCCccCCCcCCCcEEcCC--CchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 3345789999999999997 578 9999999997652 369999998753
No 11
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=1.7e-06 Score=78.93 Aligned_cols=46 Identities=26% Similarity=0.773 Sum_probs=39.9
Q ss_pred CCCCeeeecccccccccccc-cccCCceeccccccccc------CCCCCcccccC
Q 020563 55 SVHELLECPVCTNSMYPPIH-QCHNGHTLCSTCKTRVH------NRCPTCRQELG 102 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi~-qC~~GH~~C~~C~~~~~------~~CP~Cr~~~~ 102 (324)
.....|+|.||++..++||+ -| ||+||-.|+-+|+ ..||+|+..++
T Consensus 43 ~~~~~FdCNICLd~akdPVvTlC--GHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVTLC--GHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCCceeeeeeccccCCCEEeec--ccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 45678999999999999985 55 9999999999983 57999999875
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=98.07 E-value=9.1e-07 Score=62.33 Aligned_cols=43 Identities=37% Similarity=0.967 Sum_probs=35.0
Q ss_pred Ceeeeccccccccccc-ccccCCce-ecccccccc---cCCCCCcccccC
Q 020563 58 ELLECPVCTNSMYPPI-HQCHNGHT-LCSTCKTRV---HNRCPTCRQELG 102 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi-~qC~~GH~-~C~~C~~~~---~~~CP~Cr~~~~ 102 (324)
+...|+||++....++ +.| ||. ||..|..++ ...||+||+++.
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 3568999999998886 588 999 999999887 378999999875
No 13
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.04 E-value=9.2e-07 Score=77.77 Aligned_cols=44 Identities=39% Similarity=1.096 Sum_probs=36.4
Q ss_pred CCeeeeccccccccc--cc-ccccCCceecccccccc---cCCCCCcccccC
Q 020563 57 HELLECPVCTNSMYP--PI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELG 102 (324)
Q Consensus 57 ~~~L~CpIC~~~l~~--Pi-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 102 (324)
...+.||||++.+.. |+ ..| ||+||+.|+... ...||+|++.++
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 467999999999974 44 678 999999999865 478999998654
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=3.6e-06 Score=64.11 Aligned_cols=60 Identities=27% Similarity=0.361 Sum_probs=44.4
Q ss_pred CCCeeeecccccccccccc-cccCCceeccccccccc----CCCCCcccccCc---ccchHHHHHhhhcc
Q 020563 56 VHELLECPVCTNSMYPPIH-QCHNGHTLCSTCKTRVH----NRCPTCRQELGD---IRCLALEKVAESLE 117 (324)
Q Consensus 56 l~~~L~CpIC~~~l~~Pi~-qC~~GH~~C~~C~~~~~----~~CP~Cr~~~~~---~rn~ale~~l~~l~ 117 (324)
+++.|.|||++++|..||. .+ ||+|+..++.++. ..||.++.++.. +.|.+|.+.++.+.
T Consensus 1 iP~~f~CpIt~~lM~dPVi~~~--G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~~ 68 (73)
T PF04564_consen 1 IPDEFLCPITGELMRDPVILPS--GHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEWC 68 (73)
T ss_dssp SSGGGB-TTTSSB-SSEEEETT--SEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHHH
T ss_pred CCcccCCcCcCcHhhCceeCCc--CCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHHH
Confidence 3678999999999999984 55 9999999999873 569999998875 58888888887653
No 15
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=97.90 E-value=3.7e-06 Score=61.03 Aligned_cols=53 Identities=28% Similarity=0.431 Sum_probs=37.8
Q ss_pred hccccCCCCCCCCCcccCccchhhhhc-ccCCCccCCCCCCCCCccccChhHHHHH
Q 020563 115 SLELPCKYMSLGCPEIFPYYSKLKHEA-ICNFRPYNCPYAGSECSIVGDIPFLVAH 169 (324)
Q Consensus 115 ~l~v~C~~~~~GC~~~~~~~~~~~He~-~C~f~p~~CP~~g~~C~~~g~~~~L~~H 169 (324)
...++|++ .||...++..++.+|.+ +|+++++.||+...+|++.+.+.+|..|
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 45688887 35667799999999998 9999999999976679999999999887
No 16
>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=97.84 E-value=4.7e-06 Score=55.67 Aligned_cols=34 Identities=35% Similarity=1.262 Sum_probs=27.2
Q ss_pred eccccccccccc--ccccCCceecccccccc---cCCCCCc
Q 020563 62 CPVCTNSMYPPI--HQCHNGHTLCSTCKTRV---HNRCPTC 97 (324)
Q Consensus 62 CpIC~~~l~~Pi--~qC~~GH~~C~~C~~~~---~~~CP~C 97 (324)
|+||++.+..|+ .+| ||+||..|+.++ ..+||.|
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 999999999876 3678876
No 17
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.77 E-value=7.8e-06 Score=75.85 Aligned_cols=45 Identities=31% Similarity=0.806 Sum_probs=36.1
Q ss_pred CCeeeecccccccccc--------c-ccccCCceecccccccc---cCCCCCcccccCc
Q 020563 57 HELLECPVCTNSMYPP--------I-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD 103 (324)
Q Consensus 57 ~~~L~CpIC~~~l~~P--------i-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~ 103 (324)
.+..+|+||++.+..+ + ..| ||.||..|+.+| ...||+||.++..
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 4568999999987643 2 357 999999999887 3689999998764
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.76 E-value=6.2e-06 Score=56.65 Aligned_cols=37 Identities=32% Similarity=1.036 Sum_probs=30.4
Q ss_pred eecccccccc---ccc-ccccCCceeccccccccc---CCCCCccc
Q 020563 61 ECPVCTNSMY---PPI-HQCHNGHTLCSTCKTRVH---NRCPTCRQ 99 (324)
Q Consensus 61 ~CpIC~~~l~---~Pi-~qC~~GH~~C~~C~~~~~---~~CP~Cr~ 99 (324)
+|++|++.+. +|. +.| ||+||..|+.++. ..||+||+
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 5999999992 443 689 9999999998874 58999974
No 19
>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=97.70 E-value=9.7e-06 Score=55.45 Aligned_cols=38 Identities=32% Similarity=0.832 Sum_probs=28.7
Q ss_pred eeccccccccc--ccccccCCceecccccccc---cCCCCCcc
Q 020563 61 ECPVCTNSMYP--PIHQCHNGHTLCSTCKTRV---HNRCPTCR 98 (324)
Q Consensus 61 ~CpIC~~~l~~--Pi~qC~~GH~~C~~C~~~~---~~~CP~Cr 98 (324)
+|+||++.+.+ .++...+||.||.+|+.+| ...||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 59999999963 3333333999999999987 47899997
No 20
>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=97.65 E-value=1.5e-05 Score=53.43 Aligned_cols=34 Identities=35% Similarity=1.142 Sum_probs=28.7
Q ss_pred eccccccccccc--ccccCCceeccccccccc-----CCCCCc
Q 020563 62 CPVCTNSMYPPI--HQCHNGHTLCSTCKTRVH-----NRCPTC 97 (324)
Q Consensus 62 CpIC~~~l~~Pi--~qC~~GH~~C~~C~~~~~-----~~CP~C 97 (324)
|+||++++..|+ .+| ||.||..|+.++. ..||.|
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 899999999887 588 9999999998752 467776
No 21
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.64 E-value=1.1e-05 Score=75.88 Aligned_cols=50 Identities=34% Similarity=0.864 Sum_probs=43.4
Q ss_pred CCCcCCCCeeeeccccccccccc-ccccCCceecccccccc---cCCCCCcccccC
Q 020563 51 PGTTSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELG 102 (324)
Q Consensus 51 ~~~~~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 102 (324)
++.-.++..|.|-||.+.++.|+ +.| ||.||+-|+.+. +..||.||.+..
T Consensus 17 PSL~~LDs~lrC~IC~~~i~ip~~TtC--gHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 17 PSLKGLDSMLRCRICDCRISIPCETTC--GHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred cchhcchhHHHhhhhhheeecceeccc--ccchhHHHHHHHhcCCCCCccccccHH
Confidence 56678889999999999999996 789 999999999876 367999998764
No 22
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=3.8e-05 Score=72.32 Aligned_cols=45 Identities=27% Similarity=0.767 Sum_probs=38.9
Q ss_pred CCeeeeccccccccccc-ccccCCceecccccccc---cCCCCCcccccCc
Q 020563 57 HELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD 103 (324)
Q Consensus 57 ~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~ 103 (324)
+...+|.+|++....|- +.| ||+||-+|+..| ...||.||..+..
T Consensus 237 ~a~~kC~LCLe~~~~pSaTpC--GHiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSATPC--GHIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred CCCCceEEEecCCCCCCcCcC--cchHHHHHHHHHHccccCCCcccccCCC
Confidence 45689999999999886 789 999999999987 3679999998754
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=51.17 Aligned_cols=38 Identities=39% Similarity=1.149 Sum_probs=30.5
Q ss_pred eeccccccccccc-c-cccCCceecccccccc----cCCCCCcccc
Q 020563 61 ECPVCTNSMYPPI-H-QCHNGHTLCSTCKTRV----HNRCPTCRQE 100 (324)
Q Consensus 61 ~CpIC~~~l~~Pi-~-qC~~GH~~C~~C~~~~----~~~CP~Cr~~ 100 (324)
.|+||.+.+..++ . .| ||.||..|+.++ ...||.|+..
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 4999999996665 3 47 999999999765 2579999875
No 24
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=3.3e-05 Score=70.53 Aligned_cols=68 Identities=29% Similarity=0.587 Sum_probs=52.0
Q ss_pred CCcCCCCeeeeccccccccccc-ccccCCceeccccccccc---CCCCCcccccC-cccchHHHHHhhhccccCC
Q 020563 52 GTTSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH---NRCPTCRQELG-DIRCLALEKVAESLELPCK 121 (324)
Q Consensus 52 ~~~~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~~-~~rn~ale~~l~~l~v~C~ 121 (324)
....+.+.+.||||++.+..|. ..| ||.||..|+..+. ..||.||.... ..+|..+.+++..++....
T Consensus 6 ~~~~~~~~~~C~iC~~~~~~p~~l~C--~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~~~~~~~~ 78 (386)
T KOG2177|consen 6 LLEVLQEELTCPICLEYFREPVLLPC--GHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVERLRQLRL 78 (386)
T ss_pred hhhhccccccChhhHHHhhcCccccc--cchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHHHHHhcCC
Confidence 3456779999999999999885 679 9999999998764 68999995211 2367777777777665443
No 25
>PHA02926 zinc finger-like protein; Provisional
Probab=97.32 E-value=4.2e-05 Score=69.75 Aligned_cols=46 Identities=33% Similarity=0.872 Sum_probs=35.5
Q ss_pred CCCeeeeccccccccc---------cc-ccccCCceeccccccccc---------CCCCCcccccCc
Q 020563 56 VHELLECPVCTNSMYP---------PI-HQCHNGHTLCSTCKTRVH---------NRCPTCRQELGD 103 (324)
Q Consensus 56 l~~~L~CpIC~~~l~~---------Pi-~qC~~GH~~C~~C~~~~~---------~~CP~Cr~~~~~ 103 (324)
..+..+|+||++.... ++ ..| +|.||..|+.+|. ..||.||..+..
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 3457899999998642 23 267 9999999999884 239999998764
No 26
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.14 E-value=0.00022 Score=68.32 Aligned_cols=43 Identities=35% Similarity=0.906 Sum_probs=32.9
Q ss_pred Ceeeeccccc--cccccc----ccccCCceecccccccc----cCCCCCcccccC
Q 020563 58 ELLECPVCTN--SMYPPI----HQCHNGHTLCSTCKTRV----HNRCPTCRQELG 102 (324)
Q Consensus 58 ~~L~CpIC~~--~l~~Pi----~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~~ 102 (324)
+...||+|.. ++.+-. ..| ||.||.+|+.++ ...||.|+.++.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~C--GH~~C~sCv~~l~~~~~~~CP~C~~~lr 54 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVC--GHTLCESCVDLLFVRGSGSCPECDTPLR 54 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCC--CCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence 3467999999 555542 247 999999999875 257999998764
No 27
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.05 E-value=2.9e-05 Score=74.91 Aligned_cols=54 Identities=28% Similarity=0.654 Sum_probs=46.0
Q ss_pred cCCCCcCCCCeeeecccccccccccc--cccCCceecccccccc----cCCCCCcccccCcc
Q 020563 49 INPGTTSVHELLECPVCTNSMYPPIH--QCHNGHTLCSTCKTRV----HNRCPTCRQELGDI 104 (324)
Q Consensus 49 ~~~~~~~l~~~L~CpIC~~~l~~Pi~--qC~~GH~~C~~C~~~~----~~~CP~Cr~~~~~~ 104 (324)
+......+...+.||||+++++.-+. .| +|.||..|+-+. .+.||+||+.+...
T Consensus 33 i~~~l~~~~~~v~c~icl~llk~tmttkeC--lhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 33 IMVDLAMFDIQVICPICLSLLKKTMTTKEC--LHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred heecHHHhhhhhccHHHHHHHHhhcccHHH--HHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 66777889999999999999997763 68 999999999764 37899999988654
No 28
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.02 E-value=0.00019 Score=72.38 Aligned_cols=43 Identities=30% Similarity=0.888 Sum_probs=35.5
Q ss_pred eeeeccccccccccc-ccccCCceecccccccc--------cCCCCCcccccCc
Q 020563 59 LLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV--------HNRCPTCRQELGD 103 (324)
Q Consensus 59 ~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~--------~~~CP~Cr~~~~~ 103 (324)
.+.||||++...-|+ +-| ||+||..|+.+. -..||.|+..+..
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 788999999988665 678 999999998753 1579999988764
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.02 E-value=0.00013 Score=50.05 Aligned_cols=26 Identities=35% Similarity=1.205 Sum_probs=16.8
Q ss_pred eccccccccc----cc-ccccCCceecccccccc
Q 020563 62 CPVCTNSMYP----PI-HQCHNGHTLCSTCKTRV 90 (324)
Q Consensus 62 CpIC~~~l~~----Pi-~qC~~GH~~C~~C~~~~ 90 (324)
||||.+ +.. |+ +.| ||+||..|+.++
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 765 75 688 999999999876
No 30
>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=96.96 E-value=0.0002 Score=45.79 Aligned_cols=34 Identities=41% Similarity=1.249 Sum_probs=27.6
Q ss_pred eccccccccccc-ccccCCceecccccccc----cCCCCCc
Q 020563 62 CPVCTNSMYPPI-HQCHNGHTLCSTCKTRV----HNRCPTC 97 (324)
Q Consensus 62 CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~----~~~CP~C 97 (324)
|+||.+....++ ..| ||.||..|+.++ ...||.|
T Consensus 1 C~iC~~~~~~~~~~~C--~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPC--GHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecC--CChHHHHHHHHHHHhCcCCCCCC
Confidence 789999987775 678 999999999865 2568876
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.00035 Score=65.17 Aligned_cols=43 Identities=28% Similarity=0.678 Sum_probs=36.7
Q ss_pred CCeeeeccccccccccc-ccccCCceeccccccc-cc----CCCCCccccc
Q 020563 57 HELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTR-VH----NRCPTCRQEL 101 (324)
Q Consensus 57 ~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~-~~----~~CP~Cr~~~ 101 (324)
...++|++|.+....|. ..| ||+||-.|+.. |. ..||.||.-.
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 67899999999999997 688 99999999876 42 4699999854
No 32
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.74 E-value=0.00031 Score=73.66 Aligned_cols=49 Identities=31% Similarity=0.872 Sum_probs=40.5
Q ss_pred CcCCCCeeeeccccccccccc-ccccCCceecccccccc----cCCCCCcccccCc
Q 020563 53 TTSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV----HNRCPTCRQELGD 103 (324)
Q Consensus 53 ~~~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~~~ 103 (324)
.......|.||+|..=.+.-| ..| ||.||..|+.+. ..+||+|..+|+.
T Consensus 637 lk~yK~~LkCs~Cn~R~Kd~vI~kC--~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 637 LKEYKELLKCSVCNTRWKDAVITKC--GHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred HHHHHhceeCCCccCchhhHHHHhc--chHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 345678999999997777665 689 999999999754 3789999999974
No 33
>PLN03086 PRLI-interacting factor K; Provisional
Probab=96.62 E-value=0.0022 Score=66.36 Aligned_cols=106 Identities=21% Similarity=0.470 Sum_probs=68.4
Q ss_pred CCCCeeeeccccccccccc-----ccccCCceeccc--ccccc-------cCCCCCcccccCcccchHHHHHhh--hccc
Q 020563 55 SVHELLECPVCTNSMYPPI-----HQCHNGHTLCST--CKTRV-------HNRCPTCRQELGDIRCLALEKVAE--SLEL 118 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi-----~qC~~GH~~C~~--C~~~~-------~~~CP~Cr~~~~~~rn~ale~~l~--~l~v 118 (324)
...+...|+.|...+..-- ..|..--+.|.. |...+ .-.|+.|...+.. ..+++-.. ...+
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 3456668999998876432 257655566653 65433 2469999877642 22333222 3556
Q ss_pred cCCCCCCCCCcccCccchhhhhc-ccCCCccCCCCCCCCCccccC-----------hhHHHHHhhh
Q 020563 119 PCKYMSLGCPEIFPYYSKLKHEA-ICNFRPYNCPYAGSECSIVGD-----------IPFLVAHLRD 172 (324)
Q Consensus 119 ~C~~~~~GC~~~~~~~~~~~He~-~C~f~p~~CP~~g~~C~~~g~-----------~~~L~~Hl~~ 172 (324)
.|+ |+..+...++..|.. .|+.+++.|++ |+.... ...|..|...
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 777777788888865 78889988887 776653 2367788776
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=96.34 E-value=0.0037 Score=54.34 Aligned_cols=28 Identities=29% Similarity=0.521 Sum_probs=23.6
Q ss_pred ccCCCCCCCCCccccChhHHHHHhhhcCCC
Q 020563 147 PYNCPYAGSECSIVGDIPFLVAHLRDDHKV 176 (324)
Q Consensus 147 p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~ 176 (324)
+=.|+.. +|.|.|.+.+|.+|.+.+|..
T Consensus 107 ~RsC~~e--~C~F~GtY~eLrKHar~~HP~ 134 (162)
T PF07800_consen 107 KRSCSQE--SCSFSGTYSELRKHARSEHPS 134 (162)
T ss_pred CccCccc--ccccccCHHHHHHHHHhhCCC
Confidence 3456664 599999999999999999986
No 35
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.27 E-value=0.0013 Score=65.32 Aligned_cols=59 Identities=36% Similarity=0.920 Sum_probs=45.3
Q ss_pred CCCccccCCCCcCCCCeeeeccccccccccc-ccccCCceecccccccc---cCCCCCcccccCc
Q 020563 43 TSLASVINPGTTSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD 103 (324)
Q Consensus 43 ~~~~~~~~~~~~~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~ 103 (324)
.+-+.........+.+.|+|.||...|.+|| ..| ||.+|..|+.+. ...||.||.++..
T Consensus 68 ~~~~~~~~s~~~~~~sef~c~vc~~~l~~pv~tpc--ghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 68 DSTPKALLSGPEEIRSEFECCVCSRALYPPVVTPC--GHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred hhhhhhhhccCccccchhhhhhhHhhcCCCccccc--cccccHHHHHHHhccCCCCccccccccc
Confidence 3334444444456689999999999999998 456 999999997764 3689999998763
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=0.0055 Score=44.21 Aligned_cols=38 Identities=32% Similarity=0.527 Sum_probs=29.7
Q ss_pred hhcccCCCccCCCCCCCCCccccChhHHHHHhhhcCCCCC
Q 020563 139 HEAICNFRPYNCPYAGSECSIVGDIPFLVAHLRDDHKVDM 178 (324)
Q Consensus 139 He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~~ 178 (324)
|++.|+++++.||+.+ |.-...+.+|..|+..+.....
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 6666788999999999888753
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=95.70 E-value=0.004 Score=47.41 Aligned_cols=35 Identities=34% Similarity=0.966 Sum_probs=27.4
Q ss_pred eccccccccccc--------------ccccCCceecccccccc---cCCCCCcc
Q 020563 62 CPVCTNSMYPPI--------------HQCHNGHTLCSTCKTRV---HNRCPTCR 98 (324)
Q Consensus 62 CpIC~~~l~~Pi--------------~qC~~GH~~C~~C~~~~---~~~CP~Cr 98 (324)
|.||++.|..|. ..| ||.|-..|+.+| ...||+||
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 999999994332 136 999999999977 36899997
No 38
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.56 E-value=0.0016 Score=46.83 Aligned_cols=41 Identities=34% Similarity=0.924 Sum_probs=33.0
Q ss_pred eeeccccccccccc-ccccCCc-eecccccccc----cCCCCCcccccC
Q 020563 60 LECPVCTNSMYPPI-HQCHNGH-TLCSTCKTRV----HNRCPTCRQELG 102 (324)
Q Consensus 60 L~CpIC~~~l~~Pi-~qC~~GH-~~C~~C~~~~----~~~CP~Cr~~~~ 102 (324)
-+|-||.+-..+.| +.| || -.|-.|-.++ ...||.||.++.
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 57999999877665 799 99 5899996654 478999999864
No 39
>PLN03086 PRLI-interacting factor K; Provisional
Probab=95.45 E-value=0.039 Score=57.27 Aligned_cols=49 Identities=24% Similarity=0.515 Sum_probs=34.2
Q ss_pred cCCCCCCCCCcccCccchhhhhcccCCCccCCCCCCCCCccccChhHHHHHhhhcCCCC
Q 020563 119 PCKYMSLGCPEIFPYYSKLKHEAICNFRPYNCPYAGSECSIVGDIPFLVAHLRDDHKVD 177 (324)
Q Consensus 119 ~C~~~~~GC~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~ 177 (324)
.|++ |+..+...++++|++.| +.++.|| |+....+.+|..|+...+...
T Consensus 455 ~C~~----Cgk~f~~s~LekH~~~~-Hkpv~Cp-----Cg~~~~R~~L~~H~~thCp~K 503 (567)
T PLN03086 455 HCEK----CGQAFQQGEMEKHMKVF-HEPLQCP-----CGVVLEKEQMVQHQASTCPLR 503 (567)
T ss_pred cCCC----CCCccchHHHHHHHHhc-CCCccCC-----CCCCcchhHHHhhhhccCCCC
Confidence 6776 77777777777887777 5777776 555556677777876655543
No 40
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.40 E-value=0.0091 Score=56.20 Aligned_cols=45 Identities=31% Similarity=0.710 Sum_probs=35.8
Q ss_pred CCCCeeeeccccccccccc-cc-ccCCceeccccccccc-----CCCCCccccc
Q 020563 55 SVHELLECPVCTNSMYPPI-HQ-CHNGHTLCSTCKTRVH-----NRCPTCRQEL 101 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi-~q-C~~GH~~C~~C~~~~~-----~~CP~Cr~~~ 101 (324)
.-.+.-+||+|.+....|. .+ | ||++|-.|+.+-. -.||.|..+.
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 3446678999999999884 45 7 9999999997532 4899998764
No 41
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.21 E-value=0.0075 Score=57.40 Aligned_cols=39 Identities=36% Similarity=1.025 Sum_probs=33.2
Q ss_pred eeeccccccccccc-ccccCCceeccccccccc----CCCCCccc
Q 020563 60 LECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH----NRCPTCRQ 99 (324)
Q Consensus 60 L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~~----~~CP~Cr~ 99 (324)
|.||.|..+++.|+ +.| +||.||..|+...+ ..||.|..
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 89999999999998 445 49999999998542 68999976
No 42
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.07 E-value=0.0058 Score=58.80 Aligned_cols=49 Identities=24% Similarity=0.680 Sum_probs=40.9
Q ss_pred CcCCCCeeeeccccccccccc--ccccCCceecccccccc---cCCCCCcccccCc
Q 020563 53 TTSVHELLECPVCTNSMYPPI--HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD 103 (324)
Q Consensus 53 ~~~l~~~L~CpIC~~~l~~Pi--~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~ 103 (324)
..++.....|.+|..+|.++. ..| =|+||.+|+-+. ...||+|...+..
T Consensus 9 ~~~~n~~itC~LC~GYliDATTI~eC--LHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 9 LTELNPHITCRLCGGYLIDATTITEC--LHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred hhhcccceehhhccceeecchhHHHH--HHHHHHHHHHHHHHHhccCCccceeccC
Confidence 356778899999999999884 578 899999999765 4789999987653
No 43
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.94 E-value=0.0083 Score=54.04 Aligned_cols=55 Identities=25% Similarity=0.654 Sum_probs=40.9
Q ss_pred eeeeccccccccccc-ccccCCceecccccccc---cCCCCCcccccCc--ccchHHHHHhhh
Q 020563 59 LLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD--IRCLALEKVAES 115 (324)
Q Consensus 59 ~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~--~rn~ale~~l~~ 115 (324)
-|.|-||.+-+..|| ..| ||.||+.|..+- ...|-+|...... .....+++++.+
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 478999999999997 689 999999997542 3689999876532 234456666654
No 44
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.63 E-value=0.024 Score=53.90 Aligned_cols=46 Identities=26% Similarity=0.796 Sum_probs=37.3
Q ss_pred eeeccccccccccc-ccccCCceecccccccc---cCCCCCcccccCcccch
Q 020563 60 LECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV---HNRCPTCRQELGDIRCL 107 (324)
Q Consensus 60 L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~~rn~ 107 (324)
+.|-||..++..|| ..| ||.||..|-.+- ...|++|...+..+-|.
T Consensus 242 f~c~icr~~f~~pVvt~c--~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~ 291 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVTKC--GHYFCEVCALKPYQKGEKCYVCSQQTHGSFNV 291 (313)
T ss_pred ccccccccccccchhhcC--CceeehhhhccccccCCcceecccccccccch
Confidence 56999999999997 689 999999997653 26899999987654443
No 45
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.40 E-value=0.013 Score=41.12 Aligned_cols=40 Identities=30% Similarity=0.919 Sum_probs=20.1
Q ss_pred eccccccccc---ccccccCCceecccccccc----cCCCCCccccc
Q 020563 62 CPVCTNSMYP---PIHQCHNGHTLCSTCKTRV----HNRCPTCRQEL 101 (324)
Q Consensus 62 CpIC~~~l~~---Pi~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~ 101 (324)
||+|.+.+-. -++.|++|..+|..|..++ .+.||.||.+.
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 7899988832 1368999999999997655 36899999874
No 46
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.38 E-value=0.019 Score=59.46 Aligned_cols=44 Identities=30% Similarity=0.685 Sum_probs=36.7
Q ss_pred CCCeeeeccccccccc-----c-cccccCCceecccccccc---cCCCCCccccc
Q 020563 56 VHELLECPVCTNSMYP-----P-IHQCHNGHTLCSTCKTRV---HNRCPTCRQEL 101 (324)
Q Consensus 56 l~~~L~CpIC~~~l~~-----P-i~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~ 101 (324)
....-.|+||.+.|.. | ...| ||+|+..|+.+| ...||+||..+
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 4789 999999999987 47899999843
No 47
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.16 E-value=0.076 Score=38.31 Aligned_cols=43 Identities=26% Similarity=0.619 Sum_probs=31.5
Q ss_pred Ceeeecccccccc-cccccccCCceeccccccccc-CCCCCcccccC
Q 020563 58 ELLECPVCTNSMY-PPIHQCHNGHTLCSTCKTRVH-NRCPTCRQELG 102 (324)
Q Consensus 58 ~~L~CpIC~~~l~-~Pi~qC~~GH~~C~~C~~~~~-~~CP~Cr~~~~ 102 (324)
....|-.|...-. .++.+| ||++|..|+.-.. +-||.|..++.
T Consensus 6 ~~~~~~~~~~~~~~~~~~pC--gH~I~~~~f~~~rYngCPfC~~~~~ 50 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPC--GHLICDNCFPGERYNGCPFCGTPFE 50 (55)
T ss_pred cceeEEEccccccccccccc--cceeeccccChhhccCCCCCCCccc
Confidence 3445666666644 556789 9999999997432 78999998875
No 48
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=92.93 E-value=0.024 Score=41.23 Aligned_cols=32 Identities=25% Similarity=0.581 Sum_probs=21.9
Q ss_pred CCeeeecccccccccccc--cccCCceecccccccc
Q 020563 57 HELLECPVCTNSMYPPIH--QCHNGHTLCSTCKTRV 90 (324)
Q Consensus 57 ~~~L~CpIC~~~l~~Pi~--qC~~GH~~C~~C~~~~ 90 (324)
.-.+.|||...+|..||. .| ||+|.+..+..+
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C--~H~fek~aI~~~ 42 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKC--GHTFEKEAILQY 42 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS----EEEHHHHHHH
T ss_pred EeccCCCCcCChhhCCcCcCCC--CCeecHHHHHHH
Confidence 346789999999999984 68 999998888765
No 49
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.87 E-value=0.046 Score=52.20 Aligned_cols=43 Identities=28% Similarity=0.668 Sum_probs=35.4
Q ss_pred eeeeccccccccccc-ccccCCceecccccccc----cCCCCCcccccCc
Q 020563 59 LLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV----HNRCPTCRQELGD 103 (324)
Q Consensus 59 ~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~~~ 103 (324)
.-+|+||+.-..-|+ ..| +|.||--|+.-. ...|++||.++..
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 347999999998786 689 999999999743 2469999999864
No 50
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.65 E-value=0.031 Score=54.13 Aligned_cols=48 Identities=29% Similarity=0.800 Sum_probs=37.8
Q ss_pred cCCCCeeeecccccccccc---cccccCCceecccccccc----cCCCCCcccccC
Q 020563 54 TSVHELLECPVCTNSMYPP---IHQCHNGHTLCSTCKTRV----HNRCPTCRQELG 102 (324)
Q Consensus 54 ~~l~~~L~CpIC~~~l~~P---i~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~~ 102 (324)
++.++++ ||.|.+.|-.- .+.|++|-.+|.-|+..+ .++||.||.-..
T Consensus 10 sedeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 10 SEDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred ccccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 4455666 99999998643 368999999999998754 589999998665
No 51
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.99 E-value=0.038 Score=52.58 Aligned_cols=41 Identities=34% Similarity=0.903 Sum_probs=34.5
Q ss_pred Ceeeeccccccccccc-ccccCCc-eecccccccccCCCCCccccc
Q 020563 58 ELLECPVCTNSMYPPI-HQCHNGH-TLCSTCKTRVHNRCPTCRQEL 101 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi-~qC~~GH-~~C~~C~~~~~~~CP~Cr~~~ 101 (324)
....|.||++...+=+ +.| || +.|-.|-.++ +.||+||+-+
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 3667999999988877 588 99 6899999887 6999999854
No 52
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.92 E-value=0.11 Score=50.58 Aligned_cols=46 Identities=33% Similarity=0.770 Sum_probs=37.4
Q ss_pred CCCCeeeecccccccccc-cccccCCc-eecccccccc---cCCCCCcccccC
Q 020563 55 SVHELLECPVCTNSMYPP-IHQCHNGH-TLCSTCKTRV---HNRCPTCRQELG 102 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~P-i~qC~~GH-~~C~~C~~~~---~~~CP~Cr~~~~ 102 (324)
..++--+|-||+.-.++- |+.| -| -.|+.|-..+ .+.||+||.++.
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 345678899999998876 4789 88 4999998765 378999999875
No 53
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=90.68 E-value=0.13 Score=47.67 Aligned_cols=42 Identities=24% Similarity=0.743 Sum_probs=31.6
Q ss_pred eeeecccccccc-ccc--ccccCCceecccccccccC-CCCCcccccC
Q 020563 59 LLECPVCTNSMY-PPI--HQCHNGHTLCSTCKTRVHN-RCPTCRQELG 102 (324)
Q Consensus 59 ~L~CpIC~~~l~-~Pi--~qC~~GH~~C~~C~~~~~~-~CP~Cr~~~~ 102 (324)
-..|..|+.--. .|. +.| +|+||..|...... .||+|+.++.
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 356888877554 332 478 99999999876544 8999999864
No 54
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.76 E-value=0.2 Score=48.88 Aligned_cols=48 Identities=31% Similarity=0.833 Sum_probs=38.0
Q ss_pred CCcCCCCeeeecccccccc-cccccccCCceecccccccc-----cCCCCCccccc
Q 020563 52 GTTSVHELLECPVCTNSMY-PPIHQCHNGHTLCSTCKTRV-----HNRCPTCRQEL 101 (324)
Q Consensus 52 ~~~~l~~~L~CpIC~~~l~-~Pi~qC~~GH~~C~~C~~~~-----~~~CP~Cr~~~ 101 (324)
.++..++.-.|.||-+-++ .-++.| ||..|.-|-.++ ...||.||...
T Consensus 54 addtDEen~~C~ICA~~~TYs~~~PC--~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 54 ADDTDEENMNCQICAGSTTYSARYPC--GHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccccccceeEEecCCceEEEeccC--CchHHHHHHHHHHHHHhccCCCcccccc
Confidence 3445667788999999887 446889 999999997765 36899999864
No 55
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=89.75 E-value=0.086 Score=52.67 Aligned_cols=31 Identities=42% Similarity=0.984 Sum_probs=27.6
Q ss_pred CCCeeeeccccccccccc-ccccCCceecccccc
Q 020563 56 VHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKT 88 (324)
Q Consensus 56 l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~ 88 (324)
+++.|.||||...++.|| +.| ||..|..|-.
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 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=89.61 E-value=0.085 Score=52.21 Aligned_cols=40 Identities=35% Similarity=0.919 Sum_probs=33.2
Q ss_pred ecccccccccc-cccccCCceeccccccccc-----CCCCCcccccCc
Q 020563 62 CPVCTNSMYPP-IHQCHNGHTLCSTCKTRVH-----NRCPTCRQELGD 103 (324)
Q Consensus 62 CpIC~~~l~~P-i~qC~~GH~~C~~C~~~~~-----~~CP~Cr~~~~~ 103 (324)
|.||-+-=++- |-.| ||+.|..|...|+ +.||.||..+..
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 99999887754 4578 9999999999884 579999998753
No 57
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.00 E-value=0.17 Score=48.46 Aligned_cols=43 Identities=26% Similarity=0.767 Sum_probs=34.8
Q ss_pred Ceeeecccccccccc----cccccCCceecccccccc----cCCCCCcccccC
Q 020563 58 ELLECPVCTNSMYPP----IHQCHNGHTLCSTCKTRV----HNRCPTCRQELG 102 (324)
Q Consensus 58 ~~L~CpIC~~~l~~P----i~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~~ 102 (324)
.-.+|.||.+-+..- ++.| .|.|=..|+.+| .++||+||.++.
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 347899999987532 2578 999999999998 379999999864
No 58
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=88.94 E-value=0.14 Score=40.25 Aligned_cols=26 Identities=27% Similarity=0.648 Sum_probs=21.3
Q ss_pred cCCceecccccccc------cCCCCCcccccC
Q 020563 77 HNGHTLCSTCKTRV------HNRCPTCRQELG 102 (324)
Q Consensus 77 ~~GH~~C~~C~~~~------~~~CP~Cr~~~~ 102 (324)
.++|.|=..|+.++ .+.||.||+++.
T Consensus 51 ~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 51 KCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred cCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 34999999999887 268999999764
No 59
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=88.87 E-value=0.42 Score=33.94 Aligned_cols=50 Identities=28% Similarity=0.493 Sum_probs=33.3
Q ss_pred cccCCCCCCCCCcccCccchhhhhccc---CCCccCCCCCCCCCccccChhHHHHHhhhcCC
Q 020563 117 ELPCKYMSLGCPEIFPYYSKLKHEAIC---NFRPYNCPYAGSECSIVGDIPFLVAHLRDDHK 175 (324)
Q Consensus 117 ~v~C~~~~~GC~~~~~~~~~~~He~~C---~f~p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~ 175 (324)
.+.||| |...+....|..|-..- .-..+.||. |.... ..+|..|+...|.
T Consensus 2 ~f~CP~----C~~~~~~~~L~~H~~~~H~~~~~~v~CPi----C~~~~-~~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPY----CGKGFSESSLVEHCEDEHRSESKNVVCPI----CSSRV-TDNLIRHLNSQHR 54 (54)
T ss_pred CcCCCC----CCCccCHHHHHHHHHhHCcCCCCCccCCC----chhhh-hhHHHHHHHHhcC
Confidence 367887 77766666777774321 123588997 66543 3589999988874
No 60
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=87.88 E-value=0.16 Score=52.02 Aligned_cols=47 Identities=26% Similarity=0.648 Sum_probs=39.1
Q ss_pred cCCCCeeeeccccccccccc-ccccCCceecccccccc--------cCCCCCcccccC
Q 020563 54 TSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV--------HNRCPTCRQELG 102 (324)
Q Consensus 54 ~~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~--------~~~CP~Cr~~~~ 102 (324)
.+..+..+|.+|.++...+| ..| -|.||.-|+... .-.||+|..+++
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 45667889999999999997 688 899999999654 257999988765
No 61
>PF04641 Rtf2: Rtf2 RING-finger
Probab=85.78 E-value=0.71 Score=43.42 Aligned_cols=49 Identities=16% Similarity=0.525 Sum_probs=39.2
Q ss_pred CcCCCCeeeecccccccccc---c--ccccCCceeccccccccc--CCCCCcccccCc
Q 020563 53 TTSVHELLECPVCTNSMYPP---I--HQCHNGHTLCSTCKTRVH--NRCPTCRQELGD 103 (324)
Q Consensus 53 ~~~l~~~L~CpIC~~~l~~P---i--~qC~~GH~~C~~C~~~~~--~~CP~Cr~~~~~ 103 (324)
.......|.|||....|..- + ..| ||+|+..++..+. ..||.|..++..
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 34567889999999999642 2 267 9999999998874 379999999863
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=85.46 E-value=0.28 Score=41.66 Aligned_cols=45 Identities=24% Similarity=0.773 Sum_probs=35.9
Q ss_pred Ceeeecccccccccccc----cccCCceecccccccc------cCCCCCcccccCc
Q 020563 58 ELLECPVCTNSMYPPIH----QCHNGHTLCSTCKTRV------HNRCPTCRQELGD 103 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi~----qC~~GH~~C~~C~~~~------~~~CP~Cr~~~~~ 103 (324)
.+++|.||.+.-.+..+ .| +|-.+|.-|...+ ...||.|+..+..
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 89999999998776543 34 3999999998754 3789999998754
No 63
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.86 E-value=0.33 Score=47.59 Aligned_cols=44 Identities=25% Similarity=0.727 Sum_probs=35.8
Q ss_pred CCeeeeccccccccccc-----c----cccCCceeccccccccc----------CCCCCcccccC
Q 020563 57 HELLECPVCTNSMYPPI-----H----QCHNGHTLCSTCKTRVH----------NRCPTCRQELG 102 (324)
Q Consensus 57 ~~~L~CpIC~~~l~~Pi-----~----qC~~GH~~C~~C~~~~~----------~~CP~Cr~~~~ 102 (324)
.+...|.||.+....+. + .| -|.||.+|+.+|. ..||.||....
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 34778999999988655 2 47 8999999999874 57999999764
No 64
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.04 E-value=0.23 Score=51.87 Aligned_cols=41 Identities=39% Similarity=0.866 Sum_probs=32.1
Q ss_pred cCCCCeeeecccccccc----ccc-ccccCCceecccccccc-cCCCCC
Q 020563 54 TSVHELLECPVCTNSMY----PPI-HQCHNGHTLCSTCKTRV-HNRCPT 96 (324)
Q Consensus 54 ~~l~~~L~CpIC~~~l~----~Pi-~qC~~GH~~C~~C~~~~-~~~CP~ 96 (324)
....+.|.|+||+..+- .|+ .+| ||+.|+.|.+++ ...||+
T Consensus 6 ~~w~~~l~c~ic~n~f~~~~~~Pvsl~c--ghtic~~c~~~lyn~scp~ 52 (861)
T KOG3161|consen 6 LKWVLLLLCDICLNLFVVQRLEPVSLQC--GHTICGHCVQLLYNASCPT 52 (861)
T ss_pred hhhHHHhhchHHHHHHHHHhcCcccccc--cchHHHHHHHhHhhccCCC
Confidence 34567899999966553 566 699 999999999876 467883
No 65
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.88 E-value=0.52 Score=44.03 Aligned_cols=44 Identities=20% Similarity=0.423 Sum_probs=36.0
Q ss_pred Ceeeeccccccccccc-----ccccCCceeccccccccc---CCCCCcccccCc
Q 020563 58 ELLECPVCTNSMYPPI-----HQCHNGHTLCSTCKTRVH---NRCPTCRQELGD 103 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi-----~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~~~ 103 (324)
..|.||||.+.|...+ ..| ||+||..|.+++. ..||+|..++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~s--g~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPS--GHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccC--CcEeeHHHHHHhccccccccCCCCcCcc
Confidence 6799999999998643 245 9999999999873 679999888763
No 66
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.49 E-value=0.45 Score=46.59 Aligned_cols=45 Identities=29% Similarity=0.754 Sum_probs=32.5
Q ss_pred CCCCeeeeccccccccccc-ccccCCceec-ccccccccCCCCCcccccC
Q 020563 55 SVHELLECPVCTNSMYPPI-HQCHNGHTLC-STCKTRVHNRCPTCRQELG 102 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C-~~C~~~~~~~CP~Cr~~~~ 102 (324)
+++....|.||.+-.+.-+ ..| ||.-| ..|... ...||+||+.+.
T Consensus 301 ~~~~p~lcVVcl~e~~~~~fvpc--Gh~ccct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVFVPC--GHVCCCTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCccceeeecC--CcEEEchHHHhh-CCCCchhHHHHH
Confidence 4445566999999999877 588 99765 334333 477999998753
No 67
>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=83.16 E-value=0.46 Score=36.05 Aligned_cols=38 Identities=32% Similarity=0.760 Sum_probs=23.5
Q ss_pred eeecccccccccccccccCCceecccccccc--cCCCCCcccccC
Q 020563 60 LECPVCTNSMYPPIHQCHNGHTLCSTCKTRV--HNRCPTCRQELG 102 (324)
Q Consensus 60 L~CpIC~~~l~~Pi~qC~~GH~~C~~C~~~~--~~~CP~Cr~~~~ 102 (324)
+.||.|...|.+- +|+..|..|-... ...||.|..++.
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 6799999998753 1788999998765 368999998864
No 68
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.47 E-value=0.78 Score=43.53 Aligned_cols=56 Identities=32% Similarity=0.829 Sum_probs=39.9
Q ss_pred eeeeccccccccc------c-cccccCCceeccccccccc----CCCCCccccc--Cc------ccchHHHHHhhhc
Q 020563 59 LLECPVCTNSMYP------P-IHQCHNGHTLCSTCKTRVH----NRCPTCRQEL--GD------IRCLALEKVAESL 116 (324)
Q Consensus 59 ~L~CpIC~~~l~~------P-i~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~--~~------~rn~ale~~l~~l 116 (324)
.+.|-||.+.+.. | +..| ||.+|..|..++. ..||.||.+. .. ..|.++-..+...
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 5678999887762 3 4678 9999999999873 4689999984 22 3556655555443
No 69
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=82.05 E-value=0.63 Score=46.82 Aligned_cols=47 Identities=32% Similarity=0.715 Sum_probs=37.6
Q ss_pred cCCCCeeeeccccccccccc-----ccccCCceeccccccccc-CCCCCcccccC
Q 020563 54 TSVHELLECPVCTNSMYPPI-----HQCHNGHTLCSTCKTRVH-NRCPTCRQELG 102 (324)
Q Consensus 54 ~~l~~~L~CpIC~~~l~~Pi-----~qC~~GH~~C~~C~~~~~-~~CP~Cr~~~~ 102 (324)
..+-++-.||||++-|-+-+ ..| -|.|=..|..+|. ..||+||-...
T Consensus 170 ~~~tELPTCpVCLERMD~s~~gi~t~~c--~Hsfh~~cl~~w~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 170 TGLTELPTCPVCLERMDSSTTGILTILC--NHSFHCSCLMKWWDSSCPVCRYCQS 222 (493)
T ss_pred CCcccCCCcchhHhhcCccccceeeeec--ccccchHHHhhcccCcChhhhhhcC
Confidence 45678889999999998654 357 8999999999884 68999987543
No 70
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=80.38 E-value=0.97 Score=26.38 Aligned_cols=24 Identities=38% Similarity=0.722 Sum_probs=17.7
Q ss_pred cCCCCCCCCCccccChhHHHHHhhhcCC
Q 020563 148 YNCPYAGSECSIVGDIPFLVAHLRDDHK 175 (324)
Q Consensus 148 ~~CP~~g~~C~~~g~~~~L~~Hl~~~H~ 175 (324)
+.|+. |+|.....+|..|++..|.
T Consensus 1 y~C~~----C~y~t~~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPH----CSYSTSKSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SS----SS-EESHHHHHHHHHHHHS
T ss_pred CCCCC----CCCcCCHHHHHHHHHhhCc
Confidence 35775 8998888899999998774
No 71
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.77 E-value=0.33 Score=51.84 Aligned_cols=41 Identities=29% Similarity=0.740 Sum_probs=28.9
Q ss_pred eeccccccccccc----ccccCCceecccccccc---cCCCCCcccccCc
Q 020563 61 ECPVCTNSMYPPI----HQCHNGHTLCSTCKTRV---HNRCPTCRQELGD 103 (324)
Q Consensus 61 ~CpIC~~~l~~Pi----~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~~ 103 (324)
.||+|..-+..-. ..| +|.||..|+..| .+.||+||..|..
T Consensus 125 ~CP~Ci~s~~DqL~~~~k~c--~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEKHT--AHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhHHHHHHHHHhhcccccc--ccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 3666655444321 245 999999999877 3789999998753
No 72
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=79.14 E-value=0.53 Score=35.49 Aligned_cols=44 Identities=25% Similarity=0.579 Sum_probs=17.0
Q ss_pred eeeecccccccc----ccccccc---CCceeccccccccc--------------CCCCCcccccC
Q 020563 59 LLECPVCTNSMY----PPIHQCH---NGHTLCSTCKTRVH--------------NRCPTCRQELG 102 (324)
Q Consensus 59 ~L~CpIC~~~l~----~Pi~qC~---~GH~~C~~C~~~~~--------------~~CP~Cr~~~~ 102 (324)
.++|+||+.++. .|...|. ++..|=..|+.+|. +.||.|+.++.
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 2445563 25444455666551 35888877764
No 73
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=78.47 E-value=0.91 Score=44.82 Aligned_cols=42 Identities=31% Similarity=0.769 Sum_probs=33.0
Q ss_pred Ceeeeccccccc-ccc------------c-ccccCCceecccccccc---cCCCCCccccc
Q 020563 58 ELLECPVCTNSM-YPP------------I-HQCHNGHTLCSTCKTRV---HNRCPTCRQEL 101 (324)
Q Consensus 58 ~~L~CpIC~~~l-~~P------------i-~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~ 101 (324)
++-.|-||.+-| .+| - ..| ||++=-.|...| +..||+||.++
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 455799999984 344 2 468 999999998877 47899999994
No 74
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.01 E-value=0.77 Score=45.74 Aligned_cols=41 Identities=32% Similarity=0.695 Sum_probs=33.3
Q ss_pred eeeeccccccccccc------ccccCCceeccccccccc-----CCCCCccccc
Q 020563 59 LLECPVCTNSMYPPI------HQCHNGHTLCSTCKTRVH-----NRCPTCRQEL 101 (324)
Q Consensus 59 ~L~CpIC~~~l~~Pi------~qC~~GH~~C~~C~~~~~-----~~CP~Cr~~~ 101 (324)
--.||||++-..-|. .+| ||.|=++|+++|. ..||.|...-
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 346999999887664 478 9999999999883 6799997653
No 75
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.39 E-value=1.2 Score=43.72 Aligned_cols=41 Identities=22% Similarity=0.634 Sum_probs=33.7
Q ss_pred eeecccccccccc----cccccCCceeccccccccc----CCCCCcccccC
Q 020563 60 LECPVCTNSMYPP----IHQCHNGHTLCSTCKTRVH----NRCPTCRQELG 102 (324)
Q Consensus 60 L~CpIC~~~l~~P----i~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~~ 102 (324)
..|.||++-+.+- ++.| +|.|=..|+.+|. ..||+|+..+.
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 6899999988743 3689 9999999999884 45999998654
No 76
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=76.75 E-value=1.2 Score=26.82 Aligned_cols=23 Identities=39% Similarity=0.748 Sum_probs=16.3
Q ss_pred ccCCCCCCCCCcccCccchhhhhcccC
Q 020563 118 LPCKYMSLGCPEIFPYYSKLKHEAICN 144 (324)
Q Consensus 118 v~C~~~~~GC~~~~~~~~~~~He~~C~ 144 (324)
++|++ |+..+....+..|+..|.
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 46666 777777777777777763
No 77
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=74.62 E-value=0.81 Score=38.60 Aligned_cols=48 Identities=25% Similarity=0.578 Sum_probs=29.4
Q ss_pred ecccccccccCCCCCcccccCcccchHHHHHhh-----hccccCCCCCCCCCcccCccc
Q 020563 82 LCSTCKTRVHNRCPTCRQELGDIRCLALEKVAE-----SLELPCKYMSLGCPEIFPYYS 135 (324)
Q Consensus 82 ~C~~C~~~~~~~CP~Cr~~~~~~rn~ale~~l~-----~l~v~C~~~~~GC~~~~~~~~ 135 (324)
||+.|-......||.|..++- -+..+|.++. +.+-.|.| |...+|+.+
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 899998776688999988752 2333444443 12334554 666666554
No 78
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.97 E-value=1.6 Score=46.40 Aligned_cols=40 Identities=40% Similarity=0.943 Sum_probs=30.9
Q ss_pred eeccccccccccc-ccccCCc-eeccccccccc---------CCCCCcccccC
Q 020563 61 ECPVCTNSMYPPI-HQCHNGH-TLCSTCKTRVH---------NRCPTCRQELG 102 (324)
Q Consensus 61 ~CpIC~~~l~~Pi-~qC~~GH-~~C~~C~~~~~---------~~CP~Cr~~~~ 102 (324)
.|+||..-..-+. ..| || .+|.+|..++. ..||.||..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~--~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSC--GHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccc--cccccchhhhhhhhhhcccccccccCccccccee
Confidence 4889988777665 578 99 89999988762 45799988654
No 79
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=73.69 E-value=1.6 Score=41.51 Aligned_cols=103 Identities=17% Similarity=0.330 Sum_probs=61.3
Q ss_pred CCeeeecccccccc-cccccccCCceecccccccccCCCCCcccccCcccchHHHHHh----hhccccCCCCCCCCCccc
Q 020563 57 HELLECPVCTNSMY-PPIHQCHNGHTLCSTCKTRVHNRCPTCRQELGDIRCLALEKVA----ESLELPCKYMSLGCPEIF 131 (324)
Q Consensus 57 ~~~L~CpIC~~~l~-~Pi~qC~~GH~~C~~C~~~~~~~CP~Cr~~~~~~rn~ale~~l----~~l~v~C~~~~~GC~~~~ 131 (324)
...+.|++|..... -|-+. .|+-= ..+.-.|++|.+.|. |.+.|..-+ .+-.+.|+. |...+
T Consensus 159 ~ka~~C~~C~K~YvSmpALk---MHirT----H~l~c~C~iCGKaFS--RPWLLQGHiRTHTGEKPF~C~h----C~kAF 225 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALK---MHIRT----HTLPCECGICGKAFS--RPWLLQGHIRTHTGEKPFSCPH----CGKAF 225 (279)
T ss_pred cccccCCCCCceeeehHHHh---hHhhc----cCCCccccccccccc--chHHhhcccccccCCCCccCCc----ccchh
Confidence 56788999998765 33221 23210 012246888877664 444443333 344677775 77554
Q ss_pred C-ccchhhhhcc-cCCCccCCCCCCCCCccccChh-HHHHHhhhcCCC
Q 020563 132 P-YYSKLKHEAI-CNFRPYNCPYAGSECSIVGDIP-FLVAHLRDDHKV 176 (324)
Q Consensus 132 ~-~~~~~~He~~-C~f~p~~CP~~g~~C~~~g~~~-~L~~Hl~~~H~~ 176 (324)
- ..+|+.|+.+ =...++.|+. |+....++ -|..|++..+..
T Consensus 226 ADRSNLRAHmQTHS~~K~~qC~~----C~KsFsl~SyLnKH~ES~C~~ 269 (279)
T KOG2462|consen 226 ADRSNLRAHMQTHSDVKKHQCPR----CGKSFALKSYLNKHSESACLK 269 (279)
T ss_pred cchHHHHHHHHhhcCCccccCcc----hhhHHHHHHHHHHhhhhcccc
Confidence 3 3467778753 3456788875 87777655 567787776654
No 80
>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=73.36 E-value=1.1 Score=42.77 Aligned_cols=39 Identities=38% Similarity=1.101 Sum_probs=28.8
Q ss_pred eeccccc--cccccc----ccccCCceecccccccc----cCCCCCccccc
Q 020563 61 ECPVCTN--SMYPPI----HQCHNGHTLCSTCKTRV----HNRCPTCRQEL 101 (324)
Q Consensus 61 ~CpIC~~--~l~~Pi----~qC~~GH~~C~~C~~~~----~~~CP~Cr~~~ 101 (324)
.||+|.- ++.|.+ -.| ||..|.+|..++ ...||.|...+
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 4888865 333433 256 999999999876 36899998765
No 81
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=71.75 E-value=17 Score=34.60 Aligned_cols=106 Identities=23% Similarity=0.379 Sum_probs=66.4
Q ss_pred CCCCeeeeccccccccccc-ccccCCc--eecccccccccCCCCCcccccCcccchHHHHHhhhccccCCCCCCCCCccc
Q 020563 55 SVHELLECPVCTNSMYPPI-HQCHNGH--TLCSTCKTRVHNRCPTCRQELGDIRCLALEKVAESLELPCKYMSLGCPEIF 131 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi-~qC~~GH--~~C~~C~~~~~~~CP~Cr~~~~~~rn~ale~~l~~l~v~C~~~~~GC~~~~ 131 (324)
.....+.|+-|...+..-. +. -| .-|.-=-.+ ...|+.|.+.......+.|....-.|...|.. |+..+
T Consensus 126 ~~~~r~~c~eCgk~ysT~snLs---rHkQ~H~~~~s~k-a~~C~~C~K~YvSmpALkMHirTH~l~c~C~i----CGKaF 197 (279)
T KOG2462|consen 126 AKHPRYKCPECGKSYSTSSNLS---RHKQTHRSLDSKK-AFSCKYCGKVYVSMPALKMHIRTHTLPCECGI----CGKAF 197 (279)
T ss_pred ccCCceeccccccccccccccc---hhhcccccccccc-cccCCCCCceeeehHHHhhHhhccCCCccccc----ccccc
Confidence 3567888999988776421 00 01 111111112 36899998877666777777777777888876 88777
Q ss_pred Ccc-chhhhhcc-cCCCccCCCCCCCCCcccc-ChhHHHHHhhh
Q 020563 132 PYY-SKLKHEAI-CNFRPYNCPYAGSECSIVG-DIPFLVAHLRD 172 (324)
Q Consensus 132 ~~~-~~~~He~~-C~f~p~~CP~~g~~C~~~g-~~~~L~~Hl~~ 172 (324)
..- -|+-|.++ =--+|+.||. |+... .+.+|..|++.
T Consensus 198 SRPWLLQGHiRTHTGEKPF~C~h----C~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 198 SRPWLLQGHIRTHTGEKPFSCPH----CGKAFADRSNLRAHMQT 237 (279)
T ss_pred cchHHhhcccccccCCCCccCCc----ccchhcchHHHHHHHHh
Confidence 643 23344331 1236889986 76644 56799999885
No 82
>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=71.62 E-value=0.98 Score=39.37 Aligned_cols=21 Identities=29% Similarity=0.948 Sum_probs=17.8
Q ss_pred ecccccccccCCCCCcccccC
Q 020563 82 LCSTCKTRVHNRCPTCRQELG 102 (324)
Q Consensus 82 ~C~~C~~~~~~~CP~Cr~~~~ 102 (324)
||..|-.++...||.|..++.
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 83
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=69.30 E-value=2.1 Score=40.12 Aligned_cols=24 Identities=21% Similarity=0.657 Sum_probs=19.6
Q ss_pred eeeecccccccc--cccccccCCcee
Q 020563 59 LLECPVCTNSMY--PPIHQCHNGHTL 82 (324)
Q Consensus 59 ~L~CpIC~~~l~--~Pi~qC~~GH~~ 82 (324)
.|.||+|...|. ...+.|.+||.|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 478999999997 334789999987
No 84
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.53 E-value=2.5 Score=42.25 Aligned_cols=102 Identities=23% Similarity=0.440 Sum_probs=60.1
Q ss_pred CCCeeeeccccccccccc----ccccCCceecccccccc-----------cCCCCCcccc--cCc------------c--
Q 020563 56 VHELLECPVCTNSMYPPI----HQCHNGHTLCSTCKTRV-----------HNRCPTCRQE--LGD------------I-- 104 (324)
Q Consensus 56 l~~~L~CpIC~~~l~~Pi----~qC~~GH~~C~~C~~~~-----------~~~CP~Cr~~--~~~------------~-- 104 (324)
+..+++|.||++-....+ +.| +|.||..|.... .-+||-+.-. ... .
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC--~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arY 258 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPC--SHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARY 258 (445)
T ss_pred HhhcccceeeehhhcCcceeeeccc--chHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHH
Confidence 357899999999887643 468 999999998643 1468875432 111 0
Q ss_pred cchHHHHHhhhcc--ccCCCCCCCCCcccCccchhhhhc---ccCCCcc-CCCC---CCCCCccccC
Q 020563 105 RCLALEKVAESLE--LPCKYMSLGCPEIFPYYSKLKHEA---ICNFRPY-NCPY---AGSECSIVGD 162 (324)
Q Consensus 105 rn~ale~~l~~l~--v~C~~~~~GC~~~~~~~~~~~He~---~C~f~p~-~CP~---~g~~C~~~g~ 162 (324)
..+.+++-++.+. +.||++ -|.... ..+...-+. .|.|+-+ -|.. .+..|++.+.
T Consensus 259 e~l~lqk~l~~msdv~yCPr~--~Cq~p~-~~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~ 322 (445)
T KOG1814|consen 259 EKLMLQKTLELMSDVVYCPRA--CCQLPV-KQDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAE 322 (445)
T ss_pred HHHHHHHHHHhhcccccCChh--hccCcc-ccCchhhhhhhccCccHHHHHHHHhhcCCCcccCchH
Confidence 1123444555555 889985 465443 444444444 3445443 2431 1356888765
No 85
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.02 E-value=5.3 Score=38.21 Aligned_cols=34 Identities=24% Similarity=0.582 Sum_probs=27.6
Q ss_pred CCCCeeeeccccccccccc-cccc--CCceecccccc
Q 020563 55 SVHELLECPVCTNSMYPPI-HQCH--NGHTLCSTCKT 88 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi-~qC~--~GH~~C~~C~~ 88 (324)
....-|.|-+|.+-|.+-- +||+ ..|-||..|-.
T Consensus 264 A~~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSR 300 (352)
T KOG3579|consen 264 APSAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSR 300 (352)
T ss_pred CCCCceeehhhhhhhccCceeecCCCcccceecccCH
Confidence 3446699999999999875 6997 48999999854
No 86
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=67.22 E-value=1.2 Score=48.81 Aligned_cols=47 Identities=23% Similarity=0.624 Sum_probs=32.1
Q ss_pred CCCeeeecccccccc-----ccccccc-CCceecccccccc-----cCCCCCcccccC
Q 020563 56 VHELLECPVCTNSMY-----PPIHQCH-NGHTLCSTCKTRV-----HNRCPTCRQELG 102 (324)
Q Consensus 56 l~~~L~CpIC~~~l~-----~Pi~qC~-~GH~~C~~C~~~~-----~~~CP~Cr~~~~ 102 (324)
....-+|+||+.++. -|--.|. |-|-|=.+|+-+| .+.||.||..++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 345567999999986 2433442 2466666777666 378999998765
No 87
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.12 E-value=2.2 Score=42.41 Aligned_cols=43 Identities=30% Similarity=0.767 Sum_probs=31.7
Q ss_pred CCCCeeeecccccccc---ccc-ccccCCceeccccccccc------CCCCCccc
Q 020563 55 SVHELLECPVCTNSMY---PPI-HQCHNGHTLCSTCKTRVH------NRCPTCRQ 99 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~---~Pi-~qC~~GH~~C~~C~~~~~------~~CP~Cr~ 99 (324)
.....|.|||=.+--. ||+ ..| ||+++..-+.++. -+||.|..
T Consensus 330 ~fHSvF~CPVlKeqtsdeNPPm~L~C--GHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 330 HFHSVFICPVLKEQTSDENPPMMLIC--GHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred cccceeecccchhhccCCCCCeeeec--cceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 3678999999777654 776 689 9999988877762 35666644
No 88
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.94 E-value=1.9 Score=42.30 Aligned_cols=42 Identities=29% Similarity=0.672 Sum_probs=30.6
Q ss_pred Ceeeeccccccccccc-ccccCCceeccccccccc---CCCCCccccc
Q 020563 58 ELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH---NRCPTCRQEL 101 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~~---~~CP~Cr~~~ 101 (324)
++-.||||+---...+ ..| ||.-|..|+.+.. +.|-.|+..+
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 4445999987666555 478 9999999998863 4566666543
No 89
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=64.61 E-value=4.6 Score=29.68 Aligned_cols=37 Identities=30% Similarity=0.699 Sum_probs=21.9
Q ss_pred hccccCCCCCCCCCcccCccchhhhhcccCCCccCCCCCCCCCccccC
Q 020563 115 SLELPCKYMSLGCPEIFPYYSKLKHEAICNFRPYNCPYAGSECSIVGD 162 (324)
Q Consensus 115 ~l~v~C~~~~~GC~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~ 162 (324)
...++||| |.+.+-+.-.+--+ .-.+|.||. |+|+|+
T Consensus 25 ~v~F~CPn----CGe~~I~Rc~~CRk---~g~~Y~Cp~----CGF~GP 61 (61)
T COG2888 25 AVKFPCPN----CGEVEIYRCAKCRK---LGNPYRCPK----CGFEGP 61 (61)
T ss_pred eeEeeCCC----CCceeeehhhhHHH---cCCceECCC----cCccCC
Confidence 35778887 77554443322111 125789986 999874
No 90
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=64.41 E-value=1.7 Score=46.38 Aligned_cols=39 Identities=31% Similarity=0.858 Sum_probs=31.6
Q ss_pred eeeccccccccccc-ccccCCceeccccccccc-----CCCCCccccc
Q 020563 60 LECPVCTNSMYPPI-HQCHNGHTLCSTCKTRVH-----NRCPTCRQEL 101 (324)
Q Consensus 60 L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~~-----~~CP~Cr~~~ 101 (324)
+.|++|.+ ...++ ..| ||.+|..|+.+.. ..||.||..+
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 66664 688 9999999998752 4699997754
No 91
>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=64.15 E-value=6.9 Score=27.62 Aligned_cols=27 Identities=33% Similarity=0.737 Sum_probs=22.5
Q ss_pred ccCCCCCCCCCccccChhHHHHHhhhcCCCC
Q 020563 147 PYNCPYAGSECSIVGDIPFLVAHLRDDHKVD 177 (324)
Q Consensus 147 p~~CP~~g~~C~~~g~~~~L~~Hl~~~H~~~ 177 (324)
.+.||+ |+...+...|..|+...|...
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 888567789999999999974
No 92
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=62.30 E-value=5.7 Score=39.17 Aligned_cols=116 Identities=16% Similarity=0.360 Sum_probs=76.7
Q ss_pred CCCCeeeeccccccccccc--c-cc------cCCceecccccccc---------------cCCCCCcccccCc---ccch
Q 020563 55 SVHELLECPVCTNSMYPPI--H-QC------HNGHTLCSTCKTRV---------------HNRCPTCRQELGD---IRCL 107 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi--~-qC------~~GH~~C~~C~~~~---------------~~~CP~Cr~~~~~---~rn~ 107 (324)
+-+..+-||-|.+.|..-. + -| ...|-.|+.|..+. .-+||.|....+. .++-
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 4467888999999987432 1 12 12467788887653 1479999876653 2333
Q ss_pred HHHHHhhhccccCCCCCCCCCcc-cCccchhhhhcccCCCccCCCCCCCCCcccc-ChhHHHHHhhhcCCC
Q 020563 108 ALEKVAESLELPCKYMSLGCPEI-FPYYSKLKHEAICNFRPYNCPYAGSECSIVG-DIPFLVAHLRDDHKV 176 (324)
Q Consensus 108 ale~~l~~l~v~C~~~~~GC~~~-~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g-~~~~L~~Hl~~~H~~ 176 (324)
.+-+-.++-.+.|.- |... +...++.+|...=.-..|.|..+ +|.+.. .+.+|..|+++.|..
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 444455566677764 6644 45668888876444556788775 488766 356999999998854
No 93
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=62.22 E-value=3.9 Score=39.49 Aligned_cols=76 Identities=18% Similarity=0.183 Sum_probs=51.3
Q ss_pred CCCCCcccccCc-c--cc---hHHHHHhhhccccCCCCCCCCCcccCccchhhhhcccCCCccCCCCCCCCCccccChhH
Q 020563 92 NRCPTCRQELGD-I--RC---LALEKVAESLELPCKYMSLGCPEIFPYYSKLKHEAICNFRPYNCPYAGSECSIVGDIPF 165 (324)
Q Consensus 92 ~~CP~Cr~~~~~-~--rn---~ale~~l~~l~v~C~~~~~GC~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~ 165 (324)
..||+|...+.. + .+ ++-..=-.++...||. |...++...-..=|+.+.-..+.||+...+|.+..++.+
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 457777766643 1 11 3333333367788887 988877444445577899999999998888999988765
Q ss_pred HHHHhh
Q 020563 166 LVAHLR 171 (324)
Q Consensus 166 L~~Hl~ 171 (324)
=..|.+
T Consensus 125 ~~~HE~ 130 (299)
T KOG3002|consen 125 KSKHEK 130 (299)
T ss_pred cccccc
Confidence 555544
No 94
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=62.01 E-value=4.8 Score=28.65 Aligned_cols=26 Identities=23% Similarity=0.788 Sum_probs=12.4
Q ss_pred cccccC-Cceecccccc---cccCCCCCcc
Q 020563 73 IHQCHN-GHTLCSTCKT---RVHNRCPTCR 98 (324)
Q Consensus 73 i~qC~~-GH~~C~~C~~---~~~~~CP~Cr 98 (324)
.++|+. ++.||.+|=. ..+..||-|.
T Consensus 21 ~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 21 RYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp EE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred eEECCCCCCccccCcChhhhccccCCcCCC
Confidence 356643 7789999843 3347899884
No 95
>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=61.06 E-value=4 Score=29.62 Aligned_cols=41 Identities=29% Similarity=0.757 Sum_probs=29.8
Q ss_pred eccccccccccc---ccccCCceecccccccc-cCCCCCcccccC
Q 020563 62 CPVCTNSMYPPI---HQCHNGHTLCSTCKTRV-HNRCPTCRQELG 102 (324)
Q Consensus 62 CpIC~~~l~~Pi---~qC~~GH~~C~~C~~~~-~~~CP~Cr~~~~ 102 (324)
|-.|..-|.+.. +-|.--.+||..|...+ .+.||.|.+.+.
T Consensus 8 CE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CPNCgGelv 52 (57)
T PF06906_consen 8 CECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCPNCGGELV 52 (57)
T ss_pred ccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCcCCCCccc
Confidence 556666655322 45655569999999876 689999998765
No 96
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=61.01 E-value=5.6 Score=30.40 Aligned_cols=30 Identities=37% Similarity=0.851 Sum_probs=24.7
Q ss_pred ccccCCceecccccc-cccCCCCCcccccCc
Q 020563 74 HQCHNGHTLCSTCKT-RVHNRCPTCRQELGD 103 (324)
Q Consensus 74 ~qC~~GH~~C~~C~~-~~~~~CP~Cr~~~~~ 103 (324)
..|...++||..|-+ ++...||.|...+..
T Consensus 23 ~ICtfEcTFCadCae~~l~g~CPnCGGelv~ 53 (84)
T COG3813 23 RICTFECTFCADCAENRLHGLCPNCGGELVA 53 (84)
T ss_pred eEEEEeeehhHhHHHHhhcCcCCCCCchhhc
Confidence 457777899999998 556899999998764
No 97
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=57.91 E-value=4.3 Score=44.06 Aligned_cols=44 Identities=25% Similarity=0.791 Sum_probs=36.2
Q ss_pred CCCCeeeeccccccccccc--ccccCCceecccccccccCCCCCcccc
Q 020563 55 SVHELLECPVCTNSMYPPI--HQCHNGHTLCSTCKTRVHNRCPTCRQE 100 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~~Pi--~qC~~GH~~C~~C~~~~~~~CP~Cr~~ 100 (324)
.+-..-.|..|.-.|.-|. +.| ||.|=.+|.+.-...||.|+..
T Consensus 836 ~i~q~skCs~C~~~LdlP~VhF~C--gHsyHqhC~e~~~~~CP~C~~e 881 (933)
T KOG2114|consen 836 QIFQVSKCSACEGTLDLPFVHFLC--GHSYHQHCLEDKEDKCPKCLPE 881 (933)
T ss_pred ceeeeeeecccCCccccceeeeec--ccHHHHHhhccCcccCCccchh
Confidence 3344568999999999885 689 9999999998656899999773
No 98
>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=57.70 E-value=4.1 Score=32.79 Aligned_cols=40 Identities=30% Similarity=0.781 Sum_probs=15.2
Q ss_pred eecccccccc--cc-cccccCCceeccccccccc-------CCCCCccccc
Q 020563 61 ECPVCTNSMY--PP-IHQCHNGHTLCSTCKTRVH-------NRCPTCRQEL 101 (324)
Q Consensus 61 ~CpIC~~~l~--~P-i~qC~~GH~~C~~C~~~~~-------~~CP~Cr~~~ 101 (324)
.|++|...+. .+ +.+|.+||.+ .+|..... ..|+.|....
T Consensus 16 ~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~ 65 (99)
T PF12660_consen 16 KCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRA 65 (99)
T ss_dssp -------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EE
T ss_pred cccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEE
Confidence 4999999774 44 3689999985 67765431 5799998764
No 99
>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=56.40 E-value=5.5 Score=24.30 Aligned_cols=8 Identities=38% Similarity=1.211 Sum_probs=3.9
Q ss_pred eccccccc
Q 020563 62 CPVCTNSM 69 (324)
Q Consensus 62 CpIC~~~l 69 (324)
||.|...+
T Consensus 3 CP~C~~~V 10 (26)
T PF10571_consen 3 CPECGAEV 10 (26)
T ss_pred CCCCcCCc
Confidence 45555444
No 100
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.08 E-value=5.9 Score=37.22 Aligned_cols=38 Identities=13% Similarity=0.197 Sum_probs=31.3
Q ss_pred CCCcCCCCeeeecccccccccccccccCCceeccccccc
Q 020563 51 PGTTSVHELLECPVCTNSMYPPIHQCHNGHTLCSTCKTR 89 (324)
Q Consensus 51 ~~~~~l~~~L~CpIC~~~l~~Pi~qC~~GH~~C~~C~~~ 89 (324)
-+.+++.+--.|..|+.+...||. |..||+||..||..
T Consensus 35 LgrDsiK~FdcCsLtLqPc~dPvi-t~~GylfdrEaILe 72 (303)
T KOG3039|consen 35 LGRDSIKPFDCCSLTLQPCRDPVI-TPDGYLFDREAILE 72 (303)
T ss_pred hcccccCCcceeeeecccccCCcc-CCCCeeeeHHHHHH
Confidence 344667677779999999999975 77799999999875
No 101
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=54.96 E-value=9 Score=28.11 Aligned_cols=36 Identities=28% Similarity=0.729 Sum_probs=20.4
Q ss_pred hccccCCCCCCCCCcc-cCccchhhhhcccCCCccCCCCCCCCCccccC
Q 020563 115 SLELPCKYMSLGCPEI-FPYYSKLKHEAICNFRPYNCPYAGSECSIVGD 162 (324)
Q Consensus 115 ~l~v~C~~~~~GC~~~-~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~ 162 (324)
..++.||+ |.+. +..-..=.- ...+|.||. |+|+|+
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 7665 222111111 136889985 999884
No 102
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=53.67 E-value=5.8 Score=38.40 Aligned_cols=64 Identities=20% Similarity=0.512 Sum_probs=41.1
Q ss_pred eeeecccccccccc--cccccCCceecccccccc-cCCCCCcccccCcccchHHHHHhhhccccCCCCCCCCCcc
Q 020563 59 LLECPVCTNSMYPP--IHQCHNGHTLCSTCKTRV-HNRCPTCRQELGDIRCLALEKVAESLELPCKYMSLGCPEI 130 (324)
Q Consensus 59 ~L~CpIC~~~l~~P--i~qC~~GH~~C~~C~~~~-~~~CP~Cr~~~~~~rn~ale~~l~~l~v~C~~~~~GC~~~ 130 (324)
.-.|.-|..++..= +..| -|+||-.|-..- .+.||.|...+ .-+|.....-.|-|. ...||..+
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 55688898877632 3478 999999996432 25799996654 234444444455665 45667643
No 103
>PRK04023 DNA polymerase II large subunit; Validated
Probab=53.20 E-value=15 Score=40.91 Aligned_cols=44 Identities=25% Similarity=0.638 Sum_probs=32.9
Q ss_pred Ceeeeccccccccccccccc-CCc-----eeccccccccc-CCCCCcccccCc
Q 020563 58 ELLECPVCTNSMYPPIHQCH-NGH-----TLCSTCKTRVH-NRCPTCRQELGD 103 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi~qC~-~GH-----~~C~~C~~~~~-~~CP~Cr~~~~~ 103 (324)
....||-|.... +.+.|+ ||. .+|..|..... ..||.|......
T Consensus 625 g~RfCpsCG~~t--~~frCP~CG~~Te~i~fCP~CG~~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 625 GRRKCPSCGKET--FYRRCPFCGTHTEPVYRCPRCGIEVEEDECEKCGREPTP 675 (1121)
T ss_pred cCccCCCCCCcC--CcccCCCCCCCCCcceeCccccCcCCCCcCCCCCCCCCc
Confidence 455699999985 446786 573 59999987653 579999987653
No 104
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=52.01 E-value=17 Score=33.46 Aligned_cols=115 Identities=20% Similarity=0.345 Sum_probs=60.2
Q ss_pred CcCCCCeeeecccccccccccccccCCceecccccccccCCCCCcccccCcccchHHHHHhhhccccCCCCCCCCCcccC
Q 020563 53 TTSVHELLECPVCTNSMYPPIHQCHNGHTLCSTCKTRVHNRCPTCRQELGDIRCLALEKVAESLELPCKYMSLGCPEIFP 132 (324)
Q Consensus 53 ~~~l~~~L~CpIC~~~l~~Pi~qC~~GH~~C~~C~~~~~~~CP~Cr~~~~~~rn~ale~~l~~l~v~C~~~~~GC~~~~~ 132 (324)
..+..+.|.|.||..-|.-..+- |-|+-|.+=+.+ ..|..|.+.|.+. ..+.+-+..-.--=||+-.-|...++
T Consensus 111 sssd~d~ftCrvCgK~F~lQRml--nrh~kch~~vkr--~lct~cgkgfndt--fdlkrh~rthtgvrpykc~~c~kaft 184 (267)
T KOG3576|consen 111 SSSDQDSFTCRVCGKKFGLQRML--NRHLKCHSDVKR--HLCTFCGKGFNDT--FDLKRHTRTHTGVRPYKCSLCEKAFT 184 (267)
T ss_pred CCCCCCeeeeehhhhhhhHHHHH--HHHhhhccHHHH--HHHhhccCcccch--hhhhhhhccccCccccchhhhhHHHH
Confidence 34558899999999988754221 245555443333 3477777665432 11222222111111222223554433
Q ss_pred c-cchhhhhcc------------cCCCccCCCCCCCCCccccCh-hHHHHHhhhcCCCC
Q 020563 133 Y-YSKLKHEAI------------CNFRPYNCPYAGSECSIVGDI-PFLVAHLRDDHKVD 177 (324)
Q Consensus 133 ~-~~~~~He~~------------C~f~p~~CP~~g~~C~~~g~~-~~L~~Hl~~~H~~~ 177 (324)
- ..++.|.+. =.-..+.|. +|++.+.. +..+.|+...|...
T Consensus 185 qrcsleshl~kvhgv~~~yaykerr~kl~vce----dcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 185 QRCSLESHLKKVHGVQHQYAYKERRAKLYVCE----DCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred hhccHHHHHHHHcCchHHHHHHHhhhheeeec----ccCCCCCChhHHHHHHHhcCCCC
Confidence 3 244555421 111245665 48888854 57888999988874
No 105
>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=51.43 E-value=4.8 Score=28.28 Aligned_cols=39 Identities=26% Similarity=0.742 Sum_probs=18.8
Q ss_pred eeeccccccccccc--ccccCCceecccccccc-------cCCCCCcccc
Q 020563 60 LECPVCTNSMYPPI--HQCHNGHTLCSTCKTRV-------HNRCPTCRQE 100 (324)
Q Consensus 60 L~CpIC~~~l~~Pi--~qC~~GH~~C~~C~~~~-------~~~CP~Cr~~ 100 (324)
|.||+-...+..|+ ..| -|.-|-+=..-+ .-.||.|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C--~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNC--KHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT----SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcC--cccceECHHHHHHHhhccCCeECcCCcCc
Confidence 78999999999998 467 888664321111 1359999763
No 106
>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=49.56 E-value=9.8 Score=29.89 Aligned_cols=34 Identities=24% Similarity=0.513 Sum_probs=24.1
Q ss_pred CCCeeeeccccccccccc-ccccCCceeccccccc
Q 020563 56 VHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTR 89 (324)
Q Consensus 56 l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~ 89 (324)
+.+.-.|++|...+.... .-.++||++-..|..+
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 344556999999998653 2333499999988753
No 107
>PHA00616 hypothetical protein
Probab=46.47 E-value=34 Score=23.61 Aligned_cols=28 Identities=25% Similarity=0.376 Sum_probs=21.4
Q ss_pred ccCCCCCCCCCcccc-ChhHHHHHhhhcCCCCC
Q 020563 147 PYNCPYAGSECSIVG-DIPFLVAHLRDDHKVDM 178 (324)
Q Consensus 147 p~~CP~~g~~C~~~g-~~~~L~~Hl~~~H~~~~ 178 (324)
|+.||. |+..- .+.+|..|++..|..+.
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 77655 45699999999998753
No 108
>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=46.15 E-value=8.5 Score=36.61 Aligned_cols=42 Identities=29% Similarity=0.578 Sum_probs=19.6
Q ss_pred eeeecccccccccccccccC--C--ceeccccccccc---CCCCCcccc
Q 020563 59 LLECPVCTNSMYPPIHQCHN--G--HTLCSTCKTRVH---NRCPTCRQE 100 (324)
Q Consensus 59 ~L~CpIC~~~l~~Pi~qC~~--G--H~~C~~C~~~~~---~~CP~Cr~~ 100 (324)
.-.||||...-.--++.=.. | +.+|+-|-..|. ..||.|...
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 35799999875543322211 5 589999998883 689999664
No 109
>PF12773 DZR: Double zinc ribbon
Probab=45.46 E-value=15 Score=25.17 Aligned_cols=6 Identities=50% Similarity=1.658 Sum_probs=2.8
Q ss_pred CCCccc
Q 020563 94 CPTCRQ 99 (324)
Q Consensus 94 CP~Cr~ 99 (324)
||.|..
T Consensus 32 C~~Cg~ 37 (50)
T PF12773_consen 32 CPNCGA 37 (50)
T ss_pred CcCCcC
Confidence 444444
No 110
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=45.05 E-value=9 Score=37.38 Aligned_cols=46 Identities=22% Similarity=0.410 Sum_probs=33.3
Q ss_pred CCCeeeecccccccccccccccCCceecccccccc---cCCCCCccccc
Q 020563 56 VHELLECPVCTNSMYPPIHQCHNGHTLCSTCKTRV---HNRCPTCRQEL 101 (324)
Q Consensus 56 l~~~L~CpIC~~~l~~Pi~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~ 101 (324)
..+.-.||||..--..|..-=..|-+||-+|+-+. .+.||+=..+.
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 34556799999988887432224999999999765 37899865543
No 111
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.04 E-value=8.3 Score=38.47 Aligned_cols=31 Identities=26% Similarity=0.705 Sum_probs=22.2
Q ss_pred Ceeeecccc-cccccc-c---ccccCCceecccccccc
Q 020563 58 ELLECPVCT-NSMYPP-I---HQCHNGHTLCSTCKTRV 90 (324)
Q Consensus 58 ~~L~CpIC~-~~l~~P-i---~qC~~GH~~C~~C~~~~ 90 (324)
....|.||. +..... . .-| ||.||..|..+.
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 544432 2 236 999999999764
No 112
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.93 E-value=15 Score=33.60 Aligned_cols=38 Identities=29% Similarity=0.778 Sum_probs=27.9
Q ss_pred eccccccccccc-ccccCCc-eecccccccccCCCCCcccccC
Q 020563 62 CPVCTNSMYPPI-HQCHNGH-TLCSTCKTRVHNRCPTCRQELG 102 (324)
Q Consensus 62 CpIC~~~l~~Pi-~qC~~GH-~~C~~C~~~~~~~CP~Cr~~~~ 102 (324)
|-.|.+--..-+ ..| -| .+|..|-..+ ..||.|+.+..
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 888887544432 478 55 7999998763 78999998754
No 113
>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=43.76 E-value=13 Score=38.36 Aligned_cols=69 Identities=25% Similarity=0.488 Sum_probs=38.8
Q ss_pred CCCeeeecccccccccccccccC---Cceeccccccccc---------------CCCCCcccccCcccchH--------H
Q 020563 56 VHELLECPVCTNSMYPPIHQCHN---GHTLCSTCKTRVH---------------NRCPTCRQELGDIRCLA--------L 109 (324)
Q Consensus 56 l~~~L~CpIC~~~l~~Pi~qC~~---GH~~C~~C~~~~~---------------~~CP~Cr~~~~~~rn~a--------l 109 (324)
|.++|.|..|..+-.+- |.. --.||..|...+. ..||.|..++....... -
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 56778888888765532 221 1257777765431 35999988775321110 0
Q ss_pred HHHhhhccccCCCCCCCCCccc
Q 020563 110 EKVAESLELPCKYMSLGCPEIF 131 (324)
Q Consensus 110 e~~l~~l~v~C~~~~~GC~~~~ 131 (324)
...-....+.|.| |.|.-
T Consensus 79 ~~~~~~~~l~C~~----C~Wss 96 (483)
T PF05502_consen 79 DSGGKPYYLSCSY----CRWSS 96 (483)
T ss_pred cCCCCCEEEECCC----ceeec
Confidence 1112345667887 88853
No 114
>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=42.91 E-value=7.6 Score=23.71 Aligned_cols=24 Identities=25% Similarity=0.418 Sum_probs=14.9
Q ss_pred ccCCCCCCCCCcccCccchhhhhcccC
Q 020563 118 LPCKYMSLGCPEIFPYYSKLKHEAICN 144 (324)
Q Consensus 118 v~C~~~~~GC~~~~~~~~~~~He~~C~ 144 (324)
+.||| .-...++..+++.|...|+
T Consensus 3 v~CPy---n~~H~v~~~~l~~Hi~~C~ 26 (27)
T PF05253_consen 3 VRCPY---NPSHRVPASELQKHIKKCP 26 (27)
T ss_dssp EE-TT---TSS-EEEGGGHHHHHHHHH
T ss_pred eeCCC---CCCcCcCHHHHHHHHHHcC
Confidence 46776 3456677777888877764
No 115
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=41.89 E-value=17 Score=25.75 Aligned_cols=33 Identities=30% Similarity=0.700 Sum_probs=22.2
Q ss_pred eeeec--ccccccccc------cccc-cCCceeccccccccc
Q 020563 59 LLECP--VCTNSMYPP------IHQC-HNGHTLCSTCKTRVH 91 (324)
Q Consensus 59 ~L~Cp--IC~~~l~~P------i~qC-~~GH~~C~~C~~~~~ 91 (324)
.-.|| -|..++..+ .++| .+|+.||..|...+.
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCC
Confidence 33477 676655432 3577 579999999987764
No 116
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=40.90 E-value=20 Score=28.99 Aligned_cols=35 Identities=20% Similarity=0.514 Sum_probs=22.3
Q ss_pred cCCCCeeeecccccccc-cccccccCCceeccccccc
Q 020563 54 TSVHELLECPVCTNSMY-PPIHQCHNGHTLCSTCKTR 89 (324)
Q Consensus 54 ~~l~~~L~CpIC~~~l~-~Pi~qC~~GH~~C~~C~~~ 89 (324)
..++..+.||.|.+... -++-. .-+|+.|..|-..
T Consensus 16 ~klpt~f~CP~Cge~~v~v~~~k-~~~h~~C~~CG~y 51 (99)
T PRK14892 16 PKLPKIFECPRCGKVSISVKIKK-NIAIITCGNCGLY 51 (99)
T ss_pred cCCCcEeECCCCCCeEeeeecCC-CcceEECCCCCCc
Confidence 56678999999996422 23323 3467777766543
No 117
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=40.54 E-value=19 Score=38.39 Aligned_cols=8 Identities=38% Similarity=0.978 Sum_probs=4.3
Q ss_pred eecccccc
Q 020563 61 ECPVCTNS 68 (324)
Q Consensus 61 ~CpIC~~~ 68 (324)
.||-|...
T Consensus 3 ~Cp~Cg~~ 10 (645)
T PRK14559 3 ICPQCQFE 10 (645)
T ss_pred cCCCCCCc
Confidence 45555554
No 118
>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=40.17 E-value=19 Score=34.87 Aligned_cols=42 Identities=29% Similarity=0.661 Sum_probs=28.6
Q ss_pred Ceeeeccccccccccc-ccc--cCC--ceeccccccccc---CCCCCccc
Q 020563 58 ELLECPVCTNSMYPPI-HQC--HNG--HTLCSTCKTRVH---NRCPTCRQ 99 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi-~qC--~~G--H~~C~~C~~~~~---~~CP~Cr~ 99 (324)
..-.||||...-.--+ ..- ..| +..|+-|-..|. ..||.|..
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 3457999998754332 221 246 578999988884 67998865
No 119
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=39.93 E-value=4.1 Score=46.04 Aligned_cols=46 Identities=28% Similarity=0.760 Sum_probs=37.5
Q ss_pred CCCCeeeecccccccc--cccccccCCceecccccccc---cCCCCCcccccC
Q 020563 55 SVHELLECPVCTNSMY--PPIHQCHNGHTLCSTCKTRV---HNRCPTCRQELG 102 (324)
Q Consensus 55 ~l~~~L~CpIC~~~l~--~Pi~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 102 (324)
.+.....|++|++++. .-|++| ||-+|.+|...+ ...||+|....+
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 4567779999999998 347899 999999998765 378999986544
No 120
>smart00301 DM Doublesex DNA-binding motif.
Probab=39.48 E-value=22 Score=25.67 Aligned_cols=39 Identities=26% Similarity=0.426 Sum_probs=29.3
Q ss_pred CCcccCccchhhhhcccCCCccCCCCCCCCCccccChhHHHHH
Q 020563 127 CPEIFPYYSKLKHEAICNFRPYNCPYAGSECSIVGDIPFLVAH 169 (324)
Q Consensus 127 C~~~~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~~~~L~~H 169 (324)
|.-......++.|-..|+|+.+.|+. |..+..+..++..
T Consensus 8 CrnHg~~~~lKGHKr~C~~r~C~C~k----C~Li~~Rq~vma~ 46 (54)
T smart00301 8 CENHGVKVPLKGHKPECPFRDCECEK----CTLVEKRRALMAL 46 (54)
T ss_pred HhcCCCeeccCCcCCCCCCCCCcCCC----CcChHHHHHHHHH
Confidence 44445566788899999999999985 8887766666554
No 121
>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=38.34 E-value=25 Score=19.37 Aligned_cols=22 Identities=32% Similarity=0.596 Sum_probs=14.0
Q ss_pred CCCCCCCCCcccc-ChhHHHHHhhhcC
Q 020563 149 NCPYAGSECSIVG-DIPFLVAHLRDDH 174 (324)
Q Consensus 149 ~CP~~g~~C~~~g-~~~~L~~Hl~~~H 174 (324)
.|+. |+... ...+|..|+...|
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 4654 66655 4568999988766
No 122
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.09 E-value=9.1 Score=38.19 Aligned_cols=37 Identities=41% Similarity=0.983 Sum_probs=27.5
Q ss_pred eeeccccccccc------ccccccCCceecccccccc-----c-CCCCCccc
Q 020563 60 LECPVCTNSMYP------PIHQCHNGHTLCSTCKTRV-----H-NRCPTCRQ 99 (324)
Q Consensus 60 L~CpIC~~~l~~------Pi~qC~~GH~~C~~C~~~~-----~-~~CP~Cr~ 99 (324)
-.|.||-+ ++| ||..| ||+|=-.|...| . ..||.|+-
T Consensus 5 A~C~Ic~d-~~p~~~~l~~i~~c--Ghifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICID-GRPNDHELGPIGTC--GHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEecc-CCccccccccccch--hhHHHHHHHHHHHccCCccCCCCceee
Confidence 46999944 443 45568 999999999877 2 47999983
No 123
>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=37.88 E-value=26 Score=24.66 Aligned_cols=33 Identities=24% Similarity=0.551 Sum_probs=19.6
Q ss_pred eeeecc--cccccccc----c--cccc-CCceeccccccccc
Q 020563 59 LLECPV--CTNSMYPP----I--HQCH-NGHTLCSTCKTRVH 91 (324)
Q Consensus 59 ~L~CpI--C~~~l~~P----i--~qC~-~GH~~C~~C~~~~~ 91 (324)
...||- |..++... . ++|. +|+.||..|...++
T Consensus 18 ~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H 59 (64)
T PF01485_consen 18 IRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWH 59 (64)
T ss_dssp CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESC
T ss_pred ccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccC
Confidence 347987 99888632 1 4677 79999999987763
No 124
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=37.85 E-value=9.4 Score=29.81 Aligned_cols=43 Identities=26% Similarity=0.529 Sum_probs=27.3
Q ss_pred eecccccccccccccccC---------------Cceecccccccc---cCCCCCcccccCc
Q 020563 61 ECPVCTNSMYPPIHQCHN---------------GHTLCSTCKTRV---HNRCPTCRQELGD 103 (324)
Q Consensus 61 ~CpIC~~~l~~Pi~qC~~---------------GH~~C~~C~~~~---~~~CP~Cr~~~~~ 103 (324)
.|.||...+..+-.+|.. -|.|=..|+.++ .+.||.+|+.+..
T Consensus 22 ~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 22 VCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred hhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 366666665544333432 466667788776 3789999987643
No 125
>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=37.77 E-value=7.5 Score=26.82 Aligned_cols=38 Identities=24% Similarity=0.471 Sum_probs=27.6
Q ss_pred CCCCcccccCcccchHHHHHhhhccccCCCCCCCCCcccC
Q 020563 93 RCPTCRQELGDIRCLALEKVAESLELPCKYMSLGCPEIFP 132 (324)
Q Consensus 93 ~CP~Cr~~~~~~rn~ale~~l~~l~v~C~~~~~GC~~~~~ 132 (324)
.||.|...........+...+.++-..|.|.+ |.+.+.
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 49999887655556667777888888998864 665544
No 126
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=36.37 E-value=9 Score=40.86 Aligned_cols=47 Identities=23% Similarity=0.809 Sum_probs=37.7
Q ss_pred cCCCCeeeeccccccccccc-ccccCCceecccccccc------cCCCCCcccccC
Q 020563 54 TSVHELLECPVCTNSMYPPI-HQCHNGHTLCSTCKTRV------HNRCPTCRQELG 102 (324)
Q Consensus 54 ~~l~~~L~CpIC~~~l~~Pi-~qC~~GH~~C~~C~~~~------~~~CP~Cr~~~~ 102 (324)
..+...++||||......|+ ..| -|.||..|+... ...||+|+..+.
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 34567899999999999996 689 899999998754 257999986553
No 127
>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=35.93 E-value=23 Score=25.81 Aligned_cols=33 Identities=27% Similarity=0.727 Sum_probs=16.1
Q ss_pred CCeeeeccccccccccc--cccc-CCceeccccccc
Q 020563 57 HELLECPVCTNSMYPPI--HQCH-NGHTLCSTCKTR 89 (324)
Q Consensus 57 ~~~L~CpIC~~~l~~Pi--~qC~-~GH~~C~~C~~~ 89 (324)
.+.-.|.+|...|..-. ..|. +|++||++|...
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 34557999999985322 3453 399999999864
No 128
>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=33.91 E-value=24 Score=28.11 Aligned_cols=37 Identities=27% Similarity=0.792 Sum_probs=28.9
Q ss_pred eeecccccccccccccccCCceecccccccccCCCCCcccccCc
Q 020563 60 LECPVCTNSMYPPIHQCHNGHTLCSTCKTRVHNRCPTCRQELGD 103 (324)
Q Consensus 60 L~CpIC~~~l~~Pi~qC~~GH~~C~~C~~~~~~~CP~Cr~~~~~ 103 (324)
-.|-+|..-+..+ ||.+|..|--+. +.|..|...+.+
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 3588888766654 999999996653 799999987754
No 129
>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=33.27 E-value=17 Score=23.54 Aligned_cols=24 Identities=17% Similarity=0.241 Sum_probs=13.8
Q ss_pred cccCCCCCCCCCcccCccchhhhhcccC
Q 020563 117 ELPCKYMSLGCPEIFPYYSKLKHEAICN 144 (324)
Q Consensus 117 ~v~C~~~~~GC~~~~~~~~~~~He~~C~ 144 (324)
.+.|++ |.-.+.-.....|++.|.
T Consensus 4 ~~~C~n----C~R~v~a~RfA~HLekCm 27 (33)
T PF08209_consen 4 YVECPN----CGRPVAASRFAPHLEKCM 27 (33)
T ss_dssp EEE-TT----TSSEEEGGGHHHHHHHHT
T ss_pred eEECCC----CcCCcchhhhHHHHHHHH
Confidence 455665 666666666666666553
No 130
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=32.71 E-value=15 Score=28.01 Aligned_cols=45 Identities=16% Similarity=0.448 Sum_probs=30.5
Q ss_pred CCCCcccccCcccchHHHHHhhhccccCCCCCCCCCcccCccchhhh
Q 020563 93 RCPTCRQELGDIRCLALEKVAESLELPCKYMSLGCPEIFPYYSKLKH 139 (324)
Q Consensus 93 ~CP~Cr~~~~~~rn~ale~~l~~l~v~C~~~~~GC~~~~~~~~~~~H 139 (324)
.||.|+...-....+.+...+..+...|.|- .|..++...+-..|
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 6999988763344555666677788888874 47776666555555
No 131
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=32.02 E-value=21 Score=20.98 Aligned_cols=7 Identities=43% Similarity=1.279 Sum_probs=3.2
Q ss_pred CCCCccc
Q 020563 93 RCPTCRQ 99 (324)
Q Consensus 93 ~CP~Cr~ 99 (324)
-||.|..
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 3444443
No 132
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=31.40 E-value=49 Score=37.95 Aligned_cols=44 Identities=32% Similarity=0.821 Sum_probs=31.3
Q ss_pred Ceeeeccccccccccccccc-CCce-----eccccccccc------CCCCCcccccCc
Q 020563 58 ELLECPVCTNSMYPPIHQCH-NGHT-----LCSTCKTRVH------NRCPTCRQELGD 103 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi~qC~-~GH~-----~C~~C~~~~~------~~CP~Cr~~~~~ 103 (324)
..+.||-|...... ..|+ ||.. .|.+|-.++. ..||.|..++..
T Consensus 666 ~~rkCPkCG~~t~~--~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 666 GRRRCPSCGTETYE--NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTP 721 (1337)
T ss_pred EEEECCCCCCcccc--ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccc
Confidence 36889999996543 2565 5754 5999987652 279999988753
No 133
>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=30.77 E-value=39 Score=21.40 Aligned_cols=9 Identities=33% Similarity=0.863 Sum_probs=6.6
Q ss_pred CCCCCcccc
Q 020563 92 NRCPTCRQE 100 (324)
Q Consensus 92 ~~CP~Cr~~ 100 (324)
..||+|..+
T Consensus 18 ~~CP~Cg~~ 26 (33)
T cd00350 18 WVCPVCGAP 26 (33)
T ss_pred CcCcCCCCc
Confidence 578888764
No 134
>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=30.46 E-value=21 Score=24.81 Aligned_cols=33 Identities=18% Similarity=0.509 Sum_probs=21.8
Q ss_pred CCeeeecccccccccccccccCCceeccccccc
Q 020563 57 HELLECPVCTNSMYPPIHQCHNGHTLCSTCKTR 89 (324)
Q Consensus 57 ~~~L~CpIC~~~l~~Pi~qC~~GH~~C~~C~~~ 89 (324)
.+=|.|..|...|.+..+.=.+|.++|..|..+
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 356778888888776543334577888777643
No 135
>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=29.78 E-value=32 Score=30.64 Aligned_cols=47 Identities=17% Similarity=0.152 Sum_probs=28.1
Q ss_pred cccccCcccchHHHHHhhhccccCCCCCCCCCcccCccchhhhhccc
Q 020563 97 CRQELGDIRCLALEKVAESLELPCKYMSLGCPEIFPYYSKLKHEAIC 143 (324)
Q Consensus 97 Cr~~~~~~rn~ale~~l~~l~v~C~~~~~GC~~~~~~~~~~~He~~C 143 (324)
|...+....-..-|+.-.-.+..||....||+|...+.++.+|...-
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 44444444444556666677889998778999999999999998653
No 136
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=29.31 E-value=38 Score=32.88 Aligned_cols=42 Identities=26% Similarity=0.647 Sum_probs=28.5
Q ss_pred Ceeeecccccccccccc--cccCC--ceeccccccccc---CCCCCccc
Q 020563 58 ELLECPVCTNSMYPPIH--QCHNG--HTLCSTCKTRVH---NRCPTCRQ 99 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi~--qC~~G--H~~C~~C~~~~~---~~CP~Cr~ 99 (324)
..-.||||...-.--+. .=..| +..|+-|-..|. ..||.|..
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 11246 578999988884 67999965
No 137
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=28.99 E-value=25 Score=34.31 Aligned_cols=34 Identities=29% Similarity=0.680 Sum_probs=24.1
Q ss_pred cCCCCeeeecccccccc---ccc-ccccCCceeccccccc
Q 020563 54 TSVHELLECPVCTNSMY---PPI-HQCHNGHTLCSTCKTR 89 (324)
Q Consensus 54 ~~l~~~L~CpIC~~~l~---~Pi-~qC~~GH~~C~~C~~~ 89 (324)
-....+|.|||=.+.-+ ||+ ..| ||++=..-..+
T Consensus 331 ~hfHs~FiCPVlKe~~t~ENpP~ml~C--gHVIskeal~~ 368 (396)
T COG5109 331 RHFHSLFICPVLKELCTDENPPVMLEC--GHVISKEALSV 368 (396)
T ss_pred ccccceeeccccHhhhcccCCCeeeec--cceeeHHHHHH
Confidence 36788999999777654 676 688 99875544433
No 138
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=28.98 E-value=40 Score=25.59 Aligned_cols=34 Identities=26% Similarity=0.413 Sum_probs=19.2
Q ss_pred hhcccCCCccCCCCCCCCCcccc-ChhHHHHHhhhc-CCC
Q 020563 139 HEAICNFRPYNCPYAGSECSIVG-DIPFLVAHLRDD-HKV 176 (324)
Q Consensus 139 He~~C~f~p~~CP~~g~~C~~~g-~~~~L~~Hl~~~-H~~ 176 (324)
+...-......|+. |+... +...|..|++.. |..
T Consensus 42 ~~~~~~~~~~~C~~----C~~~f~s~~~l~~Hm~~~~H~~ 77 (100)
T PF12756_consen 42 YLRKKVKESFRCPY----CNKTFRSREALQEHMRSKHHKK 77 (100)
T ss_dssp -------SSEEBSS----SS-EESSHHHHHHHHHHTTTTC
T ss_pred ccccccCCCCCCCc----cCCCCcCHHHHHHHHcCccCCC
Confidence 33333334678886 66655 678999999976 544
No 139
>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=28.97 E-value=52 Score=33.95 Aligned_cols=41 Identities=29% Similarity=0.737 Sum_probs=26.4
Q ss_pred Ceeeeccccccccccccccc--------CCceecccccccc--cCCCCCcccc
Q 020563 58 ELLECPVCTNSMYPPIHQCH--------NGHTLCSTCKTRV--HNRCPTCRQE 100 (324)
Q Consensus 58 ~~L~CpIC~~~l~~Pi~qC~--------~GH~~C~~C~~~~--~~~CP~Cr~~ 100 (324)
..+.|.-|..++.-| .|. .+...|..|-.+. ...||.|...
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 2456788886543 3689999774
No 140
>PRK00420 hypothetical protein; Validated
Probab=28.46 E-value=32 Score=28.47 Aligned_cols=25 Identities=24% Similarity=0.732 Sum_probs=16.8
Q ss_pred eeecccccccccccccccCCceecccccc
Q 020563 60 LECPVCTNSMYPPIHQCHNGHTLCSTCKT 88 (324)
Q Consensus 60 L~CpIC~~~l~~Pi~qC~~GH~~C~~C~~ 88 (324)
-.||+|..+|..- ..|..+|..|-.
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 4699999877642 237777766654
No 141
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=26.90 E-value=49 Score=35.95 Aligned_cols=42 Identities=31% Similarity=0.734 Sum_probs=30.5
Q ss_pred CCeeeeccccccccccccccc--------CCceeccccccc--ccCCCCCcccc
Q 020563 57 HELLECPVCTNSMYPPIHQCH--------NGHTLCSTCKTR--VHNRCPTCRQE 100 (324)
Q Consensus 57 ~~~L~CpIC~~~l~~Pi~qC~--------~GH~~C~~C~~~--~~~~CP~Cr~~ 100 (324)
...+.|..|..++.-| .|. .|.+.|..|-.. ....||.|...
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 4567788888887765 242 367899999754 34789999887
No 142
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=26.84 E-value=57 Score=20.96 Aligned_cols=9 Identities=33% Similarity=1.180 Sum_probs=6.7
Q ss_pred CCCCCcccc
Q 020563 92 NRCPTCRQE 100 (324)
Q Consensus 92 ~~CP~Cr~~ 100 (324)
..||+|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 578888764
No 143
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=26.78 E-value=38 Score=33.82 Aligned_cols=34 Identities=26% Similarity=0.393 Sum_probs=27.1
Q ss_pred ccccCCCCCCCCCcccCccchhhhh-cccCCCccCCCC
Q 020563 116 LELPCKYMSLGCPEIFPYYSKLKHE-AICNFRPYNCPY 152 (324)
Q Consensus 116 l~v~C~~~~~GC~~~~~~~~~~~He-~~C~f~p~~CP~ 152 (324)
-.+.|++ +|...++..++.+|. ..|+++...|..
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 144
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=26.75 E-value=24 Score=32.45 Aligned_cols=78 Identities=24% Similarity=0.464 Sum_probs=45.3
Q ss_pred CCCCCcccccCccc--chHHHHHhhhccccCCCCCCCCCcccCc-cchhhhhcc-cCCCccCCCCCCCCCcccc-ChhHH
Q 020563 92 NRCPTCRQELGDIR--CLALEKVAESLELPCKYMSLGCPEIFPY-YSKLKHEAI-CNFRPYNCPYAGSECSIVG-DIPFL 166 (324)
Q Consensus 92 ~~CP~Cr~~~~~~r--n~ale~~l~~l~v~C~~~~~GC~~~~~~-~~~~~He~~-C~f~p~~CP~~g~~C~~~g-~~~~L 166 (324)
..|.+|.+.|+..| |+-|.---.--+..|.+ |..-+.- -+++.|.++ =-.|||.|.. |.... .+-.|
T Consensus 118 ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~----cgkgfndtfdlkrh~rthtgvrpykc~~----c~kaftqrcsl 189 (267)
T KOG3576|consen 118 FTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTF----CGKGFNDTFDLKRHTRTHTGVRPYKCSL----CEKAFTQRCSL 189 (267)
T ss_pred eeeehhhhhhhHHHHHHHHhhhccHHHHHHHhh----ccCcccchhhhhhhhccccCccccchhh----hhHHHHhhccH
Confidence 56888888776433 12121111111234554 5544332 256777653 4568999975 66544 34589
Q ss_pred HHHhhhcCCCC
Q 020563 167 VAHLRDDHKVD 177 (324)
Q Consensus 167 ~~Hl~~~H~~~ 177 (324)
+.||+..|...
T Consensus 190 eshl~kvhgv~ 200 (267)
T KOG3576|consen 190 ESHLKKVHGVQ 200 (267)
T ss_pred HHHHHHHcCch
Confidence 99999999864
No 145
>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=26.61 E-value=9.8 Score=35.65 Aligned_cols=40 Identities=35% Similarity=0.947 Sum_probs=28.6
Q ss_pred eeeeccccc--cccccc--c---cccCCceecccccccc----cCCCC--Ccccc
Q 020563 59 LLECPVCTN--SMYPPI--H---QCHNGHTLCSTCKTRV----HNRCP--TCRQE 100 (324)
Q Consensus 59 ~L~CpIC~~--~l~~Pi--~---qC~~GH~~C~~C~~~~----~~~CP--~Cr~~ 100 (324)
.-.||+|.. +|.|-| + .| =|..|.+|..++ ...|| -|...
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 346999985 445544 2 37 899999999876 36899 57654
No 146
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.16 E-value=49 Score=27.41 Aligned_cols=38 Identities=26% Similarity=0.612 Sum_probs=25.9
Q ss_pred eecccccccccc------------cccccC-Cceecccccccc---cCCCCCcc
Q 020563 61 ECPVCTNSMYPP------------IHQCHN-GHTLCSTCKTRV---HNRCPTCR 98 (324)
Q Consensus 61 ~CpIC~~~l~~P------------i~qC~~-GH~~C~~C~~~~---~~~CP~Cr 98 (324)
.|--|...|..+ .++|+. .+.||.+|-.-+ ...||-|.
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 388888877533 356753 778999995432 47899885
No 147
>PRK05580 primosome assembly protein PriA; Validated
Probab=24.63 E-value=60 Score=34.79 Aligned_cols=40 Identities=25% Similarity=0.601 Sum_probs=24.8
Q ss_pred eeeeccccccccccccccc--------CCceecccccccc--cCCCCCcccc
Q 020563 59 LLECPVCTNSMYPPIHQCH--------NGHTLCSTCKTRV--HNRCPTCRQE 100 (324)
Q Consensus 59 ~L~CpIC~~~l~~Pi~qC~--------~GH~~C~~C~~~~--~~~CP~Cr~~ 100 (324)
.+.|.-|..+++-|. |. .+...|..|-.+. ...||.|...
T Consensus 381 ~~~C~~Cg~~~~C~~--C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 381 FLLCRDCGWVAECPH--CDASLTLHRFQRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred ceEhhhCcCccCCCC--CCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCC
Confidence 455666666555431 21 2456889997653 4689999775
No 148
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=24.54 E-value=31 Score=34.11 Aligned_cols=22 Identities=36% Similarity=0.845 Sum_probs=11.7
Q ss_pred ecccccccccccccccCCceeccccc
Q 020563 62 CPVCTNSMYPPIHQCHNGHTLCSTCK 87 (324)
Q Consensus 62 CpIC~~~l~~Pi~qC~~GH~~C~~C~ 87 (324)
||||.+-...=-+ |-+.|.+|+
T Consensus 18 CPVCGDkVSGYHY----GLLTCESCK 39 (475)
T KOG4218|consen 18 CPVCGDKVSGYHY----GLLTCESCK 39 (475)
T ss_pred cccccCcccccee----eeeehhhhh
Confidence 7777766554222 444555554
No 149
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=24.00 E-value=50 Score=32.29 Aligned_cols=43 Identities=30% Similarity=0.857 Sum_probs=33.1
Q ss_pred eeecccccccc---cccccccCCceecccccccc---cCCCCCcccccC
Q 020563 60 LECPVCTNSMY---PPIHQCHNGHTLCSTCKTRV---HNRCPTCRQELG 102 (324)
Q Consensus 60 L~CpIC~~~l~---~Pi~qC~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 102 (324)
-.||+|.+.+. .+...|++|+..|--|.... ...||.||.+..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 45999999873 33467888999988888765 378999997653
No 150
>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=23.67 E-value=22 Score=22.29 Aligned_cols=20 Identities=35% Similarity=1.100 Sum_probs=9.1
Q ss_pred ceecccccccc-------cCCCCCccc
Q 020563 80 HTLCSTCKTRV-------HNRCPTCRQ 99 (324)
Q Consensus 80 H~~C~~C~~~~-------~~~CP~Cr~ 99 (324)
|.||+.|-... ...||.|+.
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 56777776543 135776654
No 151
>PF00751 DM: DM DNA binding domain; InterPro: IPR001275 This domain was first discovered in the doublesex proteins of Drosophila melanogaster and is also seen in proteins from Caenorhabditis elegans []. In D. melanogaster the doublesex gene controls somatic sexual differentiation by producing alternatively spliced mRNAs encoding related sex-specific polypeptides []. These proteins are believed to function as transcription factors on downstream sex-determination genes, especially on neuroblast differentiation and yolk protein genes transcription [, ]. The DM domain binds DNA as a dimer, allowing the recognition of pseudopalindromic sequences [, , ]. The NMR analysis of the DSX DM domain [] revealed a novel zinc module containing 'intertwined' CCHC and HCCC zinc-binding sites. The recognition of the DNA requires the carboxy-terminal basic tail which contacts the minor groove of the target sequence.; GO: 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0007548 sex differentiation, 0005634 nucleus; PDB: 1LPV_A.
Probab=23.25 E-value=7.9 Score=27.07 Aligned_cols=28 Identities=21% Similarity=0.529 Sum_probs=15.7
Q ss_pred cCccchhhhhcccCCCccCCCCCCCCCccccC
Q 020563 131 FPYYSKLKHEAICNFRPYNCPYAGSECSIVGD 162 (324)
Q Consensus 131 ~~~~~~~~He~~C~f~p~~CP~~g~~C~~~g~ 162 (324)
.....++.|...|+|+.+.|.. |.....
T Consensus 12 G~~~~lKgHk~~C~~~~C~C~k----C~li~e 39 (47)
T PF00751_consen 12 GVIVPLKGHKRYCPFRDCQCDK----CALIAE 39 (47)
T ss_dssp T---TTTT-GGG-TTTT--SHH----HHHHHH
T ss_pred CcccchhhhccccCcCCCcCCC----CcCcHH
Confidence 3456678999999999999974 665443
No 152
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=23.23 E-value=56 Score=28.93 Aligned_cols=25 Identities=28% Similarity=0.709 Sum_probs=16.5
Q ss_pred eeeecccccccccccccccCCceecccccccccCCCCCcccc
Q 020563 59 LLECPVCTNSMYPPIHQCHNGHTLCSTCKTRVHNRCPTCRQE 100 (324)
Q Consensus 59 ~L~CpIC~~~l~~Pi~qC~~GH~~C~~C~~~~~~~CP~Cr~~ 100 (324)
.+.|++|..+... .....||+|..+
T Consensus 134 ~~vC~vCGy~~~g-----------------e~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEG-----------------EAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccC-----------------CCCCcCCCCCCh
Confidence 7889988655542 113678888765
No 153
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.08 E-value=21 Score=34.08 Aligned_cols=40 Identities=23% Similarity=0.668 Sum_probs=28.2
Q ss_pred eecccccccccc---------c--ccccCCceecccccccc-----cCCCCCcccccC
Q 020563 61 ECPVCTNSMYPP---------I--HQCHNGHTLCSTCKTRV-----HNRCPTCRQELG 102 (324)
Q Consensus 61 ~CpIC~~~l~~P---------i--~qC~~GH~~C~~C~~~~-----~~~CP~Cr~~~~ 102 (324)
.|.||..-+-.- + ..| +|+|=..|+.-| ...||-|++.+.
T Consensus 226 vCaVCg~~~~~s~~eegvienty~LsC--nHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 226 VCAVCGQQIDVSVDEEGVIENTYKLSC--NHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred hhHhhcchheeecchhhhhhhheeeec--ccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 488888766432 2 357 999888888755 368999987654
No 154
>PF14353 CpXC: CpXC protein
Probab=22.69 E-value=63 Score=26.63 Aligned_cols=35 Identities=26% Similarity=0.555 Sum_probs=19.1
Q ss_pred CCCCcccccCc--------ccc-hHHHHHhhh--ccccCCCCCCCCCccc
Q 020563 93 RCPTCRQELGD--------IRC-LALEKVAES--LELPCKYMSLGCPEIF 131 (324)
Q Consensus 93 ~CP~Cr~~~~~--------~rn-~ale~~l~~--l~v~C~~~~~GC~~~~ 131 (324)
.||.|+..+.. ..+ -..+++++. ..+.||+ |+..+
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~----Cg~~~ 48 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPS----CGHKF 48 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCC----CCCce
Confidence 58888877642 122 234555532 3556776 66543
No 155
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=22.57 E-value=41 Score=20.14 Aligned_cols=6 Identities=50% Similarity=1.497 Sum_probs=3.0
Q ss_pred eccccc
Q 020563 62 CPVCTN 67 (324)
Q Consensus 62 CpIC~~ 67 (324)
||.|..
T Consensus 5 Cp~Cg~ 10 (26)
T PF13248_consen 5 CPNCGA 10 (26)
T ss_pred CcccCC
Confidence 455544
No 156
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.38 E-value=42 Score=30.16 Aligned_cols=27 Identities=19% Similarity=0.345 Sum_probs=17.5
Q ss_pred CccccCCCCcCCCCeeeeccccccccc
Q 020563 45 LASVINPGTTSVHELLECPVCTNSMYP 71 (324)
Q Consensus 45 ~~~~~~~~~~~l~~~L~CpIC~~~l~~ 71 (324)
-+.+-..+.+++.+.++|.+|...+.+
T Consensus 134 L~dPe~~~led~kd~lE~df~a~a~Le 160 (234)
T KOG3268|consen 134 LPDPEGLQLEDDKDQLECDFCAAAFLE 160 (234)
T ss_pred cCCccccccccccceeeeCccHHHhcC
Confidence 344445566777788888777765543
No 157
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=21.74 E-value=43 Score=24.13 Aligned_cols=36 Identities=25% Similarity=0.599 Sum_probs=20.0
Q ss_pred eeecccccccc--ccccccc-CCceecccccccccCCCCC
Q 020563 60 LECPVCTNSMY--PPIHQCH-NGHTLCSTCKTRVHNRCPT 96 (324)
Q Consensus 60 L~CpIC~~~l~--~Pi~qC~-~GH~~C~~C~~~~~~~CP~ 96 (324)
-.|++|.+.|+ ..|++|+ +|-.+=+.|..+. ..|-.
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~-g~C~~ 44 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA-GGCIN 44 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhhC-CceEe
Confidence 46999999994 5566553 2433333444443 44544
No 158
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=21.68 E-value=16 Score=31.17 Aligned_cols=32 Identities=19% Similarity=0.541 Sum_probs=24.4
Q ss_pred eeeeccccccccc--cc--ccccC----Cceecccccccc
Q 020563 59 LLECPVCTNSMYP--PI--HQCHN----GHTLCSTCKTRV 90 (324)
Q Consensus 59 ~L~CpIC~~~l~~--Pi--~qC~~----GH~~C~~C~~~~ 90 (324)
..+|.||++-+.. -+ ..|.. -|.||..|..+|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw 65 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRW 65 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHH
Confidence 6789999998876 33 35621 277999999998
No 159
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=21.59 E-value=41 Score=18.83 Aligned_cols=16 Identities=25% Similarity=0.297 Sum_probs=11.0
Q ss_pred CccccC-hhHHHHHhhh
Q 020563 157 CSIVGD-IPFLVAHLRD 172 (324)
Q Consensus 157 C~~~g~-~~~L~~Hl~~ 172 (324)
|+..-. ...|..|++.
T Consensus 6 C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 6 CGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp TTEEESSHHHHHHHHHH
T ss_pred CCCccCCHHHHHHHHhH
Confidence 666553 4588888775
No 160
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=21.43 E-value=50 Score=26.69 Aligned_cols=22 Identities=23% Similarity=0.896 Sum_probs=13.8
Q ss_pred eecccccccc-------cCCCCCcccccC
Q 020563 81 TLCSTCKTRV-------HNRCPTCRQELG 102 (324)
Q Consensus 81 ~~C~~C~~~~-------~~~CP~Cr~~~~ 102 (324)
++|+-|+..+ ...||.|+.++.
T Consensus 63 iiCGvC~~~LT~~EY~~~~~Cp~C~spFN 91 (105)
T COG4357 63 IICGVCRKLLTRAEYGMCGSCPYCQSPFN 91 (105)
T ss_pred EEhhhhhhhhhHHHHhhcCCCCCcCCCCC
Confidence 4555555443 156888888875
No 161
>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 KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.42 E-value=22 Score=36.59 Aligned_cols=45 Identities=24% Similarity=0.539 Sum_probs=31.7
Q ss_pred CCCeeeeccccccccccc------------------ccccCCceeccccccccc----CCCCCcccccC
Q 020563 56 VHELLECPVCTNSMYPPI------------------HQCHNGHTLCSTCKTRVH----NRCPTCRQELG 102 (324)
Q Consensus 56 l~~~L~CpIC~~~l~~Pi------------------~qC~~GH~~C~~C~~~~~----~~CP~Cr~~~~ 102 (324)
+...-.|+||.....--+ ..| -|+|=..|..+|- -.||+||.++.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC--~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPC--HHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccch--HHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 345567999987543110 135 8999999998874 38999999874
Done!