Query 042083
Match_columns 494
No_of_seqs 375 out of 1888
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 02:41:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042083.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042083hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 2.3E-17 4.9E-22 169.7 9.3 76 100-176 204-280 (348)
2 PF13639 zf-RING_2: Ring finge 99.4 1E-13 2.2E-18 102.5 1.9 44 126-170 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.3 2.5E-12 5.3E-17 127.3 7.8 75 100-174 147-227 (238)
4 COG5243 HRD1 HRD ubiquitin lig 99.2 4.9E-11 1.1E-15 123.0 9.9 70 105-177 269-348 (491)
5 COG5540 RING-finger-containing 99.2 1.1E-11 2.3E-16 125.2 2.6 52 123-175 321-373 (374)
6 PF12678 zf-rbx1: RING-H2 zinc 99.1 2.7E-11 5.9E-16 99.4 3.5 46 124-170 18-73 (73)
7 cd00162 RING RING-finger (Real 98.8 4.1E-09 8.8E-14 75.2 3.8 44 127-173 1-45 (45)
8 KOG0802 E3 ubiquitin ligase [P 98.8 6.4E-09 1.4E-13 113.6 5.0 52 124-176 290-343 (543)
9 KOG0317 Predicted E3 ubiquitin 98.7 5.2E-09 1.1E-13 105.4 3.1 49 124-176 238-286 (293)
10 PF12861 zf-Apc11: Anaphase-pr 98.7 8.4E-09 1.8E-13 87.5 3.4 51 124-174 20-82 (85)
11 PLN03208 E3 ubiquitin-protein 98.7 1.3E-08 2.7E-13 98.1 4.5 51 123-177 16-82 (193)
12 PF13920 zf-C3HC4_3: Zinc fing 98.7 1.2E-08 2.5E-13 77.5 3.0 46 125-174 2-48 (50)
13 KOG0823 Predicted E3 ubiquitin 98.7 2.9E-08 6.4E-13 97.4 6.4 51 123-177 45-98 (230)
14 PHA02926 zinc finger-like prot 98.7 1.1E-08 2.3E-13 100.3 2.5 52 123-174 168-230 (242)
15 PF13923 zf-C3HC4_2: Zinc fing 98.6 2E-08 4.3E-13 72.6 2.8 39 128-169 1-39 (39)
16 KOG0320 Predicted E3 ubiquitin 98.5 3.6E-08 7.7E-13 93.6 2.6 52 124-177 130-181 (187)
17 COG5194 APC11 Component of SCF 98.5 6.3E-08 1.4E-12 81.2 2.5 50 126-175 21-82 (88)
18 KOG0828 Predicted E3 ubiquitin 98.5 1.6E-07 3.4E-12 100.3 6.1 51 124-175 570-635 (636)
19 smart00184 RING Ring finger. E 98.4 1.6E-07 3.4E-12 64.6 3.3 38 128-169 1-39 (39)
20 PF14634 zf-RING_5: zinc-RING 98.4 1.6E-07 3.4E-12 69.8 3.2 44 127-171 1-44 (44)
21 smart00504 Ubox Modified RING 98.4 2.6E-07 5.7E-12 72.1 4.3 48 126-177 2-49 (63)
22 PF00097 zf-C3HC4: Zinc finger 98.4 1.9E-07 4.2E-12 67.5 2.3 39 128-169 1-41 (41)
23 TIGR00599 rad18 DNA repair pro 98.3 6.4E-07 1.4E-11 94.9 4.4 51 122-176 23-73 (397)
24 PF15227 zf-C3HC4_4: zinc fing 98.2 9.9E-07 2.1E-11 65.4 2.9 38 128-169 1-42 (42)
25 KOG1493 Anaphase-promoting com 98.2 3.7E-07 8.1E-12 76.0 0.1 50 124-173 19-80 (84)
26 COG5219 Uncharacterized conser 98.2 3.2E-07 6.9E-12 103.6 -0.8 69 106-174 1450-1523(1525)
27 KOG2930 SCF ubiquitin ligase, 98.1 1.5E-06 3.3E-11 76.1 1.8 50 124-173 45-107 (114)
28 COG5574 PEX10 RING-finger-cont 98.1 1.9E-06 4.2E-11 86.3 2.5 49 124-176 214-264 (271)
29 smart00744 RINGv The RING-vari 98.0 3.5E-06 7.6E-11 64.5 3.3 42 127-170 1-49 (49)
30 KOG1734 Predicted RING-contain 98.0 1E-06 2.3E-11 88.4 -0.2 52 124-176 223-283 (328)
31 KOG2164 Predicted E3 ubiquitin 97.9 4.6E-06 9.9E-11 89.9 3.0 51 125-179 186-241 (513)
32 PF13445 zf-RING_UBOX: RING-ty 97.8 1.4E-05 3.1E-10 59.9 2.7 38 128-167 1-43 (43)
33 PF11793 FANCL_C: FANCL C-term 97.8 5.5E-06 1.2E-10 67.8 0.3 50 125-174 2-66 (70)
34 PF04564 U-box: U-box domain; 97.8 9.9E-06 2.1E-10 66.4 1.6 50 124-177 3-53 (73)
35 KOG0804 Cytoplasmic Zn-finger 97.8 1.1E-05 2.4E-10 85.7 2.1 48 124-174 174-222 (493)
36 KOG2177 Predicted E3 ubiquitin 97.7 1.3E-05 2.9E-10 75.8 1.9 45 123-171 11-55 (386)
37 KOG0287 Postreplication repair 97.7 1.3E-05 2.8E-10 82.9 1.1 50 124-177 22-71 (442)
38 KOG0827 Predicted E3 ubiquitin 97.7 1.8E-05 3.9E-10 83.0 2.0 49 126-174 5-56 (465)
39 TIGR00570 cdk7 CDK-activating 97.6 4E-05 8.7E-10 78.9 3.9 52 125-177 3-57 (309)
40 COG5432 RAD18 RING-finger-cont 97.6 2.6E-05 5.6E-10 79.3 1.4 50 123-176 23-72 (391)
41 KOG1039 Predicted E3 ubiquitin 97.5 6.1E-05 1.3E-09 78.7 2.6 52 124-175 160-222 (344)
42 KOG0825 PHD Zn-finger protein 97.4 5.1E-05 1.1E-09 85.1 0.5 51 125-176 123-173 (1134)
43 KOG0311 Predicted E3 ubiquitin 97.2 5.3E-05 1.2E-09 78.8 -1.6 52 123-177 41-93 (381)
44 KOG4265 Predicted E3 ubiquitin 97.1 0.00026 5.7E-09 73.8 3.0 48 125-176 290-338 (349)
45 KOG4445 Uncharacterized conser 97.1 9.5E-05 2.1E-09 75.6 -0.3 52 124-176 114-188 (368)
46 KOG1645 RING-finger-containing 97.1 0.00028 6.1E-09 74.7 3.1 48 125-172 4-54 (463)
47 KOG0824 Predicted E3 ubiquitin 96.6 0.00098 2.1E-08 68.4 2.2 50 125-178 7-57 (324)
48 PF14835 zf-RING_6: zf-RING of 96.5 0.00068 1.5E-08 55.1 0.2 48 126-178 8-55 (65)
49 KOG4172 Predicted E3 ubiquitin 96.5 0.00083 1.8E-08 53.2 0.5 45 126-174 8-54 (62)
50 KOG4159 Predicted E3 ubiquitin 96.5 0.0015 3.4E-08 69.6 2.5 49 123-175 82-130 (398)
51 KOG3970 Predicted E3 ubiquitin 96.4 0.002 4.4E-08 63.9 2.9 51 125-177 50-108 (299)
52 KOG0978 E3 ubiquitin ligase in 96.4 0.0015 3.3E-08 73.6 1.8 50 124-177 642-692 (698)
53 KOG1785 Tyrosine kinase negati 96.2 0.0016 3.5E-08 69.0 1.0 46 127-176 371-418 (563)
54 KOG1941 Acetylcholine receptor 96.2 0.0019 4E-08 68.4 1.1 46 125-171 365-413 (518)
55 KOG0801 Predicted E3 ubiquitin 96.1 0.0017 3.7E-08 61.6 0.5 41 112-153 164-204 (205)
56 KOG0297 TNF receptor-associate 96.0 0.0037 8E-08 66.5 2.4 51 123-176 19-69 (391)
57 PF05883 Baculo_RING: Baculovi 96.0 0.0026 5.6E-08 58.6 0.9 38 125-163 26-69 (134)
58 PF11789 zf-Nse: Zinc-finger o 95.6 0.007 1.5E-07 47.9 1.9 42 124-168 10-53 (57)
59 KOG1428 Inhibitor of type V ad 95.5 0.0077 1.7E-07 71.7 2.5 53 123-176 3484-3546(3738)
60 COG5152 Uncharacterized conser 95.3 0.008 1.7E-07 58.8 1.6 49 123-175 194-242 (259)
61 KOG1814 Predicted E3 ubiquitin 95.2 0.021 4.5E-07 61.0 4.3 38 124-162 183-220 (445)
62 PHA03096 p28-like protein; Pro 95.1 0.011 2.5E-07 60.6 2.1 46 126-171 179-231 (284)
63 PHA02862 5L protein; Provision 94.9 0.019 4.2E-07 53.6 2.7 45 126-175 3-54 (156)
64 KOG1002 Nucleotide excision re 94.6 0.016 3.6E-07 63.4 1.9 51 123-177 534-589 (791)
65 PF10367 Vps39_2: Vacuolar sor 94.6 0.014 3.1E-07 49.6 1.1 32 124-157 77-108 (109)
66 PF12906 RINGv: RING-variant d 94.5 0.026 5.6E-07 42.9 2.1 40 128-169 1-47 (47)
67 KOG3039 Uncharacterized conser 94.1 0.044 9.5E-07 55.3 3.3 54 124-177 220-273 (303)
68 KOG1952 Transcription factor N 94.0 0.025 5.4E-07 64.9 1.7 49 123-171 189-244 (950)
69 KOG2879 Predicted E3 ubiquitin 93.7 0.055 1.2E-06 55.2 3.3 49 124-175 238-288 (298)
70 KOG1571 Predicted E3 ubiquitin 93.6 0.036 7.8E-07 58.3 1.9 44 123-173 303-346 (355)
71 PHA02825 LAP/PHD finger-like p 93.3 0.071 1.5E-06 50.6 3.1 49 124-176 7-61 (162)
72 KOG0826 Predicted E3 ubiquitin 93.2 0.16 3.4E-06 53.2 5.7 47 124-173 299-345 (357)
73 KOG2660 Locus-specific chromos 93.0 0.029 6.2E-07 58.4 0.2 50 124-176 14-63 (331)
74 KOG0827 Predicted E3 ubiquitin 93.0 0.0082 1.8E-07 63.6 -3.9 50 126-176 197-247 (465)
75 KOG1813 Predicted E3 ubiquitin 93.0 0.04 8.6E-07 56.7 1.1 48 124-175 240-287 (313)
76 KOG4739 Uncharacterized protei 92.8 0.047 1E-06 54.7 1.3 47 127-177 5-51 (233)
77 KOG2114 Vacuolar assembly/sort 91.9 0.056 1.2E-06 62.1 0.6 41 126-172 841-881 (933)
78 PF04641 Rtf2: Rtf2 RING-finge 91.9 0.17 3.7E-06 51.0 3.9 54 123-177 111-164 (260)
79 COG5222 Uncharacterized conser 91.8 0.11 2.4E-06 53.8 2.5 49 126-177 275-325 (427)
80 PF08746 zf-RING-like: RING-li 91.5 0.11 2.4E-06 38.9 1.6 41 128-169 1-43 (43)
81 PF14570 zf-RING_4: RING/Ubox 91.2 0.17 3.7E-06 39.1 2.4 45 128-173 1-47 (48)
82 KOG3268 Predicted E3 ubiquitin 91.0 0.14 3.1E-06 49.6 2.2 31 146-176 189-230 (234)
83 PF10272 Tmpp129: Putative tra 90.6 0.19 4.2E-06 53.2 3.0 31 147-177 311-354 (358)
84 COG5175 MOT2 Transcriptional r 90.5 0.13 2.9E-06 54.0 1.6 67 123-190 12-80 (480)
85 KOG4185 Predicted E3 ubiquitin 90.0 0.22 4.7E-06 50.4 2.7 47 126-173 4-54 (296)
86 KOG4692 Predicted E3 ubiquitin 90.0 0.2 4.4E-06 52.9 2.5 49 123-175 420-468 (489)
87 COG5236 Uncharacterized conser 88.4 0.33 7.2E-06 51.2 2.7 66 105-174 40-108 (493)
88 KOG0309 Conserved WD40 repeat- 87.8 0.28 6.1E-06 56.1 1.9 23 146-168 1047-1069(1081)
89 PF14446 Prok-RING_1: Prokaryo 87.1 0.53 1.1E-05 37.3 2.5 40 125-168 5-44 (54)
90 PF14447 Prok-RING_4: Prokaryo 86.9 0.42 9.1E-06 38.0 1.9 44 127-176 9-52 (55)
91 KOG1001 Helicase-like transcri 86.8 0.26 5.5E-06 56.3 0.9 49 126-179 455-505 (674)
92 KOG1940 Zn-finger protein [Gen 86.7 0.4 8.7E-06 49.2 2.2 46 125-171 158-204 (276)
93 KOG4275 Predicted E3 ubiquitin 86.2 0.15 3.1E-06 52.8 -1.3 42 125-174 300-342 (350)
94 KOG3161 Predicted E3 ubiquitin 85.9 0.26 5.7E-06 55.4 0.4 44 125-171 11-54 (861)
95 KOG2034 Vacuolar sorting prote 85.0 0.38 8.3E-06 55.8 1.1 35 124-160 816-850 (911)
96 KOG1609 Protein involved in mR 84.4 0.47 1E-05 47.6 1.4 51 125-176 78-136 (323)
97 PF07800 DUF1644: Protein of u 84.1 0.99 2.1E-05 43.0 3.2 35 125-160 2-46 (162)
98 KOG0298 DEAD box-containing he 82.5 0.43 9.3E-06 57.3 0.2 44 124-170 1152-1195(1394)
99 KOG2932 E3 ubiquitin ligase in 81.4 0.66 1.4E-05 48.5 1.1 42 127-173 92-133 (389)
100 KOG3899 Uncharacterized conser 81.4 0.85 1.8E-05 47.3 1.8 32 147-178 325-369 (381)
101 KOG0269 WD40 repeat-containing 78.5 2.9 6.2E-05 48.2 4.9 41 126-168 780-820 (839)
102 KOG3002 Zn finger protein [Gen 77.5 1.4 3.1E-05 45.7 2.1 43 124-174 47-91 (299)
103 KOG0802 E3 ubiquitin ligase [P 76.5 1.5 3.3E-05 48.7 2.1 47 124-178 478-524 (543)
104 KOG1829 Uncharacterized conser 75.9 2.7 5.8E-05 47.4 3.8 43 123-169 509-556 (580)
105 COG5183 SSM4 Protein involved 75.6 2 4.4E-05 49.8 2.7 51 124-176 11-68 (1175)
106 KOG3053 Uncharacterized conser 74.5 1.6 3.4E-05 44.6 1.4 55 124-179 19-87 (293)
107 PF13901 DUF4206: Domain of un 72.5 2.8 6.2E-05 40.9 2.7 41 124-170 151-196 (202)
108 COG5220 TFB3 Cdk activating ki 71.7 1.7 3.7E-05 44.1 0.9 50 124-173 9-63 (314)
109 KOG0825 PHD Zn-finger protein 71.4 2.4 5.3E-05 49.1 2.1 53 124-176 95-156 (1134)
110 KOG1100 Predicted E3 ubiquitin 70.7 2 4.3E-05 42.4 1.1 40 127-174 160-200 (207)
111 KOG2817 Predicted E3 ubiquitin 69.5 3.7 8E-05 44.1 2.9 45 124-169 333-380 (394)
112 KOG3800 Predicted E3 ubiquitin 69.1 3.9 8.6E-05 42.4 2.9 49 127-176 2-53 (300)
113 PF01102 Glycophorin_A: Glycop 68.6 5 0.00011 36.7 3.1 25 51-75 68-92 (122)
114 KOG1812 Predicted E3 ubiquitin 65.1 2.8 6.1E-05 44.9 0.9 38 124-162 145-183 (384)
115 KOG4362 Transcriptional regula 63.3 2.1 4.6E-05 48.9 -0.4 46 125-174 21-69 (684)
116 PF03854 zf-P11: P-11 zinc fin 62.9 2.4 5.3E-05 33.0 0.0 30 147-176 18-48 (50)
117 PF05399 EVI2A: Ectropic viral 61.8 24 0.00053 35.3 6.6 22 45-66 128-149 (227)
118 KOG4718 Non-SMC (structural ma 59.7 4.8 0.0001 40.2 1.4 44 125-171 181-224 (235)
119 KOG2066 Vacuolar assembly/sort 58.7 3.7 8.1E-05 47.5 0.5 44 125-170 784-831 (846)
120 PF05290 Baculo_IE-1: Baculovi 58.2 8.8 0.00019 35.9 2.7 52 125-176 80-134 (140)
121 smart00249 PHD PHD zinc finger 56.1 7.4 0.00016 27.4 1.6 31 127-158 1-31 (47)
122 KOG3005 GIY-YIG type nuclease 55.6 6.4 0.00014 40.5 1.6 48 126-173 183-242 (276)
123 PF02439 Adeno_E3_CR2: Adenovi 55.6 27 0.00057 26.0 4.3 26 48-73 6-31 (38)
124 KOG1815 Predicted E3 ubiquitin 50.5 10 0.00022 41.3 2.1 37 123-162 68-104 (444)
125 PF02009 Rifin_STEVOR: Rifin/s 47.7 21 0.00045 37.4 3.8 20 53-72 264-283 (299)
126 PF10577 UPF0560: Uncharacteri 45.9 40 0.00088 39.6 6.1 27 47-73 273-299 (807)
127 PF10717 ODV-E18: Occlusion-de 45.3 27 0.00059 30.2 3.5 21 39-59 18-38 (85)
128 smart00132 LIM Zinc-binding do 45.1 18 0.00039 24.6 2.0 37 127-173 1-37 (39)
129 KOG3113 Uncharacterized conser 43.5 18 0.00039 37.2 2.6 53 124-178 110-162 (293)
130 PF05393 Hum_adeno_E3A: Human 42.9 32 0.00068 30.1 3.6 20 60-79 45-64 (94)
131 PF07975 C1_4: TFIIH C1-like d 42.8 14 0.00031 29.0 1.3 43 128-170 2-50 (51)
132 TIGR00622 ssl1 transcription f 42.1 29 0.00063 31.4 3.4 46 125-170 55-110 (112)
133 PF15050 SCIMP: SCIMP protein 41.5 12 0.00026 34.4 0.9 9 65-73 28-36 (133)
134 PF00628 PHD: PHD-finger; Int 41.2 14 0.0003 27.6 1.0 42 128-170 2-49 (51)
135 PF10571 UPF0547: Uncharacteri 39.9 17 0.00037 24.6 1.2 23 127-151 2-24 (26)
136 KOG2068 MOT2 transcription fac 39.8 24 0.00051 37.4 2.8 50 125-175 249-299 (327)
137 PF15102 TMEM154: TMEM154 prot 39.6 6.4 0.00014 37.1 -1.2 10 153-162 127-136 (146)
138 KOG4367 Predicted Zn-finger pr 39.1 14 0.0003 40.6 1.0 33 124-160 3-35 (699)
139 PHA02657 hypothetical protein; 38.5 46 0.001 29.0 3.9 25 46-70 26-50 (95)
140 PF02891 zf-MIZ: MIZ/SP-RING z 38.4 35 0.00076 26.2 2.9 42 127-172 4-50 (50)
141 KOG3842 Adaptor protein Pellin 38.4 27 0.00059 37.0 2.9 52 124-176 340-416 (429)
142 KOG3039 Uncharacterized conser 37.0 22 0.00047 36.5 2.0 36 123-162 41-76 (303)
143 PF01102 Glycophorin_A: Glycop 36.8 51 0.0011 30.2 4.2 31 47-77 67-97 (122)
144 PF14914 LRRC37AB_C: LRRC37A/B 36.5 65 0.0014 30.7 4.8 9 35-43 113-121 (154)
145 TIGR01477 RIFIN variant surfac 35.9 43 0.00094 35.9 4.0 13 58-70 323-335 (353)
146 PF05510 Sarcoglycan_2: Sarcog 35.7 84 0.0018 34.1 6.2 14 1-14 234-247 (386)
147 TIGR02976 phageshock_pspB phag 35.5 99 0.0022 26.1 5.4 10 64-73 20-29 (75)
148 PTZ00046 rifin; Provisional 35.4 44 0.00095 35.9 4.0 14 57-70 327-340 (358)
149 COG5109 Uncharacterized conser 34.7 28 0.00061 36.9 2.4 45 124-169 335-382 (396)
150 PF13717 zinc_ribbon_4: zinc-r 34.5 23 0.0005 25.5 1.3 26 127-152 4-36 (36)
151 KOG1812 Predicted E3 ubiquitin 33.8 20 0.00044 38.4 1.3 45 124-169 305-351 (384)
152 PF13719 zinc_ribbon_5: zinc-r 32.5 23 0.00049 25.6 0.9 26 127-152 4-36 (37)
153 PF14979 TMEM52: Transmembrane 31.6 90 0.002 29.8 4.9 34 42-75 16-49 (154)
154 TIGR01478 STEVOR variant surfa 31.5 49 0.0011 34.6 3.5 12 63-74 275-286 (295)
155 PF01708 Gemini_mov: Geminivir 31.0 1.2E+02 0.0025 26.7 5.2 8 23-30 19-26 (91)
156 KOG3653 Transforming growth fa 30.6 1.2E+02 0.0027 34.0 6.5 14 151-164 290-303 (534)
157 KOG2807 RNA polymerase II tran 30.1 44 0.00096 35.6 2.9 47 124-171 329-375 (378)
158 PTZ00370 STEVOR; Provisional 30.0 54 0.0012 34.3 3.5 11 63-73 271-281 (296)
159 PF15050 SCIMP: SCIMP protein 29.5 90 0.002 28.9 4.4 24 56-79 15-38 (133)
160 PHA02849 putative transmembran 29.2 87 0.0019 26.9 4.0 23 48-70 18-40 (82)
161 PF04639 Baculo_E56: Baculovir 29.1 32 0.0007 35.9 1.8 37 37-73 267-303 (305)
162 PF15330 SIT: SHP2-interacting 29.1 70 0.0015 28.6 3.7 23 51-73 4-26 (107)
163 PF12606 RELT: Tumour necrosis 29.0 44 0.00095 26.2 2.1 17 57-73 9-25 (50)
164 PF04277 OAD_gamma: Oxaloaceta 29.0 89 0.0019 25.5 4.1 21 48-68 6-26 (79)
165 PF04710 Pellino: Pellino; In 28.0 20 0.00043 39.0 0.0 50 125-175 328-402 (416)
166 PF07649 C1_3: C1-like domain; 27.5 40 0.00088 22.9 1.5 29 127-156 2-30 (30)
167 PF13832 zf-HC5HC2H_2: PHD-zin 26.6 61 0.0013 28.0 2.8 33 124-158 54-87 (110)
168 PF01299 Lamp: Lysosome-associ 26.5 54 0.0012 33.8 2.8 18 59-76 282-299 (306)
169 PF06906 DUF1272: Protein of u 26.4 84 0.0018 25.4 3.3 46 127-175 7-53 (57)
170 PF02009 Rifin_STEVOR: Rifin/s 26.2 45 0.00097 34.9 2.2 26 51-76 258-283 (299)
171 PF00412 LIM: LIM domain; Int 25.8 44 0.00095 25.1 1.6 39 128-176 1-39 (58)
172 PF01363 FYVE: FYVE zinc finge 25.7 30 0.00065 27.4 0.7 35 124-158 8-42 (69)
173 cd00065 FYVE FYVE domain; Zinc 25.2 55 0.0012 24.8 2.0 35 126-160 3-37 (57)
174 PF07219 HemY_N: HemY protein 25.0 89 0.0019 27.3 3.6 32 42-73 11-42 (108)
175 PF06679 DUF1180: Protein of u 25.0 1.6E+02 0.0035 28.3 5.5 24 48-71 94-117 (163)
176 KOG2041 WD40 repeat protein [G 24.8 41 0.0009 39.3 1.8 45 125-173 1131-1184(1189)
177 PRK09458 pspB phage shock prot 24.4 1.7E+02 0.0037 24.9 4.9 9 65-73 21-29 (75)
178 KOG1245 Chromatin remodeling c 24.3 27 0.00059 43.5 0.3 49 124-173 1107-1159(1404)
179 PLN02189 cellulose synthase 24.3 64 0.0014 39.1 3.2 51 125-175 34-88 (1040)
180 PF13314 DUF4083: Domain of un 24.3 3.4E+02 0.0074 22.1 6.3 13 66-78 25-37 (58)
181 PF14569 zf-UDP: Zinc-binding 22.6 1.1E+02 0.0024 26.3 3.5 52 124-175 8-63 (80)
182 KOG4577 Transcription factor L 22.2 30 0.00065 36.3 0.0 43 125-177 92-134 (383)
183 PF05605 zf-Di19: Drought indu 22.1 15 0.00033 28.2 -1.6 39 125-172 2-40 (54)
184 PHA03030 hypothetical protein; 22.1 53 0.0012 29.6 1.6 16 58-73 11-26 (122)
185 PF05283 MGC-24: Multi-glycosy 22.0 1.2E+02 0.0025 29.9 4.1 9 63-71 176-184 (186)
186 PF06305 DUF1049: Protein of u 21.8 1.3E+02 0.0028 23.6 3.6 27 44-70 18-44 (68)
187 PF06844 DUF1244: Protein of u 21.3 55 0.0012 27.2 1.4 13 150-162 11-23 (68)
188 PF04710 Pellino: Pellino; In 21.2 32 0.00069 37.4 0.0 26 143-172 306-337 (416)
189 PF12877 DUF3827: Domain of un 21.1 84 0.0018 36.3 3.2 27 48-74 270-296 (684)
190 PF07010 Endomucin: Endomucin; 20.8 1.1E+02 0.0024 31.2 3.6 10 64-73 207-216 (259)
191 PHA02650 hypothetical protein; 20.5 2.9E+02 0.0063 23.8 5.5 11 63-73 65-75 (81)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.71 E-value=2.3e-17 Score=169.75 Aligned_cols=76 Identities=37% Similarity=0.802 Sum_probs=66.8
Q ss_pred CCCCCHHHHhcCCceeeeeecCCCCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCC-CCCcccCCCCCC
Q 042083 100 DAGVDQSFIDTLPVFYYKAIIGLKNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHS-TCPLCRASLLPD 176 (494)
Q Consensus 100 ~~Gl~~~~I~~LP~~~y~~~~~~~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~-tCPlCR~~l~~~ 176 (494)
..++.+..++++|+..|+...+....+.|+||||+|..||++|+|| |+|.||..||+.||.++. .||+|++++...
T Consensus 204 ~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 204 RNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD 280 (348)
T ss_pred hhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence 4566788999999999998766554579999999999999999999 999999999999999875 599999977665
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.39 E-value=1e-13 Score=102.48 Aligned_cols=44 Identities=48% Similarity=1.176 Sum_probs=40.5
Q ss_pred CCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCccc
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCR 170 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR 170 (494)
++|+||+++|..++.+..++ |+|.||..||..|++.+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 37999999999999999998 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.33 E-value=2.5e-12 Score=127.29 Aligned_cols=75 Identities=27% Similarity=0.710 Sum_probs=59.1
Q ss_pred CCCCCHHHHhcCCceeeee--ecCCCCCCCCcccccccCCCC----ceeecCCCCCcccHHHHHHHHhcCCCCCcccCCC
Q 042083 100 DAGVDQSFIDTLPVFYYKA--IIGLKNPFDCAVCLCEFEPED----KLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173 (494)
Q Consensus 100 ~~Gl~~~~I~~LP~~~y~~--~~~~~~~~~CaICLeef~~~d----~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l 173 (494)
..+..+.+++.||.+..+. ......+.+|+||++.+...+ .+.+++.|+|.||..||.+|++.+.+||+||..+
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 4667899999999986543 223345679999999987543 2345556999999999999999999999999976
Q ss_pred C
Q 042083 174 L 174 (494)
Q Consensus 174 ~ 174 (494)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 5
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=4.9e-11 Score=123.04 Aligned_cols=70 Identities=29% Similarity=0.758 Sum_probs=52.8
Q ss_pred HHHHhcCCceeeeeecCCCCCCCCcccccc-cCCC---------CceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCC
Q 042083 105 QSFIDTLPVFYYKAIIGLKNPFDCAVCLCE-FEPE---------DKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLL 174 (494)
Q Consensus 105 ~~~I~~LP~~~y~~~~~~~~~~~CaICLee-f~~~---------d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~ 174 (494)
++.-+.+|+..-++. ..++..|.||+++ |+.+ .....|| |||+||.+|++.|++++++||+||.++.
T Consensus 269 kdl~~~~~t~t~eql--~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 269 KDLNAMYPTATEEQL--TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred hHHHhhcchhhhhhh--cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence 344445555544443 2356789999999 5554 2456888 9999999999999999999999999976
Q ss_pred CCC
Q 042083 175 PDF 177 (494)
Q Consensus 175 ~~~ 177 (494)
-+.
T Consensus 346 fd~ 348 (491)
T COG5243 346 FDQ 348 (491)
T ss_pred ccc
Confidence 553
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=1.1e-11 Score=125.21 Aligned_cols=52 Identities=44% Similarity=1.200 Sum_probs=47.9
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCCcccCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLL-SHSTCPLCRASLLP 175 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlCR~~l~~ 175 (494)
....+|+|||++|..+|+++.|| |+|.||..||++|+. .+..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 45579999999999999999999 999999999999998 57789999999876
No 6
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.14 E-value=2.7e-11 Score=99.45 Aligned_cols=46 Identities=41% Similarity=0.954 Sum_probs=35.9
Q ss_pred CCCCCcccccccCCC----------CceeecCCCCCcccHHHHHHHHhcCCCCCccc
Q 042083 124 NPFDCAVCLCEFEPE----------DKLRLLPKCSHAFHMECIDTWLLSHSTCPLCR 170 (494)
Q Consensus 124 ~~~~CaICLeef~~~----------d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR 170 (494)
.++.|+||++.|.+. -.+...+ |+|.||..||.+||+.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 345699999999322 2344445 999999999999999999999998
No 7
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.81 E-value=4.1e-09 Score=75.22 Aligned_cols=44 Identities=52% Similarity=1.260 Sum_probs=37.1
Q ss_pred CCcccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCCcccCCC
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS-HSTCPLCRASL 173 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~-~~tCPlCR~~l 173 (494)
+|+||++.+ .+.+.+++ |+|.||..|+..|+.. +..||+||..+
T Consensus 1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999998 34555665 9999999999999997 77899999764
No 8
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=6.4e-09 Score=113.64 Aligned_cols=52 Identities=35% Similarity=0.828 Sum_probs=45.4
Q ss_pred CCCCCcccccccCCCCc--eeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDK--LRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~--vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
....|+||+|++..+.. ...|| |+|+||..|+..|++++++||+||..+...
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 46689999999988765 77888 999999999999999999999999955443
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=5.2e-09 Score=105.44 Aligned_cols=49 Identities=33% Similarity=0.798 Sum_probs=42.5
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
....|.+||+..+. ...+| |||+||+.||..|+..+..||+||..+.+.
T Consensus 238 a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 238 ATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 34689999988754 66778 999999999999999999999999987664
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.71 E-value=8.4e-09 Score=87.50 Aligned_cols=51 Identities=41% Similarity=0.902 Sum_probs=39.2
Q ss_pred CCCCCcccccccC--------CCC-ceeecCCCCCcccHHHHHHHHhc---CCCCCcccCCCC
Q 042083 124 NPFDCAVCLCEFE--------PED-KLRLLPKCSHAFHMECIDTWLLS---HSTCPLCRASLL 174 (494)
Q Consensus 124 ~~~~CaICLeef~--------~~d-~vr~LP~C~H~FH~~CI~~WL~~---~~tCPlCR~~l~ 174 (494)
+++.|.||...|. +++ -..++..|+|.||.+||.+||.+ +..||+||+...
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 4678999999985 222 22234469999999999999985 568999999753
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.70 E-value=1.3e-08 Score=98.10 Aligned_cols=51 Identities=27% Similarity=0.758 Sum_probs=40.9
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc----------------CCCCCcccCCCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS----------------HSTCPLCRASLLPDF 177 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~----------------~~tCPlCR~~l~~~~ 177 (494)
.+..+|+||++.+.+ ..+++ |+|.||..||..|+.. +..||+||..+....
T Consensus 16 ~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 16 GGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred CCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 467899999998864 34566 9999999999999852 347999999886643
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=98.68 E-value=1.2e-08 Score=77.48 Aligned_cols=46 Identities=33% Similarity=0.819 Sum_probs=39.0
Q ss_pred CCCCcccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCCcccCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHA-FHMECIDTWLLSHSTCPLCRASLL 174 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~-FH~~CI~~WL~~~~tCPlCR~~l~ 174 (494)
+..|.||++.... +.++| |+|. |+..|+..|++.+..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4589999998653 77888 9999 999999999999999999999874
No 13
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=2.9e-08 Score=97.45 Aligned_cols=51 Identities=33% Similarity=0.795 Sum_probs=40.7
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc---CCCCCcccCCCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS---HSTCPLCRASLLPDF 177 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~---~~tCPlCR~~l~~~~ 177 (494)
...++|.|||+.-+ |.| ++. |||+||+.||.+||.. ...||+|+..+..+.
T Consensus 45 ~~~FdCNICLd~ak--dPV-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 45 GGFFDCNICLDLAK--DPV-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCceeeeeeccccC--CCE-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 46789999998744 344 444 9999999999999986 346899999887654
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=98.65 E-value=1.1e-08 Score=100.31 Aligned_cols=52 Identities=27% Similarity=0.774 Sum_probs=40.8
Q ss_pred CCCCCCcccccccCCC-----CceeecCCCCCcccHHHHHHHHhcC------CCCCcccCCCC
Q 042083 123 KNPFDCAVCLCEFEPE-----DKLRLLPKCSHAFHMECIDTWLLSH------STCPLCRASLL 174 (494)
Q Consensus 123 ~~~~~CaICLeef~~~-----d~vr~LP~C~H~FH~~CI~~WL~~~------~tCPlCR~~l~ 174 (494)
..+.+|+||||..-.. ....+|+.|+|.||..||..|...+ .+||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4567999999986332 2345777799999999999999753 45999999764
No 15
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.63 E-value=2e-08 Score=72.62 Aligned_cols=39 Identities=38% Similarity=1.063 Sum_probs=32.9
Q ss_pred CcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcc
Q 042083 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLC 169 (494)
Q Consensus 128 CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlC 169 (494)
|+||++.+.+ .+..++ |||.|+..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999875 446776 99999999999999999999998
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=3.6e-08 Score=93.62 Aligned_cols=52 Identities=29% Similarity=0.720 Sum_probs=43.5
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDF 177 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 177 (494)
.-+.|+|||+.|.. ++.+-.+|||+||..||..-|+....||+||+.|-.+.
T Consensus 130 ~~~~CPiCl~~~se--k~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 130 GTYKCPICLDSVSE--KVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred cccCCCceecchhh--ccccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 45689999999875 34454569999999999999999999999999776654
No 17
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.49 E-value=6.3e-08 Score=81.16 Aligned_cols=50 Identities=36% Similarity=0.731 Sum_probs=37.1
Q ss_pred CCCccccccc-----------CCCCc-eeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCC
Q 042083 126 FDCAVCLCEF-----------EPEDK-LRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLP 175 (494)
Q Consensus 126 ~~CaICLeef-----------~~~d~-vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 175 (494)
+.|+||...| .+++. ...--.|+|.||.+||.+||.++..||+||++...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 4677777665 23332 22223499999999999999999999999987643
No 18
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=1.6e-07 Score=100.29 Aligned_cols=51 Identities=33% Similarity=0.900 Sum_probs=39.9
Q ss_pred CCCCCcccccccCCC---C-----------ceeecCCCCCcccHHHHHHHHh-cCCCCCcccCCCCC
Q 042083 124 NPFDCAVCLCEFEPE---D-----------KLRLLPKCSHAFHMECIDTWLL-SHSTCPLCRASLLP 175 (494)
Q Consensus 124 ~~~~CaICLeef~~~---d-----------~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlCR~~l~~ 175 (494)
...+|+|||.++.-- . .-.++| |+|+||..|+.+|+. .+-.||+||.+|++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 456899999987411 1 123557 999999999999999 56699999999875
No 19
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.45 E-value=1.6e-07 Score=64.64 Aligned_cols=38 Identities=45% Similarity=1.188 Sum_probs=32.6
Q ss_pred CcccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCCcc
Q 042083 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLL-SHSTCPLC 169 (494)
Q Consensus 128 CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlC 169 (494)
|+||++.. .....++ |+|.||..|+..|+. .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 88999883 4577787 999999999999998 66789988
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.43 E-value=1.6e-07 Score=69.83 Aligned_cols=44 Identities=30% Similarity=0.826 Sum_probs=38.0
Q ss_pred CCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccC
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRA 171 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~ 171 (494)
.|.||++.|.......+++ |+|+|+..||..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4999999996666777787 9999999999998866778999985
No 21
>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=98.42 E-value=2.6e-07 Score=72.10 Aligned_cols=48 Identities=29% Similarity=0.564 Sum_probs=40.8
Q ss_pred CCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCC
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDF 177 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 177 (494)
..|+||++.+.+ ..+++ |||+|+..||..|++.+.+||+|+..+...+
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 479999999875 34567 9999999999999999999999999875443
No 22
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.37 E-value=1.9e-07 Score=67.50 Aligned_cols=39 Identities=46% Similarity=1.198 Sum_probs=33.2
Q ss_pred CcccccccCCCCceeecCCCCCcccHHHHHHHHh--cCCCCCcc
Q 042083 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLL--SHSTCPLC 169 (494)
Q Consensus 128 CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~--~~~tCPlC 169 (494)
|+||++.+... +.+++ |+|.|+..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998753 35776 999999999999999 46679998
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.27 E-value=6.4e-07 Score=94.87 Aligned_cols=51 Identities=35% Similarity=0.696 Sum_probs=42.9
Q ss_pred CCCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 122 LKNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 122 ~~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
......|+||++.|.. ..+++ |+|.||..||..|+..+..||+||..+...
T Consensus 23 Le~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 3456799999999864 33677 999999999999999888999999987654
No 24
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.20 E-value=9.9e-07 Score=65.41 Aligned_cols=38 Identities=34% Similarity=0.870 Sum_probs=28.8
Q ss_pred CcccccccCCCCceeecCCCCCcccHHHHHHHHhcC----CCCCcc
Q 042083 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSH----STCPLC 169 (494)
Q Consensus 128 CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~----~tCPlC 169 (494)
|+||++.|.+ ...|+ |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999975 56677 99999999999999753 369988
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=3.7e-07 Score=76.01 Aligned_cols=50 Identities=34% Similarity=0.814 Sum_probs=37.9
Q ss_pred CCCCCcccccccCC---------CCceeecCCCCCcccHHHHHHHHhc---CCCCCcccCCC
Q 042083 124 NPFDCAVCLCEFEP---------EDKLRLLPKCSHAFHMECIDTWLLS---HSTCPLCRASL 173 (494)
Q Consensus 124 ~~~~CaICLeef~~---------~d~vr~LP~C~H~FH~~CI~~WL~~---~~tCPlCR~~l 173 (494)
.++.|-||...|.. ++-..++-.|.|.||..||.+|+.. +..||+||+..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 44589999988842 2333344469999999999999974 55799999865
No 26
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.16 E-value=3.2e-07 Score=103.57 Aligned_cols=69 Identities=29% Similarity=0.673 Sum_probs=48.1
Q ss_pred HHHhcCCceeeeeecCCCCCCCCcccccccCCCC---ceeecCCCCCcccHHHHHHHHhc--CCCCCcccCCCC
Q 042083 106 SFIDTLPVFYYKAIIGLKNPFDCAVCLCEFEPED---KLRLLPKCSHAFHMECIDTWLLS--HSTCPLCRASLL 174 (494)
Q Consensus 106 ~~I~~LP~~~y~~~~~~~~~~~CaICLeef~~~d---~vr~LP~C~H~FH~~CI~~WL~~--~~tCPlCR~~l~ 174 (494)
++.+.|-.++-.......+..+|+||+..+..-+ .-..+++|.|.||..|+.+|++. +.+||+||..+.
T Consensus 1450 s~~D~l~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1450 SFMDLLGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hHHHHHHHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3445555554444444457789999998875222 12244569999999999999985 678999998764
No 27
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=1.5e-06 Score=76.14 Aligned_cols=50 Identities=32% Similarity=0.699 Sum_probs=36.5
Q ss_pred CCCCCccccccc-------------CCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCC
Q 042083 124 NPFDCAVCLCEF-------------EPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173 (494)
Q Consensus 124 ~~~~CaICLeef-------------~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l 173 (494)
.-+.|+||..-+ ..++-...--.|+|.||..||.+||+++..||+|.++-
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 345799987654 11222222234999999999999999999999997653
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=1.9e-06 Score=86.29 Aligned_cols=49 Identities=37% Similarity=0.872 Sum_probs=41.1
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHH-HHhcCCC-CCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDT-WLLSHST-CPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~-WL~~~~t-CPlCR~~l~~~ 176 (494)
.++.|+||++.... ...++ |||+||..||.. |-.++.. ||+||+.+.+.
T Consensus 214 ~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 214 ADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred cccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 46789999988653 55677 999999999999 9887776 99999987665
No 29
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.05 E-value=3.5e-06 Score=64.54 Aligned_cols=42 Identities=29% Similarity=0.789 Sum_probs=33.1
Q ss_pred CCcccccccCCCCceeecCCCC-----CcccHHHHHHHHhc--CCCCCccc
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCS-----HAFHMECIDTWLLS--HSTCPLCR 170 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~-----H~FH~~CI~~WL~~--~~tCPlCR 170 (494)
.|.||++ +..++...++| |. |.+|..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4999999 34445555788 86 99999999999965 44899995
No 30
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=1e-06 Score=88.43 Aligned_cols=52 Identities=31% Similarity=0.676 Sum_probs=43.5
Q ss_pred CCCCCcccccccCCCC-------ceeecCCCCCcccHHHHHHHHh--cCCCCCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFEPED-------KLRLLPKCSHAFHMECIDTWLL--SHSTCPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~~~d-------~vr~LP~C~H~FH~~CI~~WL~--~~~tCPlCR~~l~~~ 176 (494)
++..|+||-..+.... +.-.|. |+|+||..||.-|-. ++++||.|+..+...
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 6678999999886554 667787 999999999999985 588999998877554
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=4.6e-06 Score=89.89 Aligned_cols=51 Identities=24% Similarity=0.572 Sum_probs=40.0
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc-----CCCCCcccCCCCCCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS-----HSTCPLCRASLLPDFSS 179 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~-----~~tCPlCR~~l~~~~~~ 179 (494)
+..|+|||+... +..++.|||+||..||.+++.. ...||+||..+..++..
T Consensus 186 ~~~CPICL~~~~----~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLEPPS----VPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccCCCC----cccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 668999998865 3333349999999999998864 35799999998886543
No 32
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.80 E-value=1.4e-05 Score=59.85 Aligned_cols=38 Identities=32% Similarity=0.836 Sum_probs=22.5
Q ss_pred CcccccccCCCC-ceeecCCCCCcccHHHHHHHHhcC----CCCC
Q 042083 128 CAVCLCEFEPED-KLRLLPKCSHAFHMECIDTWLLSH----STCP 167 (494)
Q Consensus 128 CaICLeef~~~d-~vr~LP~C~H~FH~~CI~~WL~~~----~tCP 167 (494)
|+||++ |...+ ...+|+ |||.|+.+||.+++... ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 86544 456788 99999999999999853 2576
No 33
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.79 E-value=5.5e-06 Score=67.80 Aligned_cols=50 Identities=26% Similarity=0.793 Sum_probs=23.6
Q ss_pred CCCCcccccccC-CCCc-eeec--CCCCCcccHHHHHHHHhc----C-------CCCCcccCCCC
Q 042083 125 PFDCAVCLCEFE-PEDK-LRLL--PKCSHAFHMECIDTWLLS----H-------STCPLCRASLL 174 (494)
Q Consensus 125 ~~~CaICLeef~-~~d~-vr~L--P~C~H~FH~~CI~~WL~~----~-------~tCPlCR~~l~ 174 (494)
+.+|.||++.+. .++. ..+. ++|++.||..||.+||+. + .+||.|+++|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 458999999876 3322 2222 369999999999999963 1 24999998764
No 34
>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=97.77 E-value=9.9e-06 Score=66.38 Aligned_cols=50 Identities=24% Similarity=0.426 Sum_probs=38.3
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCCcccCCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS-HSTCPLCRASLLPDF 177 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~ 177 (494)
+.+.|+||.+-|.+ ..++| |||.|...||..||.. +.+||+|+..+....
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 35689999999975 55677 9999999999999998 889999998887653
No 35
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.75 E-value=1.1e-05 Score=85.73 Aligned_cols=48 Identities=31% Similarity=0.814 Sum_probs=39.1
Q ss_pred CCCCCcccccccCCCCc-eeecCCCCCcccHHHHHHHHhcCCCCCcccCCCC
Q 042083 124 NPFDCAVCLCEFEPEDK-LRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLL 174 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~-vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~ 174 (494)
+-.+|+||||.+..... ++... |.|.||..|+..| ...+||+||....
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 55689999999976653 34444 9999999999999 6789999998654
No 36
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=1.3e-05 Score=75.80 Aligned_cols=45 Identities=33% Similarity=0.841 Sum_probs=39.2
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRA 171 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~ 171 (494)
.+...|+||++.|... .++| |+|.||..||..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 3567899999999875 7888 9999999999999885668999993
No 37
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.68 E-value=1.3e-05 Score=82.90 Aligned_cols=50 Identities=28% Similarity=0.675 Sum_probs=42.9
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDF 177 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 177 (494)
.-..|-||.+-|.. ..++| |+|.||..||...|..+..||.|+.++-+..
T Consensus 22 ~lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 22 DLLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESD 71 (442)
T ss_pred HHHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchhh
Confidence 44579999998874 55677 9999999999999999999999999876654
No 38
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.67 E-value=1.8e-05 Score=82.95 Aligned_cols=49 Identities=27% Similarity=0.817 Sum_probs=35.9
Q ss_pred CCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc---CCCCCcccCCCC
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS---HSTCPLCRASLL 174 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~---~~tCPlCR~~l~ 174 (494)
-.|.||.+-+.....+.-.-.|||+||..|+.+|+.. +.+||+|+-.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 3799994444444455544459999999999999986 457999994343
No 39
>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=97.63 E-value=4e-05 Score=78.88 Aligned_cols=52 Identities=23% Similarity=0.536 Sum_probs=38.4
Q ss_pred CCCCccccccc-CCCC-ceeecCCCCCcccHHHHHHHHh-cCCCCCcccCCCCCCC
Q 042083 125 PFDCAVCLCEF-EPED-KLRLLPKCSHAFHMECIDTWLL-SHSTCPLCRASLLPDF 177 (494)
Q Consensus 125 ~~~CaICLeef-~~~d-~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~ 177 (494)
+..|+||..+- ...+ .+.+.+ |||.||..||+..+. ....||.|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 45799999973 3222 334445 999999999999654 4568999999887654
No 40
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.57 E-value=2.6e-05 Score=79.32 Aligned_cols=50 Identities=26% Similarity=0.677 Sum_probs=41.5
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
..-..|-||-+-|. ++++..|||.||..||...|..+..||+||.+..+.
T Consensus 23 Ds~lrC~IC~~~i~----ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 23 DSMLRCRICDCRIS----IPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred hhHHHhhhhhheee----cceecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 34558999998887 444445999999999999999999999999876554
No 41
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=6.1e-05 Score=78.72 Aligned_cols=52 Identities=27% Similarity=0.854 Sum_probs=40.9
Q ss_pred CCCCCcccccccCCCC----ceeecCCCCCcccHHHHHHHHh--c-----CCCCCcccCCCCC
Q 042083 124 NPFDCAVCLCEFEPED----KLRLLPKCSHAFHMECIDTWLL--S-----HSTCPLCRASLLP 175 (494)
Q Consensus 124 ~~~~CaICLeef~~~d----~vr~LP~C~H~FH~~CI~~WL~--~-----~~tCPlCR~~l~~ 175 (494)
.+..|.||++...... ...+||+|.|.||..||..|-. + ...||.||.....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 4678999999875432 2457788999999999999983 3 4689999986544
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.35 E-value=5.1e-05 Score=85.10 Aligned_cols=51 Identities=24% Similarity=0.434 Sum_probs=43.0
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
...|++||..+.++......+ |+|+||..||..|-+.-.+||+||..+..-
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 457999999887766555665 999999999999999999999999977554
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.18 E-value=5.3e-05 Score=78.76 Aligned_cols=52 Identities=27% Similarity=0.591 Sum_probs=43.5
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCCcccCCCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLL-SHSTCPLCRASLLPDF 177 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~ 177 (494)
..+..|+|||+-++. .+.++.|.|-||.+||..=|+ .+++||.||+.+....
T Consensus 41 ~~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 41 DIQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR 93 (381)
T ss_pred hhhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence 356789999998864 556667999999999999887 4789999999987763
No 44
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.14 E-value=0.00026 Score=73.76 Aligned_cols=48 Identities=27% Similarity=0.682 Sum_probs=40.2
Q ss_pred CCCCcccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHA-FHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~-FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
..+|.|||.+-.+ +.+|| |.|. .|..|.+.-.-++..||+||+++...
T Consensus 290 gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 290 GKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred CCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 5689999988654 77899 9997 89999998666788899999988654
No 45
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.14 E-value=9.5e-05 Score=75.58 Aligned_cols=52 Identities=25% Similarity=0.747 Sum_probs=43.6
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHh------------------c-----CCCCCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLL------------------S-----HSTCPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~------------------~-----~~tCPlCR~~l~~~ 176 (494)
...+|.|||--|..++...+++ |.|+||..|+.++|. . +..||+||..|..+
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 4458999999999999899998 999999999987762 1 23599999988765
No 46
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.13 E-value=0.00028 Score=74.67 Aligned_cols=48 Identities=29% Similarity=0.793 Sum_probs=37.5
Q ss_pred CCCCcccccccC-CCCceeecCCCCCcccHHHHHHHHhc--CCCCCcccCC
Q 042083 125 PFDCAVCLCEFE-PEDKLRLLPKCSHAFHMECIDTWLLS--HSTCPLCRAS 172 (494)
Q Consensus 125 ~~~CaICLeef~-~~d~vr~LP~C~H~FH~~CI~~WL~~--~~tCPlCR~~ 172 (494)
...|+|||+.|. .++.....+.|+|.|..+||..||-+ ...||.|...
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 458999999985 44555555569999999999999953 4479999653
No 47
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.63 E-value=0.00098 Score=68.37 Aligned_cols=50 Identities=24% Similarity=0.452 Sum_probs=39.5
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCCcccCCCCCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS-HSTCPLCRASLLPDFS 178 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~-~~tCPlCR~~l~~~~~ 178 (494)
..+|+||+.... ....|+ |+|.||..||+-=.+. +.+|++||.++.....
T Consensus 7 ~~eC~IC~nt~n---~Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~ 57 (324)
T KOG0824|consen 7 KKECLICYNTGN---CPVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID 57 (324)
T ss_pred CCcceeeeccCC---cCcccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence 348999998754 235666 9999999999886665 5679999999987743
No 48
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.53 E-value=0.00068 Score=55.14 Aligned_cols=48 Identities=25% Similarity=0.618 Sum_probs=23.1
Q ss_pred CCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCCC
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDFS 178 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~ 178 (494)
..|++|.+-+.. .+ .+..|.|+|+..||..-+. ..||+|+.+.-..+.
T Consensus 8 LrCs~C~~~l~~--pv-~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~ 55 (65)
T PF14835_consen 8 LRCSICFDILKE--PV-CLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDI 55 (65)
T ss_dssp TS-SSS-S--SS---B----SSS--B-TTTGGGGTT--TB-SSS--B-S-SS-
T ss_pred cCCcHHHHHhcC--Cc-eeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHH
Confidence 469999988764 33 3445999999999988544 349999887655543
No 49
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.50 E-value=0.00083 Score=53.16 Aligned_cols=45 Identities=27% Similarity=0.606 Sum_probs=32.0
Q ss_pred CCCcccccccCCCCceeecCCCCCc-ccHHHHHHHHh-cCCCCCcccCCCC
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHA-FHMECIDTWLL-SHSTCPLCRASLL 174 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~-FH~~CI~~WL~-~~~tCPlCR~~l~ 174 (494)
.+|.||+|.-. +.+.. .|||. .+..|-.+-++ .+..||+||+++.
T Consensus 8 dECTICye~pv--dsVlY--tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPV--DSVLY--TCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcc--hHHHH--HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 68999998743 23323 39997 56777555444 7899999999763
No 50
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.47 E-value=0.0015 Score=69.61 Aligned_cols=49 Identities=39% Similarity=0.946 Sum_probs=42.4
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLP 175 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 175 (494)
..+++|.||+..+.. ...+| |||.|+..||++-|.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 578899999888764 55667 99999999999988888899999999876
No 51
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.43 E-value=0.002 Score=63.90 Aligned_cols=51 Identities=27% Similarity=0.735 Sum_probs=43.6
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc--------CCCCCcccCCCCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS--------HSTCPLCRASLLPDF 177 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~--------~~tCPlCR~~l~~~~ 177 (494)
...|..|--.+..+|.+|+. |-|+||+.|++.|-.. ...||.|..++++..
T Consensus 50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 34799999999999999876 9999999999999853 236999999998863
No 52
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.37 E-value=0.0015 Score=73.60 Aligned_cols=50 Identities=28% Similarity=0.659 Sum_probs=38.4
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCCcccCCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLL-SHSTCPLCRASLLPDF 177 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~ 177 (494)
+-..|++|-..+.+ +.++ +|+|+||..||..-+. ++..||.|...+-+.+
T Consensus 642 ~~LkCs~Cn~R~Kd---~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD---AVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred hceeCCCccCchhh---HHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 44579999865542 3344 5999999999999997 5778999988776544
No 53
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.23 E-value=0.0016 Score=68.96 Aligned_cols=46 Identities=28% Similarity=0.833 Sum_probs=38.6
Q ss_pred CCcccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCCcccCCCCCC
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS--HSTCPLCRASLLPD 176 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~--~~tCPlCR~~l~~~ 176 (494)
-|-||-|. +..+.+-| |||..|..|+..|-.. .++||.||..+...
T Consensus 371 LCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 371 LCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 59999865 45688888 9999999999999743 57899999988764
No 54
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.17 E-value=0.0019 Score=68.37 Aligned_cols=46 Identities=35% Similarity=0.884 Sum_probs=38.2
Q ss_pred CCCCcccccccCCC-CceeecCCCCCcccHHHHHHHHhcC--CCCCcccC
Q 042083 125 PFDCAVCLCEFEPE-DKLRLLPKCSHAFHMECIDTWLLSH--STCPLCRA 171 (494)
Q Consensus 125 ~~~CaICLeef~~~-d~vr~LP~C~H~FH~~CI~~WL~~~--~tCPlCR~ 171 (494)
+.-|-.|-+.|-.. +.+.-|| |.|+||..|+...|.++ .+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 34699999988543 5777898 99999999999999865 47999994
No 55
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.12 E-value=0.0017 Score=61.57 Aligned_cols=41 Identities=27% Similarity=0.608 Sum_probs=33.3
Q ss_pred CceeeeeecCCCCCCCCcccccccCCCCceeecCCCCCcccH
Q 042083 112 PVFYYKAIIGLKNPFDCAVCLCEFEPEDKLRLLPKCSHAFHM 153 (494)
Q Consensus 112 P~~~y~~~~~~~~~~~CaICLeef~~~d~vr~LP~C~H~FH~ 153 (494)
|.+.|+...-.+..-+|.||||++..++.+..|| |-.+||+
T Consensus 164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccccccchhcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 4455555544456679999999999999999999 9999996
No 56
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.00 E-value=0.0037 Score=66.52 Aligned_cols=51 Identities=25% Similarity=0.684 Sum_probs=41.8
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
.+...|+||...+.+. +..+. |+|.||..||..|+..+..||.|+..+...
T Consensus 19 ~~~l~C~~C~~vl~~p--~~~~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDP--VQTTT-CGHRFCAGCLLESLSNHQKCPVCRQELTQA 69 (391)
T ss_pred cccccCccccccccCC--CCCCC-CCCcccccccchhhccCcCCcccccccchh
Confidence 4567899999998753 22234 999999999999999999999998877654
No 57
>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=95.97 E-value=0.0026 Score=58.58 Aligned_cols=38 Identities=16% Similarity=0.531 Sum_probs=31.4
Q ss_pred CCCCcccccccCCCCceeecCCCC------CcccHHHHHHHHhcC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCS------HAFHMECIDTWLLSH 163 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~------H~FH~~CI~~WL~~~ 163 (494)
..+|+||++.+...+.+..++ |+ |+||.+|+.+|-+.+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhc
Confidence 568999999998866777777 76 999999999994333
No 58
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=95.59 E-value=0.007 Score=47.94 Aligned_cols=42 Identities=26% Similarity=0.627 Sum_probs=27.6
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCCc
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS--HSTCPL 168 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~--~~tCPl 168 (494)
-...|+|.+..|++ .++-.. |+|.|-...|.+||+. ...||+
T Consensus 10 ~~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 45689999999874 455554 9999999999999944 446998
No 59
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.49 E-value=0.0077 Score=71.68 Aligned_cols=53 Identities=26% Similarity=0.579 Sum_probs=41.2
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcC----------CCCCcccCCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSH----------STCPLCRASLLPD 176 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~----------~tCPlCR~~l~~~ 176 (494)
..++.|.||.-+--.......|- |+|+||..|...-|.++ -+||+|+.++...
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 46678999988765556677786 99999999998766542 2699999987653
No 60
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.32 E-value=0.008 Score=58.81 Aligned_cols=49 Identities=24% Similarity=0.554 Sum_probs=40.0
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLP 175 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 175 (494)
+-++.|-||-++|.. ..++. |||.||..|...-++....|-+|-+....
T Consensus 194 ~IPF~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G 242 (259)
T COG5152 194 KIPFLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKATYG 242 (259)
T ss_pred CCceeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchhhcc
Confidence 457799999999974 33444 99999999999988889999999775443
No 61
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.16 E-value=0.021 Score=60.99 Aligned_cols=38 Identities=32% Similarity=0.815 Sum_probs=33.6
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS 162 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~ 162 (494)
.-++|.||+++....+....+| |+|+||..|+..++..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~ 220 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTI 220 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHH
Confidence 4568999999988778888999 9999999999999864
No 62
>PHA03096 p28-like protein; Provisional
Probab=95.10 E-value=0.011 Score=60.58 Aligned_cols=46 Identities=26% Similarity=0.590 Sum_probs=34.6
Q ss_pred CCCcccccccCCC----CceeecCCCCCcccHHHHHHHHhc---CCCCCcccC
Q 042083 126 FDCAVCLCEFEPE----DKLRLLPKCSHAFHMECIDTWLLS---HSTCPLCRA 171 (494)
Q Consensus 126 ~~CaICLeef~~~----d~vr~LP~C~H~FH~~CI~~WL~~---~~tCPlCR~ 171 (494)
-.|.|||+..... ..-.+|+.|.|.|+..||..|... ..+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 4799999987543 345588899999999999999864 334555544
No 63
>PHA02862 5L protein; Provisional
Probab=94.88 E-value=0.019 Score=53.63 Aligned_cols=45 Identities=20% Similarity=0.524 Sum_probs=34.3
Q ss_pred CCCcccccccCCCCceeecCCCC-----CcccHHHHHHHHhc--CCCCCcccCCCCC
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCS-----HAFHMECIDTWLLS--HSTCPLCRASLLP 175 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~-----H~FH~~CI~~WL~~--~~tCPlCR~~l~~ 175 (494)
..|-||+++-.++ ..| |. ..-|..|+.+|+.. +.+|++|+.+..-
T Consensus 3 diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 4799999985432 244 54 67999999999974 5689999987754
No 64
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=94.63 E-value=0.016 Score=63.40 Aligned_cols=51 Identities=31% Similarity=0.653 Sum_probs=39.2
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc-----CCCCCcccCCCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS-----HSTCPLCRASLLPDF 177 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~-----~~tCPlCR~~l~~~~ 177 (494)
++..+|-+|-+.-++ ..... |+|.||..||..+... +-+||.|...|.-+.
T Consensus 534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 567789999977432 33444 9999999999998853 568999988876664
No 65
>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=94.60 E-value=0.014 Score=49.64 Aligned_cols=32 Identities=28% Similarity=0.729 Sum_probs=26.9
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHH
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECID 157 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~ 157 (494)
....|++|-..+.. ....+.| |+|+||..|+.
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 45689999999976 5666778 99999999975
No 66
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.46 E-value=0.026 Score=42.93 Aligned_cols=40 Identities=28% Similarity=0.888 Sum_probs=27.3
Q ss_pred CcccccccCCCCceeecCCCC-----CcccHHHHHHHHhc--CCCCCcc
Q 042083 128 CAVCLCEFEPEDKLRLLPKCS-----HAFHMECIDTWLLS--HSTCPLC 169 (494)
Q Consensus 128 CaICLeef~~~d~vr~LP~C~-----H~FH~~CI~~WL~~--~~tCPlC 169 (494)
|-||++.-..++ ..+.| |. ...|..||.+|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999877655 33455 55 37899999999984 5679987
No 67
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.06 E-value=0.044 Score=55.31 Aligned_cols=54 Identities=15% Similarity=0.247 Sum_probs=47.7
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDF 177 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 177 (494)
.-+.|+||.+.+.+-..+..|..|||+|+.+|+.+.+..-..||+|-.++...+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 345799999999988888888889999999999999999999999988887764
No 68
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.03 E-value=0.025 Score=64.87 Aligned_cols=49 Identities=27% Similarity=0.789 Sum_probs=38.9
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcC-------CCCCcccC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSH-------STCPLCRA 171 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~-------~tCPlCR~ 171 (494)
....+|.||++.+..-+.+--...|-|+||..||..|-+.. -.||.|..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 35678999999998776665555699999999999998641 14999984
No 69
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.67 E-value=0.055 Score=55.25 Aligned_cols=49 Identities=31% Similarity=0.530 Sum_probs=36.3
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCCcccCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS--HSTCPLCRASLLP 175 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~--~~tCPlCR~~l~~ 175 (494)
...+|++|-+.=.. .-...+ |+|+||-.||..=+.. ..+||.|-.++.+
T Consensus 238 ~~~~C~~Cg~~Pti--P~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 238 SDTECPVCGEPPTI--PHVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred CCceeeccCCCCCC--Ceeecc-ccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 56799999876432 233444 9999999999986653 4689999776653
No 70
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.60 E-value=0.036 Score=58.30 Aligned_cols=44 Identities=32% Similarity=0.688 Sum_probs=33.5
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l 173 (494)
..+..|.||+++... ...+| |||+-+ |+.-- +...+||+||+.+
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI 346 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRI 346 (355)
T ss_pred CCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHH
Confidence 356789999998765 77888 999966 66553 4455699999866
No 71
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=93.26 E-value=0.071 Score=50.59 Aligned_cols=49 Identities=20% Similarity=0.585 Sum_probs=35.2
Q ss_pred CCCCCcccccccCCCCceeecC-CCCC---cccHHHHHHHHhc--CCCCCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLP-KCSH---AFHMECIDTWLLS--HSTCPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP-~C~H---~FH~~CI~~WL~~--~~tCPlCR~~l~~~ 176 (494)
.+..|-||.++... .. .| .|.. .-|..|+.+|+.. ...|++|+.+....
T Consensus 7 ~~~~CRIC~~~~~~--~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 7 MDKCCWICKDEYDV--VT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCeeEecCCCCCC--cc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 45689999988532 22 34 2444 6799999999975 45799999877543
No 72
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.16 E-value=0.16 Score=53.17 Aligned_cols=47 Identities=21% Similarity=0.424 Sum_probs=36.6
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l 173 (494)
....|+||+...+++..+ ..-|.+||..||...+..+..||+=-.+.
T Consensus 299 ~~~~CpvClk~r~Nptvl---~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVL---EVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred ccccChhHHhccCCCceE---EecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 556899999987653222 22699999999999999999999865443
No 73
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=93.05 E-value=0.029 Score=58.43 Aligned_cols=50 Identities=22% Similarity=0.532 Sum_probs=39.4
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
....|.+|-.-|-+... +. .|-|-||..||...|....+||+|...+-..
T Consensus 14 ~~itC~LC~GYliDATT--I~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATT--IT-ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred cceehhhccceeecchh--HH-HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 45689999877764332 33 3999999999999999999999998766443
No 74
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.02 E-value=0.0082 Score=63.59 Aligned_cols=50 Identities=24% Similarity=0.612 Sum_probs=43.7
Q ss_pred CCCcccccccCCC-CceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 126 FDCAVCLCEFEPE-DKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 126 ~~CaICLeef~~~-d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
..|+||.+.|... +++..+- |+|.+|..||.+||.....||.|+..|.-.
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 3799999999876 6777776 999999999999999999999999988653
No 75
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.97 E-value=0.04 Score=56.73 Aligned_cols=48 Identities=25% Similarity=0.448 Sum_probs=38.8
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLP 175 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 175 (494)
-++.|-||...|.. ..++ +|+|.||..|...=++....|++|-+....
T Consensus 240 ~Pf~c~icr~~f~~---pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 240 LPFKCFICRKYFYR---PVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred CCcccccccccccc---chhh-cCCceeehhhhccccccCCcceeccccccc
Confidence 45679999999975 3344 499999999999988888999999776543
No 76
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=92.85 E-value=0.047 Score=54.66 Aligned_cols=47 Identities=30% Similarity=0.612 Sum_probs=34.3
Q ss_pred CCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCC
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDF 177 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 177 (494)
.|..|..-=. ++...++- |.|+||..|...- ....||+|++++....
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQ 51 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeee
Confidence 5777775433 67777776 9999999997662 2238999999875543
No 77
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.91 E-value=0.056 Score=62.10 Aligned_cols=41 Identities=22% Similarity=0.709 Sum_probs=30.4
Q ss_pred CCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCC
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRAS 172 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~ 172 (494)
..|..|--.++- ....- .|+|.||.+|+. .....||-|+..
T Consensus 841 skCs~C~~~Ldl--P~VhF-~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLDL--PFVHF-LCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCcccc--ceeee-ecccHHHHHhhc---cCcccCCccchh
Confidence 479999877653 22223 499999999998 456689999873
No 78
>PF04641 Rtf2: Rtf2 RING-finger
Probab=91.86 E-value=0.17 Score=51.01 Aligned_cols=54 Identities=22% Similarity=0.471 Sum_probs=43.1
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDF 177 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 177 (494)
...+.|+|+..+|........+-.|||+|-..||..- .....||+|-.++...+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED 164 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence 4677999999999766666666559999999999995 33567999988877554
No 79
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.82 E-value=0.11 Score=53.77 Aligned_cols=49 Identities=41% Similarity=0.830 Sum_probs=36.4
Q ss_pred CCCcccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCCcc-cCCCCCCC
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLL-SHSTCPLC-RASLLPDF 177 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlC-R~~l~~~~ 177 (494)
..|+.|..-+.. .+ .+|.|+|.||.+||..-|. ....||.| |+.+.-+.
T Consensus 275 LkCplc~~Llrn--p~-kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~ 325 (427)
T COG5222 275 LKCPLCHCLLRN--PM-KTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDG 325 (427)
T ss_pred ccCcchhhhhhC--cc-cCccccchHHHHHHhhhhhhccccCCCcccccchhhc
Confidence 579999887654 23 3466999999999997775 57789999 44555543
No 80
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=91.48 E-value=0.11 Score=38.91 Aligned_cols=41 Identities=22% Similarity=0.611 Sum_probs=24.6
Q ss_pred CcccccccCCCCceeecCCCCCcccHHHHHHHHhcCC--CCCcc
Q 042083 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHS--TCPLC 169 (494)
Q Consensus 128 CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~--tCPlC 169 (494)
|.+|.+....|....... |+=.+|..|+..+++.+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~-C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence 678888877766555443 999999999999998755 79988
No 81
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=91.16 E-value=0.17 Score=39.13 Aligned_cols=45 Identities=24% Similarity=0.545 Sum_probs=21.5
Q ss_pred CcccccccCCCC-ceeecCCCCCcccHHHHHHHHh-cCCCCCcccCCC
Q 042083 128 CAVCLCEFEPED-KLRLLPKCSHAFHMECIDTWLL-SHSTCPLCRASL 173 (494)
Q Consensus 128 CaICLeef~~~d-~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlCR~~l 173 (494)
|++|.+++...+ .+.--+ |++..+..|...-+. ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999994433 333333 889999999777665 467899999864
No 82
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.98 E-value=0.14 Score=49.55 Aligned_cols=31 Identities=29% Similarity=0.919 Sum_probs=24.6
Q ss_pred CCCCcccHHHHHHHHhc----C-------CCCCcccCCCCCC
Q 042083 146 KCSHAFHMECIDTWLLS----H-------STCPLCRASLLPD 176 (494)
Q Consensus 146 ~C~H~FH~~CI~~WL~~----~-------~tCPlCR~~l~~~ 176 (494)
.|+.-||.-|+..||+. + ..||.|-.++-.+
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 49999999999999964 1 2599998876543
No 83
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=90.57 E-value=0.19 Score=53.24 Aligned_cols=31 Identities=32% Similarity=0.820 Sum_probs=24.0
Q ss_pred CCCcccHHHHHHHHhc-------------CCCCCcccCCCCCCC
Q 042083 147 CSHAFHMECIDTWLLS-------------HSTCPLCRASLLPDF 177 (494)
Q Consensus 147 C~H~FH~~CI~~WL~~-------------~~tCPlCR~~l~~~~ 177 (494)
|.-++|.+|+-+|+-. +-+||+||+.++..+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 6677899999998843 347999999876543
No 84
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=90.48 E-value=0.13 Score=54.00 Aligned_cols=67 Identities=21% Similarity=0.354 Sum_probs=44.7
Q ss_pred CCCCCCcccccccCCCCcee-ecCCCCCcccHHHHHHHHh-cCCCCCcccCCCCCCCCCCCCCCCceeec
Q 042083 123 KNPFDCAVCLCEFEPEDKLR-LLPKCSHAFHMECIDTWLL-SHSTCPLCRASLLPDFSSSNSCSPVVLVL 190 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr-~LP~C~H~FH~~CI~~WL~-~~~tCPlCR~~l~~~~~~~~s~~P~~~~~ 190 (494)
.+++.|+.|+|++...|+-- -.| ||...|..|...--+ -+..||-||.........--+.+|..+.+
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~~~s~ee~km 80 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYVTLSPEELKM 80 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccceeEEecCHHHHHH
Confidence 35567999999998766543 344 998888888655332 36789999997766654433344443333
No 85
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.00 E-value=0.22 Score=50.42 Aligned_cols=47 Identities=30% Similarity=0.747 Sum_probs=37.5
Q ss_pred CCCcccccccCCCC---ceeecCCCCCcccHHHHHHHHhc-CCCCCcccCCC
Q 042083 126 FDCAVCLCEFEPED---KLRLLPKCSHAFHMECIDTWLLS-HSTCPLCRASL 173 (494)
Q Consensus 126 ~~CaICLeef~~~d---~vr~LP~C~H~FH~~CI~~WL~~-~~tCPlCR~~l 173 (494)
..|-||-++|...+ ..+.|. |||.|+..|+..-+.. ...||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 47999999998763 345565 9999999999986654 44799999985
No 86
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.96 E-value=0.2 Score=52.93 Aligned_cols=49 Identities=22% Similarity=0.585 Sum_probs=40.2
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCC
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLP 175 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 175 (494)
.++..|+||.-. .-.....| |+|.=|..||.+-|...+.|=.|+..+..
T Consensus 420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 367789999843 22355677 99999999999999999999999988765
No 87
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.37 E-value=0.33 Score=51.24 Aligned_cols=66 Identities=20% Similarity=0.442 Sum_probs=44.8
Q ss_pred HHHHhcCCceeeeeecCC-CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHH--HhcCCCCCcccCCCC
Q 042083 105 QSFIDTLPVFYYKAIIGL-KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTW--LLSHSTCPLCRASLL 174 (494)
Q Consensus 105 ~~~I~~LP~~~y~~~~~~-~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~W--L~~~~tCPlCR~~l~ 174 (494)
+..+..-|+..-....+. .+...|.||-+.+. ...++| |+|..|.-|-.+- |..+..||+||..-.
T Consensus 40 KNnlsaEPnlttsSaddtDEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 40 KNNLSAEPNLTTSSADDTDEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccCCccccccccccccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 344445555444333333 24557999998765 477888 9999999997552 346788999998643
No 88
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=87.83 E-value=0.28 Score=56.07 Aligned_cols=23 Identities=30% Similarity=0.883 Sum_probs=21.3
Q ss_pred CCCCcccHHHHHHHHhcCCCCCc
Q 042083 146 KCSHAFHMECIDTWLLSHSTCPL 168 (494)
Q Consensus 146 ~C~H~FH~~CI~~WL~~~~tCPl 168 (494)
.|+|+-|..|...|+.....||.
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 39999999999999999999985
No 89
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=87.14 E-value=0.53 Score=37.32 Aligned_cols=40 Identities=25% Similarity=0.675 Sum_probs=32.8
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCc
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPL 168 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPl 168 (494)
...|.+|-+.|.+++.+.+.|.|+-.||..|.+. ...|-+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 4579999999998888888899999999999544 555644
No 90
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=86.94 E-value=0.42 Score=37.99 Aligned_cols=44 Identities=27% Similarity=0.587 Sum_probs=31.5
Q ss_pred CCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
.|-.|... +..-.++| |+|+.+..|.+-+ +-+.||+|-+++...
T Consensus 9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD 52 (55)
T ss_pred eEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence 44444432 33455777 9999999998875 667899998887654
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=86.84 E-value=0.26 Score=56.30 Aligned_cols=49 Identities=29% Similarity=0.633 Sum_probs=38.5
Q ss_pred CCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCCcccCCCCCCCCC
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS--HSTCPLCRASLLPDFSS 179 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~--~~tCPlCR~~l~~~~~~ 179 (494)
..|.||++ .+.+.+.+ |+|.||..|+..-+.. ...||+||..+......
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~ 505 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL 505 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence 68999998 34566666 9999999999887753 33699999988776443
No 92
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=86.71 E-value=0.4 Score=49.24 Aligned_cols=46 Identities=26% Similarity=0.668 Sum_probs=38.3
Q ss_pred CCCCcccccccCCCC-ceeecCCCCCcccHHHHHHHHhcCCCCCcccC
Q 042083 125 PFDCAVCLCEFEPED-KLRLLPKCSHAFHMECIDTWLLSHSTCPLCRA 171 (494)
Q Consensus 125 ~~~CaICLeef~~~d-~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~ 171 (494)
...|+||.+.+.... .+..++ |+|.-|..|+......+-+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 445999999876655 455676 9999999999998888899999988
No 93
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.17 E-value=0.15 Score=52.76 Aligned_cols=42 Identities=26% Similarity=0.660 Sum_probs=30.2
Q ss_pred CCCCcccccccCCCCceeecCCCCCcc-cHHHHHHHHhcCCCCCcccCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAF-HMECIDTWLLSHSTCPLCRASLL 174 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~F-H~~CI~~WL~~~~tCPlCR~~l~ 174 (494)
..-|+||++.-. .+..|+ |||.. |..|-.. -..||+||+.+.
T Consensus 300 ~~LC~ICmDaP~---DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPR---DCVFLE-CGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCc---ceEEee-cCcEEeehhhccc----cccCchHHHHHH
Confidence 457999997744 377888 99964 5666443 348999998653
No 94
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.88 E-value=0.26 Score=55.43 Aligned_cols=44 Identities=23% Similarity=0.566 Sum_probs=34.2
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRA 171 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~ 171 (494)
-..|.||+..|.....+.+.+.|+|..|..|+.. ..+.+|| |..
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~--lyn~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQL--LYNASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHh--HhhccCC-CCc
Confidence 3479999999987665555556999999999987 4577898 543
No 95
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.98 E-value=0.38 Score=55.82 Aligned_cols=35 Identities=23% Similarity=0.581 Sum_probs=27.7
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHH
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWL 160 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL 160 (494)
.+..|.+|...+... ...+-| |+|.||.+||.+=.
T Consensus 816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 566899999888654 455667 99999999997654
No 96
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=84.42 E-value=0.47 Score=47.65 Aligned_cols=51 Identities=27% Similarity=0.661 Sum_probs=37.3
Q ss_pred CCCCcccccccCCCCc-eeecCCCC-----CcccHHHHHHHHh--cCCCCCcccCCCCCC
Q 042083 125 PFDCAVCLCEFEPEDK-LRLLPKCS-----HAFHMECIDTWLL--SHSTCPLCRASLLPD 176 (494)
Q Consensus 125 ~~~CaICLeef~~~d~-vr~LP~C~-----H~FH~~CI~~WL~--~~~tCPlCR~~l~~~ 176 (494)
+..|-||.++...... ....| |. +..|..|+..|+. .+.+|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4689999998654322 34555 65 6789999999998 566899998765443
No 97
>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=84.10 E-value=0.99 Score=43.01 Aligned_cols=35 Identities=20% Similarity=0.454 Sum_probs=21.1
Q ss_pred CCCCcccccccCCCCc---------eeecCCCC-CcccHHHHHHHH
Q 042083 125 PFDCAVCLCEFEPEDK---------LRLLPKCS-HAFHMECIDTWL 160 (494)
Q Consensus 125 ~~~CaICLeef~~~d~---------vr~LP~C~-H~FH~~CI~~WL 160 (494)
+..|+||||--.+... +|-.. |+ -.-|..|++++-
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHH
Confidence 4589999987443211 11111 44 246899999975
No 98
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=82.49 E-value=0.43 Score=57.34 Aligned_cols=44 Identities=30% Similarity=0.791 Sum_probs=36.3
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCccc
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCR 170 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR 170 (494)
....|.||++.+... -.+. .|+|.++..|+..|+..+..||+|.
T Consensus 1152 ~~~~c~ic~dil~~~--~~I~-~cgh~~c~~c~~~~l~~~s~~~~~k 1195 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQ--GGIA-GCGHEPCCRCDELWLYASSRCPICK 1195 (1394)
T ss_pred cccchHHHHHHHHhc--CCee-eechhHhhhHHHHHHHHhccCcchh
Confidence 556899999987632 2223 3999999999999999999999997
No 99
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=81.43 E-value=0.66 Score=48.45 Aligned_cols=42 Identities=33% Similarity=0.753 Sum_probs=28.8
Q ss_pred CCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCC
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l 173 (494)
.|--|--.+ .-.-|+.| |+|+||.+|... ..-+.||.|-..+
T Consensus 92 fCd~Cd~PI--~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPI--AIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCcc--eeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 366564433 33567888 999999999754 3456899996544
No 100
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.41 E-value=0.85 Score=47.31 Aligned_cols=32 Identities=19% Similarity=0.570 Sum_probs=25.8
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCCcccCCCCCCCC
Q 042083 147 CSHAFHMECIDTWLL-------------SHSTCPLCRASLLPDFS 178 (494)
Q Consensus 147 C~H~FH~~CI~~WL~-------------~~~tCPlCR~~l~~~~~ 178 (494)
|...+|..|+-+|+. .+-+||+||+.++-.+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 778899999998873 35589999998876543
No 101
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=78.50 E-value=2.9 Score=48.23 Aligned_cols=41 Identities=22% Similarity=0.450 Sum_probs=31.1
Q ss_pred CCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCc
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPL 168 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPl 168 (494)
-.|.+|-..+.. .....+.|+|.-|..|+..|+..+.-||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 368888765542 22344569999999999999999888876
No 102
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=77.50 E-value=1.4 Score=45.74 Aligned_cols=43 Identities=28% Similarity=0.750 Sum_probs=32.7
Q ss_pred CCCCCcccccccCCCCceeecCCC--CCcccHHHHHHHHhcCCCCCcccCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKC--SHAFHMECIDTWLLSHSTCPLCRASLL 174 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C--~H~FH~~CI~~WL~~~~tCPlCR~~l~ 174 (494)
+-.+|+||.+.+.. .+.. | ||+-|..|-. +....||.||.++.
T Consensus 47 ~lleCPvC~~~l~~----Pi~Q-C~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSP----PIFQ-CDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCcc----ccee-cCCCcEehhhhhh---hhcccCCccccccc
Confidence 45689999999874 2333 6 5888888865 35778999999887
No 103
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.51 E-value=1.5 Score=48.69 Aligned_cols=47 Identities=36% Similarity=0.817 Sum_probs=39.6
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDFS 178 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~ 178 (494)
....|.||+.+. ..+..+ |. |..|+..|+..+.+||+|+..+..+..
T Consensus 478 ~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred ccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 456899999998 466666 88 999999999999999999998876643
No 104
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=75.87 E-value=2.7 Score=47.41 Aligned_cols=43 Identities=30% Similarity=0.775 Sum_probs=28.6
Q ss_pred CCCCCCcccccc-----cCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcc
Q 042083 123 KNPFDCAVCLCE-----FEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLC 169 (494)
Q Consensus 123 ~~~~~CaICLee-----f~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlC 169 (494)
...+.|.||-.. |+.....+.. .|+++||..|+.. ...-||.|
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~-~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCS-TCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHH-HHHHHHHHHHHhc---cCCCCCch
Confidence 356789998433 3322334444 4999999999655 44559999
No 105
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=75.57 E-value=2 Score=49.83 Aligned_cols=51 Identities=25% Similarity=0.643 Sum_probs=38.5
Q ss_pred CCCCCcccccccCCCCceeecCCCC-----CcccHHHHHHHHhc--CCCCCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCS-----HAFHMECIDTWLLS--HSTCPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~-----H~FH~~CI~~WL~~--~~tCPlCR~~l~~~ 176 (494)
+...|.||..+=..++.+ ..| |. ...|.+|+.+|+.- ...|-+|+.++.-+
T Consensus 11 d~~~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk 68 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK 68 (1175)
T ss_pred cchhceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence 456899999986665554 445 55 56899999999974 45699999877554
No 106
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.49 E-value=1.6 Score=44.62 Aligned_cols=55 Identities=22% Similarity=0.578 Sum_probs=37.7
Q ss_pred CCCCCcccccccCCCCce-eecCCCC-----CcccHHHHHHHHhcC--------CCCCcccCCCCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKL-RLLPKCS-----HAFHMECIDTWLLSH--------STCPLCRASLLPDFSS 179 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~v-r~LP~C~-----H~FH~~CI~~WL~~~--------~tCPlCR~~l~~~~~~ 179 (494)
.+..|=||+..=+++..- =+.| |. |-.|..||..|+..+ -+||-|+.....-.+.
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~ 87 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQ 87 (293)
T ss_pred cceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccc
Confidence 456899999774433221 1344 54 889999999999542 2599999987665444
No 107
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=72.52 E-value=2.8 Score=40.88 Aligned_cols=41 Identities=34% Similarity=0.882 Sum_probs=30.4
Q ss_pred CCCCCcccccc-----cCCCCceeecCCCCCcccHHHHHHHHhcCCCCCccc
Q 042083 124 NPFDCAVCLCE-----FEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCR 170 (494)
Q Consensus 124 ~~~~CaICLee-----f~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR 170 (494)
..+.|.||-++ |+. +.+...+.|+-+||..|.. +..||-|-
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 46789999863 333 3556666799999999965 26799994
No 108
>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=71.73 E-value=1.7 Score=44.13 Aligned_cols=50 Identities=28% Similarity=0.653 Sum_probs=37.6
Q ss_pred CCCCCccccccc--CCCCceeecCCCCCcccHHHHHHHHhcC-CCCC--cccCCC
Q 042083 124 NPFDCAVCLCEF--EPEDKLRLLPKCSHAFHMECIDTWLLSH-STCP--LCRASL 173 (494)
Q Consensus 124 ~~~~CaICLeef--~~~d~vr~LP~C~H~FH~~CI~~WL~~~-~tCP--lCR~~l 173 (494)
.+..|+||..+. .++-++.+-|.|-|..|..|+++-+... ..|| -|-+-|
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 455899999884 3333566677799999999999999764 4799 785533
No 109
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=71.35 E-value=2.4 Score=49.06 Aligned_cols=53 Identities=13% Similarity=0.188 Sum_probs=37.9
Q ss_pred CCCCCcccccccCCCC---ceeecCCCCCcccHHHHHHHHhc------CCCCCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFEPED---KLRLLPKCSHAFHMECIDTWLLS------HSTCPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~~~d---~vr~LP~C~H~FH~~CI~~WL~~------~~tCPlCR~~l~~~ 176 (494)
....|.||.-++..++ .+..+..|.|.||..||..|+.+ +-.|++|..-|...
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW 156 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW 156 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence 4557888888877632 23333369999999999999954 44689998766544
No 110
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.67 E-value=2 Score=42.38 Aligned_cols=40 Identities=33% Similarity=0.740 Sum_probs=28.2
Q ss_pred CCcccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCCcccCCCC
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHA-FHMECIDTWLLSHSTCPLCRASLL 174 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~-FH~~CI~~WL~~~~tCPlCR~~l~ 174 (494)
.|-+|-+. ...|.++| |.|+ +|..|=.. -.+||+|+....
T Consensus 160 ~Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred cceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 38888755 44688999 9875 67777443 456999987543
No 111
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.54 E-value=3.7 Score=44.14 Aligned_cols=45 Identities=22% Similarity=0.469 Sum_probs=37.1
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcC---CCCCcc
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSH---STCPLC 169 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~---~tCPlC 169 (494)
.-+.|+|=.+.=.++.....|. |||+...+-|.+-.+.. ..||.|
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC 380 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC 380 (394)
T ss_pred ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence 4578999888877777888887 99999999999966543 359999
No 112
>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=69.08 E-value=3.9 Score=42.39 Aligned_cols=49 Identities=27% Similarity=0.617 Sum_probs=35.7
Q ss_pred CCcccccc-cCCCC-ceeecCCCCCcccHHHHHHHHhcC-CCCCcccCCCCCC
Q 042083 127 DCAVCLCE-FEPED-KLRLLPKCSHAFHMECIDTWLLSH-STCPLCRASLLPD 176 (494)
Q Consensus 127 ~CaICLee-f~~~d-~vr~LP~C~H~FH~~CI~~WL~~~-~tCPlCR~~l~~~ 176 (494)
.|++|-.+ |-..+ .+.+-+ |+|-.|..|++.-+..+ ..||.|-..|.-.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~ 53 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRKN 53 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhhc
Confidence 58999766 33333 344445 99999999999988764 4799997766544
No 113
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=68.64 E-value=5 Score=36.73 Aligned_cols=25 Identities=24% Similarity=0.295 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCCC
Q 042083 51 IIILAIIFFVSGLLHLLVRFLLRPT 75 (494)
Q Consensus 51 IIIL~iIffV~~LL~llvr~llRr~ 75 (494)
.||+.+++-|++++.++.++++|++
T Consensus 68 ~Ii~gv~aGvIg~Illi~y~irR~~ 92 (122)
T PF01102_consen 68 GIIFGVMAGVIGIILLISYCIRRLR 92 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred ehhHHHHHHHHHHHHHHHHHHHHHh
Confidence 3333333334444444444444433
No 114
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.06 E-value=2.8 Score=44.91 Aligned_cols=38 Identities=32% Similarity=0.739 Sum_probs=28.0
Q ss_pred CCCCCccccccc-CCCCceeecCCCCCcccHHHHHHHHhc
Q 042083 124 NPFDCAVCLCEF-EPEDKLRLLPKCSHAFHMECIDTWLLS 162 (494)
Q Consensus 124 ~~~~CaICLeef-~~~d~vr~LP~C~H~FH~~CI~~WL~~ 162 (494)
...+|.||..++ ...+....+ .|+|.|+.+|+.+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 356899999444 443444444 59999999999988864
No 115
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=63.33 E-value=2.1 Score=48.90 Aligned_cols=46 Identities=30% Similarity=0.769 Sum_probs=34.9
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc---CCCCCcccCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS---HSTCPLCRASLL 174 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~---~~tCPlCR~~l~ 174 (494)
..+|.||+..|... ..+ +|.|.|+..|+..-|.. ...||+|+..+.
T Consensus 21 ~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 34899999998754 334 59999999998876654 347999996554
No 116
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=62.92 E-value=2.4 Score=32.96 Aligned_cols=30 Identities=30% Similarity=0.782 Sum_probs=21.6
Q ss_pred CC-CcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 147 CS-HAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 147 C~-H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
|. |..+..|+...|....-||+|..+|+..
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 65 9999999999999999999999988754
No 117
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=61.79 E-value=24 Score=35.31 Aligned_cols=22 Identities=36% Similarity=0.784 Sum_probs=15.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q 042083 45 PSILLIIIILAIIFFVSGLLHL 66 (494)
Q Consensus 45 PSILiIIIIL~iIffV~~LL~l 66 (494)
-.|||.+||++++|+|+.||++
T Consensus 128 ~amLIClIIIAVLfLICT~LfL 149 (227)
T PF05399_consen 128 MAMLICLIIIAVLFLICTLLFL 149 (227)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 3477777788887777766655
No 118
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=59.74 E-value=4.8 Score=40.23 Aligned_cols=44 Identities=30% Similarity=0.742 Sum_probs=35.3
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRA 171 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~ 171 (494)
-..|.+|.+-.-.+ ++.-. |+-.||..|+...+++...||.|-.
T Consensus 181 lk~Cn~Ch~LvIqg--~rCg~-c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQG--IRCGS-CNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHHhHhHHHhhee--eccCc-ccchhhhHHHHHHhcccCcCCchhc
Confidence 34799999876543 34443 9999999999999999999999954
No 119
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=58.74 E-value=3.7 Score=47.54 Aligned_cols=44 Identities=25% Similarity=0.585 Sum_probs=32.6
Q ss_pred CCCCcccccccCCC----CceeecCCCCCcccHHHHHHHHhcCCCCCccc
Q 042083 125 PFDCAVCLCEFEPE----DKLRLLPKCSHAFHMECIDTWLLSHSTCPLCR 170 (494)
Q Consensus 125 ~~~CaICLeef~~~----d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR 170 (494)
...|.-|.+..... +.+.++. |+|+||..|+..-+.++. |-.|-
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChhh
Confidence 34799999886422 3566776 999999999988777666 66663
No 120
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=58.21 E-value=8.8 Score=35.85 Aligned_cols=52 Identities=19% Similarity=0.459 Sum_probs=35.1
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHh---cCCCCCcccCCCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLL---SHSTCPLCRASLLPD 176 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~---~~~tCPlCR~~l~~~ 176 (494)
-.+|.||.|.-.+..-+.----||...+..|--.-++ .+..||+|+.++...
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 4589999988654332221113898888888655444 478999999987654
No 121
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=55.62 E-value=6.4 Score=40.49 Aligned_cols=48 Identities=31% Similarity=0.659 Sum_probs=35.1
Q ss_pred CCCcccccccCCCCceee---cCCCCCcccHHHHHHHHhc---------CCCCCcccCCC
Q 042083 126 FDCAVCLCEFEPEDKLRL---LPKCSHAFHMECIDTWLLS---------HSTCPLCRASL 173 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~---LP~C~H~FH~~CI~~WL~~---------~~tCPlCR~~l 173 (494)
.+|.+|.++|...+..+. -|.|.-.+|..|+-.-+.. ...||.|++.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 589999999954444332 3358899999999985532 34699998854
No 123
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=55.55 E-value=27 Score=26.05 Aligned_cols=26 Identities=8% Similarity=0.120 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhC
Q 042083 48 LLIIIILAIIFFVSGLLHLLVRFLLR 73 (494)
Q Consensus 48 LiIIIIL~iIffV~~LL~llvr~llR 73 (494)
+.+++.+++.+.++.+..+++-++.|
T Consensus 6 IaIIv~V~vg~~iiii~~~~YaCcyk 31 (38)
T PF02439_consen 6 IAIIVAVVVGMAIIIICMFYYACCYK 31 (38)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 33444444444443333333334433
No 124
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.49 E-value=10 Score=41.27 Aligned_cols=37 Identities=24% Similarity=0.632 Sum_probs=30.4
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS 162 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~ 162 (494)
.....|-||.+.+.. .+..+. |+|.|+..|+...+.+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 356789999999876 455665 9999999999999865
No 125
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=47.75 E-value=21 Score=37.37 Aligned_cols=20 Identities=20% Similarity=0.446 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 042083 53 ILAIIFFVSGLLHLLVRFLL 72 (494)
Q Consensus 53 IL~iIffV~~LL~llvr~ll 72 (494)
.+++|++|+++++|+.||.+
T Consensus 264 aIliIVLIMvIIYLILRYRR 283 (299)
T PF02009_consen 264 AILIIVLIMVIIYLILRYRR 283 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333344444444444433
No 126
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=45.89 E-value=40 Score=39.57 Aligned_cols=27 Identities=26% Similarity=0.379 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 042083 47 ILLIIIILAIIFFVSGLLHLLVRFLLR 73 (494)
Q Consensus 47 ILiIIIIL~iIffV~~LL~llvr~llR 73 (494)
++++.|+..++++++++|++|++|++|
T Consensus 273 ~fLl~ILG~~~livl~lL~vLl~yCrr 299 (807)
T PF10577_consen 273 VFLLAILGGTALIVLILLCVLLCYCRR 299 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 333444444555556666666665555
No 127
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=45.28 E-value=27 Score=30.17 Aligned_cols=21 Identities=29% Similarity=0.540 Sum_probs=13.3
Q ss_pred CCCccchhHHHHHHHHHHHHH
Q 042083 39 LNNKVSPSILLIIIILAIIFF 59 (494)
Q Consensus 39 ~~~~isPSILiIIIIL~iIff 59 (494)
.-..+.|.+++.|+|+++|++
T Consensus 18 ~~~~l~pn~lMtILivLVIIi 38 (85)
T PF10717_consen 18 NLNGLNPNTLMTILIVLVIII 38 (85)
T ss_pred cccccChhHHHHHHHHHHHHH
Confidence 455788887776665554443
No 128
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=45.11 E-value=18 Score=24.63 Aligned_cols=37 Identities=24% Similarity=0.489 Sum_probs=24.1
Q ss_pred CCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCC
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l 173 (494)
.|..|-+.+...+..... =+..||..| ..|..|...|
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccC--------CCCcccCCcC
Confidence 378888888765333222 467888876 3577787665
No 129
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.49 E-value=18 Score=37.16 Aligned_cols=53 Identities=23% Similarity=0.365 Sum_probs=40.6
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDFS 178 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~~ 178 (494)
..+.|+|---+|........+-.|||+|-...+.+- ...+|++|.+.+...+.
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDV 162 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCe
Confidence 567899988888766555555559999999888773 46789999988777653
No 130
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=42.90 E-value=32 Score=30.15 Aligned_cols=20 Identities=20% Similarity=0.228 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHhhCCCCCCc
Q 042083 60 VSGLLHLLVRFLLRPTNRDP 79 (494)
Q Consensus 60 V~~LL~llvr~llRr~~r~~ 79 (494)
++.++++++.++.|++.|.+
T Consensus 45 il~VilwfvCC~kRkrsRrP 64 (94)
T PF05393_consen 45 ILLVILWFVCCKKRKRSRRP 64 (94)
T ss_pred HHHHHHHHHHHHHhhhccCC
Confidence 33344445555555554443
No 131
>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=42.83 E-value=14 Score=29.00 Aligned_cols=43 Identities=26% Similarity=0.518 Sum_probs=21.5
Q ss_pred CcccccccCCC------CceeecCCCCCcccHHHHHHHHhcCCCCCccc
Q 042083 128 CAVCLCEFEPE------DKLRLLPKCSHAFHMECIDTWLLSHSTCPLCR 170 (494)
Q Consensus 128 CaICLeef~~~------d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR 170 (494)
|--|+..|... ...-.-|+|++.|+.+|=.---..=.+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 55567776654 23456678999999999322112345799884
No 132
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=42.14 E-value=29 Score=31.45 Aligned_cols=46 Identities=22% Similarity=0.348 Sum_probs=34.5
Q ss_pred CCCCcccccccCCCC----------ceeecCCCCCcccHHHHHHHHhcCCCCCccc
Q 042083 125 PFDCAVCLCEFEPED----------KLRLLPKCSHAFHMECIDTWLLSHSTCPLCR 170 (494)
Q Consensus 125 ~~~CaICLeef~~~d----------~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR 170 (494)
...|--|+..|.... ..-..++|++.|+.+|=.-+-..=.+||-|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 346999999886431 1223567999999999777777777899995
No 133
>PF15050 SCIMP: SCIMP protein
Probab=41.55 E-value=12 Score=34.44 Aligned_cols=9 Identities=33% Similarity=0.501 Sum_probs=4.2
Q ss_pred HHHHHHhhC
Q 042083 65 HLLVRFLLR 73 (494)
Q Consensus 65 ~llvr~llR 73 (494)
++++|+++|
T Consensus 28 yCvcR~~lR 36 (133)
T PF15050_consen 28 YCVCRWQLR 36 (133)
T ss_pred HHHHHHHHH
Confidence 334455555
No 134
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=41.16 E-value=14 Score=27.58 Aligned_cols=42 Identities=29% Similarity=0.596 Sum_probs=27.9
Q ss_pred CcccccccCCCCceeecCCCCCcccHHHHHHHHh------cCCCCCccc
Q 042083 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLL------SHSTCPLCR 170 (494)
Q Consensus 128 CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~------~~~tCPlCR 170 (494)
|.||...-..++.+ .--.|+..||..|+..=.. ..-.||.|+
T Consensus 2 C~vC~~~~~~~~~i-~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQSDDDGDMI-QCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp BTTTTSSCTTSSEE-EBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred CcCCCCcCCCCCeE-EcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 88999854444444 4445999999999865432 134687775
No 135
>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=39.85 E-value=17 Score=24.63 Aligned_cols=23 Identities=26% Similarity=0.680 Sum_probs=14.1
Q ss_pred CCcccccccCCCCceeecCCCCCcc
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAF 151 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~F 151 (494)
.|+-|...+.. .....|.|||.|
T Consensus 2 ~CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--hcCcCCCCCCCC
Confidence 47777766543 344455677776
No 136
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=39.85 E-value=24 Score=37.42 Aligned_cols=50 Identities=26% Similarity=0.606 Sum_probs=36.2
Q ss_pred CCCCcccccccCCCCceeecC-CCCCcccHHHHHHHHhcCCCCCcccCCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLP-KCSHAFHMECIDTWLLSHSTCPLCRASLLP 175 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP-~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 175 (494)
...|+||.+.....+.. .+| .|+|.-|..|...-...+.+||.||++...
T Consensus 249 ~~s~p~~~~~~~~~d~~-~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSN-FLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCCcccccccc-cccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 36899999987444433 223 378888888888877788999999965544
No 137
>PF15102 TMEM154: TMEM154 protein family
Probab=39.57 E-value=6.4 Score=37.14 Aligned_cols=10 Identities=50% Similarity=0.956 Sum_probs=5.9
Q ss_pred HHHHHHHHhc
Q 042083 153 MECIDTWLLS 162 (494)
Q Consensus 153 ~~CI~~WL~~ 162 (494)
..=|++|+..
T Consensus 127 meeldkwm~s 136 (146)
T PF15102_consen 127 MEELDKWMNS 136 (146)
T ss_pred HHHHHhHHHh
Confidence 3446777753
No 138
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=39.07 E-value=14 Score=40.58 Aligned_cols=33 Identities=30% Similarity=0.690 Sum_probs=26.7
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHH
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWL 160 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL 160 (494)
++..|+||..-|.+ ..+|| |+|..|..|...-+
T Consensus 3 eelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 3 EELKCPVCGSFYRE---PIILP-CSHNLCQACARNIL 35 (699)
T ss_pred ccccCceehhhccC---ceEee-cccHHHHHHHHhhc
Confidence 45689999988875 67888 99999999987543
No 139
>PHA02657 hypothetical protein; Provisional
Probab=38.51 E-value=46 Score=29.02 Aligned_cols=25 Identities=32% Similarity=0.491 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Q 042083 46 SILLIIIILAIIFFVSGLLHLLVRF 70 (494)
Q Consensus 46 SILiIIIIL~iIffV~~LL~llvr~ 70 (494)
++++|.++++++.|++.++.++++|
T Consensus 26 ~imVitvfv~vI~il~flLLYLvkW 50 (95)
T PHA02657 26 SILVFTIFIFVVCILIYLLIYLVDW 50 (95)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666665555555554
No 140
>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=38.40 E-value=35 Score=26.23 Aligned_cols=42 Identities=21% Similarity=0.479 Sum_probs=18.8
Q ss_pred CCcccccccCCCCceeecCCCCCcccHHHHHHHHhc---C--CCCCcccCC
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS---H--STCPLCRAS 172 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~---~--~tCPlCR~~ 172 (494)
.|+|....+.. .+|-.. |.|.-+ -=+..||.. . -.||+|.++
T Consensus 4 ~CPls~~~i~~--P~Rg~~-C~H~~C-FDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGKN-CKHLQC-FDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SS--EEEETT---SS---EEHHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEe--CccCCc-Ccccce-ECHHHHHHHhhccCCeECcCCcCc
Confidence 58887777653 466555 998732 113456643 2 259999763
No 141
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=38.36 E-value=27 Score=37.04 Aligned_cols=52 Identities=21% Similarity=0.564 Sum_probs=35.6
Q ss_pred CCCCCcccccccC---------------CCC-ceeecCCCCCcccHHHHHHHHhc---------CCCCCcccCCCCCC
Q 042083 124 NPFDCAVCLCEFE---------------PED-KLRLLPKCSHAFHMECIDTWLLS---------HSTCPLCRASLLPD 176 (494)
Q Consensus 124 ~~~~CaICLeef~---------------~~d-~vr~LP~C~H~FH~~CI~~WL~~---------~~tCPlCR~~l~~~ 176 (494)
...+|++|+..-. .+. .-...| |||+--..-..-|-+. +..||.|-+.|...
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 4668999997621 111 112456 9999999999999864 44699998776543
No 142
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.99 E-value=22 Score=36.54 Aligned_cols=36 Identities=22% Similarity=0.233 Sum_probs=28.8
Q ss_pred CCCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc
Q 042083 123 KNPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS 162 (494)
Q Consensus 123 ~~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~ 162 (494)
+..+.|+.||..+.+ ..++| =||+|+.+||.+.+..
T Consensus 41 K~FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRD---PVITP-DGYLFDREAILEYILA 76 (303)
T ss_pred CCcceeeeecccccC---CccCC-CCeeeeHHHHHHHHHH
Confidence 356689999998874 45666 8999999999998854
No 143
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=36.76 E-value=51 Score=30.22 Aligned_cols=31 Identities=19% Similarity=0.198 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhCCCCC
Q 042083 47 ILLIIIILAIIFFVSGLLHLLVRFLLRPTNR 77 (494)
Q Consensus 47 ILiIIIIL~iIffV~~LL~llvr~llRr~~r 77 (494)
++||+.+++-++++++|+.|+++.+.++...
T Consensus 67 ~~Ii~gv~aGvIg~Illi~y~irR~~Kk~~~ 97 (122)
T PF01102_consen 67 IGIIFGVMAGVIGIILLISYCIRRLRKKSSS 97 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHS-----
T ss_pred eehhHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence 3455544444444555556666666655543
No 144
>PF14914 LRRC37AB_C: LRRC37A/B like protein 1 C-terminal domain
Probab=36.51 E-value=65 Score=30.72 Aligned_cols=9 Identities=44% Similarity=0.888 Sum_probs=6.0
Q ss_pred CCCCCCCcc
Q 042083 35 DGFNLNNKV 43 (494)
Q Consensus 35 ~~~~~~~~i 43 (494)
.+|++++++
T Consensus 113 p~~gY~nkl 121 (154)
T PF14914_consen 113 PGYGYNNKL 121 (154)
T ss_pred ccccccchh
Confidence 356677776
No 145
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=35.89 E-value=43 Score=35.87 Aligned_cols=13 Identities=15% Similarity=0.572 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHHH
Q 042083 58 FFVSGLLHLLVRF 70 (494)
Q Consensus 58 ffV~~LL~llvr~ 70 (494)
++|+++++|+.||
T Consensus 323 VLIMvIIYLILRY 335 (353)
T TIGR01477 323 VLIMVIIYLILRY 335 (353)
T ss_pred HHHHHHHHHHHHh
Confidence 3334444444444
No 146
>PF05510 Sarcoglycan_2: Sarcoglycan alpha/epsilon; InterPro: IPR008908 Sarcoglycans are a subcomplex of transmembrane proteins which are part of the dystrophin-glycoprotein complex. They are expressed in the skeletal, cardiac and smooth muscle. Although numerous studies have been conducted on the sarcoglycan subcomplex in skeletal and cardiac muscle, the manner of the distribution and localisation of these proteins along the nonjunctional sarcolemma is not clear []. This family contains alpha and epsilon members.; GO: 0016012 sarcoglycan complex
Probab=35.68 E-value=84 Score=34.14 Aligned_cols=14 Identities=7% Similarity=0.347 Sum_probs=9.0
Q ss_pred CceeeEEeeccccc
Q 042083 1 MAWFFLEMKESTIV 14 (494)
Q Consensus 1 ~~~~~~~~~~~~~~ 14 (494)
++|-.+++-+....
T Consensus 234 iDWC~f~Lv~~s~~ 247 (386)
T PF05510_consen 234 IDWCNFRLVDLSSP 247 (386)
T ss_pred eeeeeeEEEccCcC
Confidence 57888888544333
No 147
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=35.54 E-value=99 Score=26.09 Aligned_cols=10 Identities=20% Similarity=0.531 Sum_probs=4.1
Q ss_pred HHHHHHHhhC
Q 042083 64 LHLLVRFLLR 73 (494)
Q Consensus 64 L~llvr~llR 73 (494)
+.++..|..+
T Consensus 20 ~wl~lHY~~k 29 (75)
T TIGR02976 20 LWLILHYRSK 29 (75)
T ss_pred HHHHHHHHhh
Confidence 3344444433
No 148
>PTZ00046 rifin; Provisional
Probab=35.39 E-value=44 Score=35.90 Aligned_cols=14 Identities=21% Similarity=0.626 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHH
Q 042083 57 IFFVSGLLHLLVRF 70 (494)
Q Consensus 57 IffV~~LL~llvr~ 70 (494)
|++|+++++|+.||
T Consensus 327 IVLIMvIIYLILRY 340 (358)
T PTZ00046 327 IVLIMVIIYLILRY 340 (358)
T ss_pred HHHHHHHHHHHHHh
Confidence 33344444444444
No 149
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=34.66 E-value=28 Score=36.88 Aligned_cols=45 Identities=24% Similarity=0.462 Sum_probs=32.6
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhc---CCCCCcc
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLS---HSTCPLC 169 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~---~~tCPlC 169 (494)
.-+.|++--+.-.+......|. |||+.-..-++.--+. ...||.|
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred ceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 3467998766655555666776 9999999999984432 2359999
No 150
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=34.50 E-value=23 Score=25.52 Aligned_cols=26 Identities=31% Similarity=0.726 Sum_probs=16.3
Q ss_pred CCcccccccCCCCc-------eeecCCCCCccc
Q 042083 127 DCAVCLCEFEPEDK-------LRLLPKCSHAFH 152 (494)
Q Consensus 127 ~CaICLeef~~~d~-------vr~LP~C~H~FH 152 (494)
+|+=|.-.|..++. ....++|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 68888888865542 113345888775
No 151
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.81 E-value=20 Score=38.45 Aligned_cols=45 Identities=22% Similarity=0.489 Sum_probs=32.2
Q ss_pred CCCCCcccccccCCCC--ceeecCCCCCcccHHHHHHHHhcCCCCCcc
Q 042083 124 NPFDCAVCLCEFEPED--KLRLLPKCSHAFHMECIDTWLLSHSTCPLC 169 (494)
Q Consensus 124 ~~~~CaICLeef~~~d--~vr~LP~C~H~FH~~CI~~WL~~~~tCPlC 169 (494)
.-.+|++|.--+.... .-.... |+|.|+..|...|...+..|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 3457888876654333 222344 99999999999998888878655
No 152
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=32.46 E-value=23 Score=25.61 Aligned_cols=26 Identities=35% Similarity=0.747 Sum_probs=16.3
Q ss_pred CCcccccccCCCCc-------eeecCCCCCccc
Q 042083 127 DCAVCLCEFEPEDK-------LRLLPKCSHAFH 152 (494)
Q Consensus 127 ~CaICLeef~~~d~-------vr~LP~C~H~FH 152 (494)
.|+-|...|...+. ....++|+|.|+
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 58888877764442 223445888875
No 153
>PF14979 TMEM52: Transmembrane 52
Probab=31.60 E-value=90 Score=29.75 Aligned_cols=34 Identities=21% Similarity=0.324 Sum_probs=20.0
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHhhCCC
Q 042083 42 KVSPSILLIIIILAIIFFVSGLLHLLVRFLLRPT 75 (494)
Q Consensus 42 ~isPSILiIIIIL~iIffV~~LL~llvr~llRr~ 75 (494)
..+-..+-+|++++++++++++....+||+..++
T Consensus 16 W~~LWyIwLill~~~llLLCG~ta~C~rfCClrk 49 (154)
T PF14979_consen 16 WSSLWYIWLILLIGFLLLLCGLTASCVRFCCLRK 49 (154)
T ss_pred eehhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3443444444555555667788888888555433
No 154
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=31.47 E-value=49 Score=34.56 Aligned_cols=12 Identities=25% Similarity=0.382 Sum_probs=5.2
Q ss_pred HHHHHHHHhhCC
Q 042083 63 LLHLLVRFLLRP 74 (494)
Q Consensus 63 LL~llvr~llRr 74 (494)
++++|+++++||
T Consensus 275 liiLYiWlyrrR 286 (295)
T TIGR01478 275 LIILYIWLYRRR 286 (295)
T ss_pred HHHHHHHHHHhh
Confidence 334444444443
No 155
>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus [].; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane
Probab=31.05 E-value=1.2e+02 Score=26.72 Aligned_cols=8 Identities=25% Similarity=0.629 Sum_probs=2.9
Q ss_pred CCCCCCCC
Q 042083 23 LPQPPPSP 30 (494)
Q Consensus 23 ~sppPp~P 30 (494)
.|.-|+.+
T Consensus 19 ~P~~p~~~ 26 (91)
T PF01708_consen 19 TPRVPTAA 26 (91)
T ss_pred CCCCCCCC
Confidence 33333333
No 156
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=30.56 E-value=1.2e+02 Score=33.97 Aligned_cols=14 Identities=7% Similarity=0.147 Sum_probs=10.9
Q ss_pred ccHHHHHHHHhcCC
Q 042083 151 FHMECIDTWLLSHS 164 (494)
Q Consensus 151 FH~~CI~~WL~~~~ 164 (494)
.+..|+..||+.|-
T Consensus 290 h~kGsL~dyL~~nt 303 (534)
T KOG3653|consen 290 HPKGSLCDYLKANT 303 (534)
T ss_pred ccCCcHHHHHHhcc
Confidence 45679999998765
No 157
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=30.14 E-value=44 Score=35.60 Aligned_cols=47 Identities=23% Similarity=0.452 Sum_probs=33.5
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRA 171 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~ 171 (494)
....|-.|..+.......+.- .|.|.||.+|=.---..=..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 344699997777666666555 49999999995443344557999964
No 158
>PTZ00370 STEVOR; Provisional
Probab=30.04 E-value=54 Score=34.32 Aligned_cols=11 Identities=27% Similarity=0.443 Sum_probs=4.8
Q ss_pred HHHHHHHHhhC
Q 042083 63 LLHLLVRFLLR 73 (494)
Q Consensus 63 LL~llvr~llR 73 (494)
++++|+++++|
T Consensus 271 liilYiwlyrr 281 (296)
T PTZ00370 271 LIILYIWLYRR 281 (296)
T ss_pred HHHHHHHHHHh
Confidence 33444444444
No 159
>PF15050 SCIMP: SCIMP protein
Probab=29.46 E-value=90 Score=28.90 Aligned_cols=24 Identities=29% Similarity=0.278 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHhhCCCCCCc
Q 042083 56 IIFFVSGLLHLLVRFLLRPTNRDP 79 (494)
Q Consensus 56 iIffV~~LL~llvr~llRr~~r~~ 79 (494)
.|++|...|-++++|++|+..|..
T Consensus 15 aII~vS~~lglIlyCvcR~~lRqG 38 (133)
T PF15050_consen 15 AIILVSVVLGLILYCVCRWQLRQG 38 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcc
Confidence 355566667777778887554443
No 160
>PHA02849 putative transmembrane protein; Provisional
Probab=29.20 E-value=87 Score=26.88 Aligned_cols=23 Identities=22% Similarity=0.570 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 042083 48 LLIIIILAIIFFVSGLLHLLVRF 70 (494)
Q Consensus 48 LiIIIIL~iIffV~~LL~llvr~ 70 (494)
++|.++++++.|++.++..+++|
T Consensus 18 ~vi~v~v~vI~i~~flLlyLvkw 40 (82)
T PHA02849 18 TVILVFVLVISFLAFMLLYLIKW 40 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444
No 161
>PF04639 Baculo_E56: Baculoviral E56 protein, specific to ODV envelope; InterPro: IPR006733 This family represents the E56 protein, which is localized to the occlusion derived virus (ODV) envelope, but not to the budded virus (BV) envelope []. Signals necessary for transport and/or retention into this structure are believed to be found within the C-terminal portion of ODV-E56.; GO: 0019031 viral envelope
Probab=29.14 E-value=32 Score=35.89 Aligned_cols=37 Identities=24% Similarity=0.340 Sum_probs=19.9
Q ss_pred CCCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 042083 37 FNLNNKVSPSILLIIIILAIIFFVSGLLHLLVRFLLR 73 (494)
Q Consensus 37 ~~~~~~isPSILiIIIIL~iIffV~~LL~llvr~llR 73 (494)
.+....++-.++-+|+++.+++|++++.+++++++.+
T Consensus 267 Snss~S~s~~l~piil~IG~vl~i~~Ig~~ifK~~~~ 303 (305)
T PF04639_consen 267 SNSSKSVSDSLLPIILIIGGVLLIVFIGYFIFKRLMN 303 (305)
T ss_pred cCccchhhhhhhHHHHHHHHHHHHHHhhheeeEeecc
Confidence 3444455555565665555555555555555554443
No 162
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=29.06 E-value=70 Score=28.62 Aligned_cols=23 Identities=26% Similarity=0.303 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhC
Q 042083 51 IIILAIIFFVSGLLHLLVRFLLR 73 (494)
Q Consensus 51 IIIL~iIffV~~LL~llvr~llR 73 (494)
++|+++++++++++.++.+...+
T Consensus 4 l~il~llLll~l~asl~~wr~~~ 26 (107)
T PF15330_consen 4 LGILALLLLLSLAASLLAWRMKQ 26 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444444444444444443333
No 163
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=29.03 E-value=44 Score=26.22 Aligned_cols=17 Identities=47% Similarity=0.651 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHhhC
Q 042083 57 IFFVSGLLHLLVRFLLR 73 (494)
Q Consensus 57 IffV~~LL~llvr~llR 73 (494)
+||+++++.+++..+++
T Consensus 9 i~iv~~lLg~~I~~~~K 25 (50)
T PF12606_consen 9 IFIVMGLLGLSICTTLK 25 (50)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 34444444444444443
No 164
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=28.95 E-value=89 Score=25.50 Aligned_cols=21 Identities=38% Similarity=0.605 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 042083 48 LLIIIILAIIFFVSGLLHLLV 68 (494)
Q Consensus 48 LiIIIIL~iIffV~~LL~llv 68 (494)
.+.++.+.++|+++.+|.+++
T Consensus 6 ~i~i~Gm~iVF~~L~lL~~~i 26 (79)
T PF04277_consen 6 QIMIIGMGIVFLVLILLILVI 26 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444443333333
No 165
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=28.01 E-value=20 Score=38.95 Aligned_cols=50 Identities=22% Similarity=0.514 Sum_probs=0.0
Q ss_pred CCCCcccccccC-------------CCC---ceeecCCCCCcccHHHHHHHHhc---------CCCCCcccCCCCC
Q 042083 125 PFDCAVCLCEFE-------------PED---KLRLLPKCSHAFHMECIDTWLLS---------HSTCPLCRASLLP 175 (494)
Q Consensus 125 ~~~CaICLeef~-------------~~d---~vr~LP~C~H~FH~~CI~~WL~~---------~~tCPlCR~~l~~ 175 (494)
..+|++|+..-. .+. .....| |||+--.....-|-+. +..||.|-.+|..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 568999997621 111 223566 9999999999999753 3469999887764
No 166
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=27.46 E-value=40 Score=22.93 Aligned_cols=29 Identities=24% Similarity=0.481 Sum_probs=10.5
Q ss_pred CCcccccccCCCCceeecCCCCCcccHHHH
Q 042083 127 DCAVCLCEFEPEDKLRLLPKCSHAFHMECI 156 (494)
Q Consensus 127 ~CaICLeef~~~d~vr~LP~C~H~FH~~CI 156 (494)
.|.+|.+....+-.-.-. .|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~-~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCS-ECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-T-TT-----HHHH
T ss_pred cCCcCCCcCCCCceEECc-cCCCccChhcC
Confidence 588898887652333344 49999999996
No 167
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=26.58 E-value=61 Score=27.97 Aligned_cols=33 Identities=27% Similarity=0.553 Sum_probs=21.9
Q ss_pred CCCCCcccccccCCCCcee-ecCCCCCcccHHHHHH
Q 042083 124 NPFDCAVCLCEFEPEDKLR-LLPKCSHAFHMECIDT 158 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr-~LP~C~H~FH~~CI~~ 158 (494)
....|.||.... |..+. .-+.|...||..|...
T Consensus 54 ~~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSG--GACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHH
Confidence 355899999872 22222 1224888999999865
No 168
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=26.47 E-value=54 Score=33.79 Aligned_cols=18 Identities=17% Similarity=0.073 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHhhCCCC
Q 042083 59 FVSGLLHLLVRFLLRPTN 76 (494)
Q Consensus 59 fV~~LL~llvr~llRr~~ 76 (494)
.+++++.++.+++.|||.
T Consensus 282 a~lvlivLiaYli~Rrr~ 299 (306)
T PF01299_consen 282 AGLVLIVLIAYLIGRRRS 299 (306)
T ss_pred HHHHHHHHHhheeEeccc
Confidence 333333444444445443
No 169
>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=26.44 E-value=84 Score=25.38 Aligned_cols=46 Identities=24% Similarity=0.670 Sum_probs=32.6
Q ss_pred CCcccccccCCCC-ceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCC
Q 042083 127 DCAVCLCEFEPED-KLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLP 175 (494)
Q Consensus 127 ~CaICLeef~~~d-~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~ 175 (494)
.|-.|-.++..+. ..++.. =..-|+..|.+.-| +..||.|-..|..
T Consensus 7 nCE~C~~dLp~~s~~A~ICS-fECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICS-FECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEe-EeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 5778888887665 233321 23569999999965 7889999877654
No 170
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=26.19 E-value=45 Score=34.93 Aligned_cols=26 Identities=23% Similarity=0.391 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCC
Q 042083 51 IIILAIIFFVSGLLHLLVRFLLRPTN 76 (494)
Q Consensus 51 IIIL~iIffV~~LL~llvr~llRr~~ 76 (494)
|+..+++++|++++++++++++|.||
T Consensus 258 I~aSiiaIliIVLIMvIIYLILRYRR 283 (299)
T PF02009_consen 258 IIASIIAILIIVLIMVIIYLILRYRR 283 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445555666667777777554
No 171
>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=25.76 E-value=44 Score=25.11 Aligned_cols=39 Identities=23% Similarity=0.404 Sum_probs=25.8
Q ss_pred CcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCC
Q 042083 128 CAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPD 176 (494)
Q Consensus 128 CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~ 176 (494)
|+-|-+.+...+.+... -+..||..| ..|-.|+..|...
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~C--------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPEC--------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTT--------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEccc--------cccCCCCCccCCC
Confidence 67777777755544322 577888766 4588888777554
No 172
>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=25.71 E-value=30 Score=27.44 Aligned_cols=35 Identities=14% Similarity=0.370 Sum_probs=17.7
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHH
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDT 158 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~ 158 (494)
+...|.+|...|..-..-.....||++|+..|...
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 34589999999975444444445999999888654
No 173
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=25.17 E-value=55 Score=24.80 Aligned_cols=35 Identities=17% Similarity=0.381 Sum_probs=24.4
Q ss_pred CCCcccccccCCCCceeecCCCCCcccHHHHHHHH
Q 042083 126 FDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWL 160 (494)
Q Consensus 126 ~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL 160 (494)
..|.+|-..|..-..-.....||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46999988887644333444589999988876543
No 174
>PF07219 HemY_N: HemY protein N-terminus; InterPro: IPR010817 This entry represents the N terminus (approximately 150 residues) of bacterial HemY porphyrin biosynthesis proteins. These are membrane protein involved in a late step of protoheme IX synthesis [].
Probab=25.00 E-value=89 Score=27.28 Aligned_cols=32 Identities=34% Similarity=0.551 Sum_probs=16.1
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 042083 42 KVSPSILLIIIILAIIFFVSGLLHLLVRFLLR 73 (494)
Q Consensus 42 ~isPSILiIIIIL~iIffV~~LL~llvr~llR 73 (494)
.|-.++++.++++++.++++.++..+++.+.+
T Consensus 11 ~ie~sl~~~~~~l~~~~~~l~ll~~ll~~~~~ 42 (108)
T PF07219_consen 11 RIETSLWVALILLLLLFVVLYLLLRLLRRLLS 42 (108)
T ss_pred EEEeeHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444555555555555555455555555443
No 175
>PF06679 DUF1180: Protein of unknown function (DUF1180); InterPro: IPR009565 This entry consists of several hypothetical eukaryotic proteins thought to be membrane proteins. Their function is unknown.
Probab=24.97 E-value=1.6e+02 Score=28.32 Aligned_cols=24 Identities=13% Similarity=0.192 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 042083 48 LLIIIILAIIFFVSGLLHLLVRFL 71 (494)
Q Consensus 48 LiIIIIL~iIffV~~LL~llvr~l 71 (494)
+.-.+++++.|..+++++|++|.+
T Consensus 94 l~R~~~Vl~g~s~l~i~yfvir~~ 117 (163)
T PF06679_consen 94 LKRALYVLVGLSALAILYFVIRTF 117 (163)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHH
Confidence 444444555555555556666644
No 176
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=24.76 E-value=41 Score=39.32 Aligned_cols=45 Identities=29% Similarity=0.685 Sum_probs=28.5
Q ss_pred CCCCcccccccC----CCC-----ceeecCCCCCcccHHHHHHHHhcCCCCCcccCCC
Q 042083 125 PFDCAVCLCEFE----PED-----KLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASL 173 (494)
Q Consensus 125 ~~~CaICLeef~----~~d-----~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l 173 (494)
+..|+-|.-.|. .|. ..-+.|.|+|.-|.+=|.+ ...||+|...+
T Consensus 1131 ~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1131 DLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred CCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 345666666652 111 2235667999998866544 67899997654
No 177
>PRK09458 pspB phage shock protein B; Provisional
Probab=24.39 E-value=1.7e+02 Score=24.92 Aligned_cols=9 Identities=11% Similarity=0.313 Sum_probs=3.5
Q ss_pred HHHHHHhhC
Q 042083 65 HLLVRFLLR 73 (494)
Q Consensus 65 ~llvr~llR 73 (494)
.++..|..+
T Consensus 21 WL~LHY~sk 29 (75)
T PRK09458 21 WLWLHYRSK 29 (75)
T ss_pred HHHHhhccc
Confidence 333344333
No 178
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=24.33 E-value=27 Score=43.50 Aligned_cols=49 Identities=31% Similarity=0.509 Sum_probs=39.7
Q ss_pred CCCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCC----CCCcccCCC
Q 042083 124 NPFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHS----TCPLCRASL 173 (494)
Q Consensus 124 ~~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~----tCPlCR~~l 173 (494)
....|-||+......+.+...- |.-.||..|+..-+..-. .||-||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 4557999999988766776665 999999999999886533 699998765
No 179
>PLN02189 cellulose synthase
Probab=24.32 E-value=64 Score=39.10 Aligned_cols=51 Identities=18% Similarity=0.363 Sum_probs=36.1
Q ss_pred CCCCcccccccC---CCCceeecCCCCCcccHHHHHHHHh-cCCCCCcccCCCCC
Q 042083 125 PFDCAVCLCEFE---PEDKLRLLPKCSHAFHMECIDTWLL-SHSTCPLCRASLLP 175 (494)
Q Consensus 125 ~~~CaICLeef~---~~d~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlCR~~l~~ 175 (494)
...|.||-+++. +++.-.-...|+--.|..|.+-=-+ .++.||.|++....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 348999999974 4444444445888899999854222 36789999987763
No 180
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=24.31 E-value=3.4e+02 Score=22.07 Aligned_cols=13 Identities=31% Similarity=0.496 Sum_probs=6.5
Q ss_pred HHHHHhhCCCCCC
Q 042083 66 LLVRFLLRPTNRD 78 (494)
Q Consensus 66 llvr~llRr~~r~ 78 (494)
+++|.+.....+.
T Consensus 25 l~IRri~~~s~~k 37 (58)
T PF13314_consen 25 LFIRRILINSNAK 37 (58)
T ss_pred HHHHHHHHhcccc
Confidence 4556655544433
No 181
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=22.55 E-value=1.1e+02 Score=26.27 Aligned_cols=52 Identities=15% Similarity=0.361 Sum_probs=21.2
Q ss_pred CCCCCcccccccC---CCCceeecCCCCCcccHHHHHHHHh-cCCCCCcccCCCCC
Q 042083 124 NPFDCAVCLCEFE---PEDKLRLLPKCSHAFHMECIDTWLL-SHSTCPLCRASLLP 175 (494)
Q Consensus 124 ~~~~CaICLeef~---~~d~vr~LP~C~H~FH~~CI~~WL~-~~~tCPlCR~~l~~ 175 (494)
+...|.||-+++- .++.......|+--.+..|..-=.+ .++.||-|+.....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 3458999999873 3343333334888889999876544 47789999976543
No 182
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=22.18 E-value=30 Score=36.28 Aligned_cols=43 Identities=21% Similarity=0.576 Sum_probs=35.1
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCCCCCCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRASLLPDF 177 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~l~~~~ 177 (494)
...|+-|.+-+.+.+.||.- -.|+||.+|. .|-+|+..|...+
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF--------~C~iC~R~L~TGd 134 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCF--------ACFICKRQLATGD 134 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhh--------hhHhhhcccccCC
Confidence 45799999999887777775 6899999995 4999988886653
No 183
>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=22.09 E-value=15 Score=28.24 Aligned_cols=39 Identities=23% Similarity=0.536 Sum_probs=20.4
Q ss_pred CCCCcccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCCcccCC
Q 042083 125 PFDCAVCLCEFEPEDKLRLLPKCSHAFHMECIDTWLLSHSTCPLCRAS 172 (494)
Q Consensus 125 ~~~CaICLeef~~~d~vr~LP~C~H~FH~~CI~~WL~~~~tCPlCR~~ 172 (494)
.+.|+.|-+.|.. ..| +.|+.-...-+ ...-.||+|...
T Consensus 2 ~f~CP~C~~~~~~----~~L--~~H~~~~H~~~---~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSE----SSL--VEHCEDEHRSE---SKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCH----HHH--HHHHHhHCcCC---CCCccCCCchhh
Confidence 4689999986543 122 33332111111 124569999753
No 184
>PHA03030 hypothetical protein; Provisional
Probab=22.07 E-value=53 Score=29.57 Aligned_cols=16 Identities=19% Similarity=0.538 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHhhC
Q 042083 58 FFVSGLLHLLVRFLLR 73 (494)
Q Consensus 58 ffV~~LL~llvr~llR 73 (494)
+|+++++++|++.+.|
T Consensus 11 lfifl~iffYI~~IkR 26 (122)
T PHA03030 11 LFIFLFIFFYIRIIKR 26 (122)
T ss_pred HHHHHHHHHHheeeec
Confidence 3333444455554444
No 185
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=22.00 E-value=1.2e+02 Score=29.87 Aligned_cols=9 Identities=22% Similarity=0.689 Sum_probs=3.8
Q ss_pred HHHHHHHHh
Q 042083 63 LLHLLVRFL 71 (494)
Q Consensus 63 LL~llvr~l 71 (494)
+++++++|+
T Consensus 176 I~ff~~KF~ 184 (186)
T PF05283_consen 176 IIFFLYKFC 184 (186)
T ss_pred HHHHHhhhc
Confidence 333444543
No 186
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=21.76 E-value=1.3e+02 Score=23.64 Aligned_cols=27 Identities=33% Similarity=0.360 Sum_probs=12.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHH
Q 042083 44 SPSILLIIIILAIIFFVSGLLHLLVRF 70 (494)
Q Consensus 44 sPSILiIIIIL~iIffV~~LL~llvr~ 70 (494)
.|-.+++++.+++.+++..++.+..++
T Consensus 18 ~pl~l~il~~f~~G~llg~l~~~~~~~ 44 (68)
T PF06305_consen 18 LPLGLLILIAFLLGALLGWLLSLPSRL 44 (68)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444443
No 187
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=21.30 E-value=55 Score=27.22 Aligned_cols=13 Identities=23% Similarity=0.833 Sum_probs=9.2
Q ss_pred cccHHHHHHHHhc
Q 042083 150 AFHMECIDTWLLS 162 (494)
Q Consensus 150 ~FH~~CI~~WL~~ 162 (494)
.||..|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999863
No 188
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=21.23 E-value=32 Score=37.43 Aligned_cols=26 Identities=38% Similarity=0.899 Sum_probs=0.0
Q ss_pred ecCCCCCcccHHHHHHHHh------cCCCCCcccCC
Q 042083 143 LLPKCSHAFHMECIDTWLL------SHSTCPLCRAS 172 (494)
Q Consensus 143 ~LP~C~H~FH~~CI~~WL~------~~~tCPlCR~~ 172 (494)
.| +|||++.. ..|-. ...+||+||..
T Consensus 306 Yl-~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 306 YL-NCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ------------------------------------
T ss_pred ec-cccceeee---cccccccccccccccCCCcccc
Confidence 45 49998764 34653 24579999874
No 189
>PF12877 DUF3827: Domain of unknown function (DUF3827); InterPro: IPR024606 The function of the proteins in this entry is not currently known, but one of the human proteins (Q9HCM3 from SWISSPROT) has been implicated in pilocytic astrocytomas [, , ]. In the majority of cases of pilocytic astrocytomas a tandem duplication produces an in-frame fusion of the gene encoding this protein and the BRAF oncogene. The resulting fusion protein has constitutive BRAF kinase activity and is capable of transforming cells.
Probab=21.05 E-value=84 Score=36.29 Aligned_cols=27 Identities=22% Similarity=0.228 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCC
Q 042083 48 LLIIIILAIIFFVSGLLHLLVRFLLRP 74 (494)
Q Consensus 48 LiIIIIL~iIffV~~LL~llvr~llRr 74 (494)
|||+.+++-+++|++|+.++++.++|.
T Consensus 270 WII~gVlvPv~vV~~Iiiil~~~LCRk 296 (684)
T PF12877_consen 270 WIIAGVLVPVLVVLLIIIILYWKLCRK 296 (684)
T ss_pred EEEehHhHHHHHHHHHHHHHHHHHhcc
Confidence 444444444444444444444445553
No 190
>PF07010 Endomucin: Endomucin; InterPro: IPR010740 This family consists of several mammalian endomucin proteins. Endomucin is an early endothelial-specific antigen that is also expressed on putative hematopoietic progenitor cells.
Probab=20.78 E-value=1.1e+02 Score=31.20 Aligned_cols=10 Identities=30% Similarity=0.245 Sum_probs=4.2
Q ss_pred HHHHHHHhhC
Q 042083 64 LHLLVRFLLR 73 (494)
Q Consensus 64 L~llvr~llR 73 (494)
|.-|+|.+++
T Consensus 207 LvgLyr~C~k 216 (259)
T PF07010_consen 207 LVGLYRMCWK 216 (259)
T ss_pred HHHHHHHhhc
Confidence 3334444444
No 191
>PHA02650 hypothetical protein; Provisional
Probab=20.47 E-value=2.9e+02 Score=23.82 Aligned_cols=11 Identities=9% Similarity=0.141 Sum_probs=4.7
Q ss_pred HHHHHHHHhhC
Q 042083 63 LLHLLVRFLLR 73 (494)
Q Consensus 63 LL~llvr~llR 73 (494)
++++|.+...|
T Consensus 65 ~~flYLK~~~r 75 (81)
T PHA02650 65 FSFFVFKGYTR 75 (81)
T ss_pred HHHHHHHHhcc
Confidence 33444444444
Done!