Query 045417
Match_columns 184
No_of_seqs 216 out of 1826
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 13:02:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045417.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045417hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.8 1.5E-21 3.3E-26 164.5 7.6 76 103-182 203-279 (348)
2 PF13639 zf-RING_2: Ring finge 99.7 1.6E-17 3.6E-22 101.1 1.9 44 133-177 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.5 7.7E-15 1.7E-19 118.9 5.0 77 104-181 147-227 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.5 6.2E-15 1.3E-19 99.2 3.3 52 125-177 12-73 (73)
5 COG5540 RING-finger-containing 99.5 4E-14 8.6E-19 116.5 3.6 52 130-182 321-373 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.3 6.6E-13 1.4E-17 112.0 3.1 69 107-181 267-345 (491)
7 KOG0317 Predicted E3 ubiquitin 99.2 5.1E-12 1.1E-16 103.6 3.7 51 129-183 236-286 (293)
8 cd00162 RING RING-finger (Real 99.2 1.4E-11 3E-16 73.8 3.7 44 134-180 1-45 (45)
9 PF13920 zf-C3HC4_3: Zinc fing 99.2 1.6E-11 3.4E-16 76.5 3.4 46 132-181 2-48 (50)
10 PLN03208 E3 ubiquitin-protein 99.2 2.3E-11 4.9E-16 95.4 4.5 49 130-182 16-80 (193)
11 KOG0320 Predicted E3 ubiquitin 99.2 2.3E-11 5E-16 93.4 3.5 51 130-182 129-179 (187)
12 PF13923 zf-C3HC4_2: Zinc fing 99.1 4E-11 8.6E-16 70.9 3.1 39 135-176 1-39 (39)
13 PF12861 zf-Apc11: Anaphase-pr 99.1 3.6E-11 7.8E-16 82.3 3.1 52 131-182 20-83 (85)
14 KOG0823 Predicted E3 ubiquitin 99.1 1.1E-10 2.4E-15 93.1 3.5 50 129-182 44-96 (230)
15 PHA02926 zinc finger-like prot 99.0 1.5E-10 3.2E-15 92.1 3.5 51 131-181 169-230 (242)
16 PF14634 zf-RING_5: zinc-RING 99.0 2.1E-10 4.6E-15 69.6 3.3 44 134-178 1-44 (44)
17 COG5194 APC11 Component of SCF 99.0 2.3E-10 4.9E-15 76.7 2.8 50 132-181 20-81 (88)
18 KOG0802 E3 ubiquitin ligase [P 99.0 1.6E-10 3.5E-15 104.4 2.4 51 130-181 289-341 (543)
19 PF00097 zf-C3HC4: Zinc finger 99.0 4.1E-10 9E-15 67.0 2.5 39 135-176 1-41 (41)
20 smart00184 RING Ring finger. E 98.9 1.2E-09 2.6E-14 63.0 3.2 38 135-176 1-39 (39)
21 smart00504 Ubox Modified RING 98.8 3.6E-09 7.8E-14 68.5 4.3 46 133-182 2-47 (63)
22 KOG1493 Anaphase-promoting com 98.8 4.6E-10 9.9E-15 74.7 -0.3 52 130-181 18-81 (84)
23 PF15227 zf-C3HC4_4: zinc fing 98.8 2.1E-09 4.5E-14 64.6 2.0 38 135-176 1-42 (42)
24 KOG1734 Predicted RING-contain 98.8 1E-09 2.2E-14 89.4 0.5 53 129-182 221-282 (328)
25 KOG2930 SCF ubiquitin ligase, 98.8 1.3E-09 2.8E-14 76.6 0.7 67 115-181 29-108 (114)
26 TIGR00599 rad18 DNA repair pro 98.7 2.2E-08 4.7E-13 86.9 4.2 49 130-182 24-72 (397)
27 COG5574 PEX10 RING-finger-cont 98.6 1.9E-08 4.2E-13 81.8 2.5 50 130-183 213-264 (271)
28 KOG0828 Predicted E3 ubiquitin 98.5 3.8E-08 8.2E-13 86.1 1.9 52 131-182 570-635 (636)
29 smart00744 RINGv The RING-vari 98.5 9.5E-08 2E-12 59.3 3.0 42 134-177 1-49 (49)
30 PF11793 FANCL_C: FANCL C-term 98.4 3.5E-08 7.6E-13 65.8 0.0 50 132-181 2-66 (70)
31 KOG2164 Predicted E3 ubiquitin 98.4 1.9E-07 4.1E-12 82.2 3.1 47 132-182 186-237 (513)
32 PF13445 zf-RING_UBOX: RING-ty 98.4 2.9E-07 6.4E-12 55.4 2.8 38 135-174 1-43 (43)
33 COG5219 Uncharacterized conser 98.3 1.6E-07 3.4E-12 87.6 0.6 52 130-181 1467-1523(1525)
34 KOG0804 Cytoplasmic Zn-finger 98.3 2.7E-07 5.8E-12 80.1 1.8 49 131-182 174-223 (493)
35 KOG2177 Predicted E3 ubiquitin 98.3 3.3E-07 7.2E-12 74.6 2.0 45 130-178 11-55 (386)
36 KOG4265 Predicted E3 ubiquitin 98.3 5.1E-07 1.1E-11 76.4 2.5 48 130-181 288-336 (349)
37 COG5432 RAD18 RING-finger-cont 98.2 9.1E-07 2E-11 73.1 2.0 46 131-180 24-69 (391)
38 PF04564 U-box: U-box domain; 98.1 1.5E-06 3.3E-11 58.2 2.1 48 131-182 3-51 (73)
39 KOG0287 Postreplication repair 98.1 7.5E-07 1.6E-11 75.0 0.6 49 130-182 21-69 (442)
40 KOG1039 Predicted E3 ubiquitin 97.9 6.4E-06 1.4E-10 70.4 2.2 50 131-180 160-220 (344)
41 KOG3970 Predicted E3 ubiquitin 97.9 1.2E-05 2.5E-10 64.5 3.3 51 131-183 49-107 (299)
42 KOG0825 PHD Zn-finger protein 97.8 3E-06 6.6E-11 77.9 -0.3 50 131-181 122-171 (1134)
43 PF14835 zf-RING_6: zf-RING of 97.8 4.6E-06 1E-10 54.1 -0.1 44 132-180 7-50 (65)
44 KOG0311 Predicted E3 ubiquitin 97.7 3.3E-06 7.2E-11 71.5 -1.9 49 131-182 42-91 (381)
45 KOG4172 Predicted E3 ubiquitin 97.6 1.3E-05 2.9E-10 50.1 0.4 44 133-180 8-53 (62)
46 KOG4445 Uncharacterized conser 97.6 1.8E-05 3.8E-10 65.8 1.0 50 131-181 114-186 (368)
47 KOG0978 E3 ubiquitin ligase in 97.5 3.7E-05 8E-10 70.8 1.4 48 131-182 642-690 (698)
48 KOG0297 TNF receptor-associate 97.5 5.7E-05 1.2E-09 65.9 2.4 49 131-182 20-68 (391)
49 KOG1785 Tyrosine kinase negati 97.4 5.5E-05 1.2E-09 65.2 0.9 44 134-181 371-416 (563)
50 PF05883 Baculo_RING: Baculovi 97.3 7.3E-05 1.6E-09 55.5 1.0 36 131-167 25-66 (134)
51 KOG1941 Acetylcholine receptor 97.3 6.8E-05 1.5E-09 64.5 0.8 47 131-178 364-413 (518)
52 PF11789 zf-Nse: Zinc-finger o 97.3 7.8E-05 1.7E-09 47.6 0.9 42 131-175 10-53 (57)
53 KOG4159 Predicted E3 ubiquitin 97.2 0.00029 6.2E-09 61.5 3.6 49 130-182 82-130 (398)
54 KOG0801 Predicted E3 ubiquitin 97.1 0.00013 2.9E-09 55.7 0.2 30 130-160 175-204 (205)
55 KOG0826 Predicted E3 ubiquitin 97.0 0.001 2.2E-08 56.1 4.9 46 130-178 298-343 (357)
56 KOG1428 Inhibitor of type V ad 97.0 0.00044 9.4E-09 67.8 2.6 52 129-181 3483-3544(3738)
57 PF12906 RINGv: RING-variant d 97.0 0.00064 1.4E-08 41.6 2.3 41 135-176 1-47 (47)
58 KOG1952 Transcription factor N 96.9 0.00031 6.8E-09 65.5 1.0 50 129-178 188-244 (950)
59 KOG2879 Predicted E3 ubiquitin 96.7 0.0015 3.3E-08 53.8 3.4 53 126-181 233-287 (298)
60 PF14570 zf-RING_4: RING/Ubox 96.7 0.0018 4E-08 39.7 2.7 45 135-180 1-47 (48)
61 PHA02862 5L protein; Provision 96.6 0.0012 2.6E-08 49.6 1.9 47 133-181 3-53 (156)
62 PHA02825 LAP/PHD finger-like p 96.6 0.0022 4.8E-08 48.9 3.3 46 131-180 7-58 (162)
63 KOG2660 Locus-specific chromos 96.6 0.00065 1.4E-08 57.3 0.3 50 130-182 13-62 (331)
64 KOG1002 Nucleotide excision re 96.5 0.001 2.3E-08 59.4 1.5 49 129-181 533-586 (791)
65 KOG1814 Predicted E3 ubiquitin 96.4 0.0023 5E-08 55.5 2.7 47 131-178 183-237 (445)
66 PF10367 Vps39_2: Vacuolar sor 96.4 0.0016 3.5E-08 46.0 1.4 32 131-164 77-108 (109)
67 PHA03096 p28-like protein; Pro 96.4 0.0019 4.1E-08 54.1 1.9 46 133-178 179-231 (284)
68 KOG1571 Predicted E3 ubiquitin 96.2 0.0026 5.7E-08 54.3 1.9 44 131-181 304-347 (355)
69 KOG3039 Uncharacterized conser 96.1 0.006 1.3E-07 49.8 3.5 52 131-182 220-271 (303)
70 COG5152 Uncharacterized conser 96.0 0.0036 7.7E-08 49.5 1.9 44 132-179 196-239 (259)
71 KOG0827 Predicted E3 ubiquitin 96.0 0.00037 8.1E-09 59.9 -3.9 51 131-182 195-246 (465)
72 PF08746 zf-RING-like: RING-li 96.0 0.0052 1.1E-07 36.8 1.9 41 135-176 1-43 (43)
73 KOG2114 Vacuolar assembly/sort 95.6 0.0054 1.2E-07 57.5 1.5 42 133-180 841-882 (933)
74 KOG3268 Predicted E3 ubiquitin 95.5 0.011 2.4E-07 46.0 2.6 30 153-182 189-229 (234)
75 KOG4692 Predicted E3 ubiquitin 95.5 0.012 2.6E-07 50.4 3.0 50 128-181 418-467 (489)
76 COG5222 Uncharacterized conser 95.5 0.0094 2E-07 50.0 2.3 45 133-180 275-321 (427)
77 PF04641 Rtf2: Rtf2 RING-finge 95.2 0.027 5.7E-07 46.6 4.1 52 129-181 110-161 (260)
78 KOG1813 Predicted E3 ubiquitin 94.8 0.015 3.3E-07 48.5 1.6 46 132-181 241-286 (313)
79 PF14447 Prok-RING_4: Prokaryo 94.7 0.016 3.5E-07 36.4 1.3 33 147-182 19-51 (55)
80 COG5175 MOT2 Transcriptional r 94.7 0.024 5.3E-07 48.3 2.6 52 131-182 13-65 (480)
81 KOG4275 Predicted E3 ubiquitin 94.6 0.0061 1.3E-07 50.8 -1.0 41 132-180 300-341 (350)
82 KOG1940 Zn-finger protein [Gen 94.4 0.024 5.2E-07 47.2 2.0 47 131-178 157-204 (276)
83 COG5236 Uncharacterized conser 94.3 0.057 1.2E-06 46.2 4.0 64 111-180 42-107 (493)
84 PF14446 Prok-RING_1: Prokaryo 94.1 0.075 1.6E-06 33.4 3.2 41 131-175 4-44 (54)
85 PF10272 Tmpp129: Putative tra 93.5 0.062 1.3E-06 46.4 2.9 26 154-179 311-349 (358)
86 KOG0298 DEAD box-containing he 93.3 0.024 5.3E-07 55.5 0.1 45 131-178 1152-1196(1394)
87 KOG0309 Conserved WD40 repeat- 92.8 0.065 1.4E-06 50.1 2.0 41 134-175 1020-1069(1081)
88 KOG2932 E3 ubiquitin ligase in 92.8 0.042 9E-07 46.4 0.7 42 134-180 92-133 (389)
89 KOG1001 Helicase-like transcri 92.7 0.044 9.5E-07 51.2 0.9 44 133-181 455-500 (674)
90 KOG2034 Vacuolar sorting prote 92.5 0.056 1.2E-06 51.2 1.2 35 131-167 816-850 (911)
91 PF07800 DUF1644: Protein of u 91.7 0.22 4.7E-06 38.2 3.4 35 132-167 2-46 (162)
92 PF03854 zf-P11: P-11 zinc fin 91.0 0.084 1.8E-06 32.2 0.5 43 134-182 4-47 (50)
93 KOG1609 Protein involved in mR 90.6 0.15 3.2E-06 42.6 1.8 48 132-180 78-133 (323)
94 COG5183 SSM4 Protein involved 90.3 0.23 4.9E-06 47.0 2.8 52 130-181 10-66 (1175)
95 KOG3161 Predicted E3 ubiquitin 90.3 0.093 2E-06 48.3 0.3 44 132-178 11-54 (861)
96 KOG3002 Zn finger protein [Gen 90.2 0.21 4.6E-06 42.2 2.4 45 131-181 47-91 (299)
97 KOG2817 Predicted E3 ubiquitin 89.7 0.3 6.5E-06 42.5 2.9 47 131-178 333-382 (394)
98 PF01102 Glycophorin_A: Glycop 89.7 0.94 2E-05 33.3 5.1 29 55-83 65-93 (122)
99 PF06906 DUF1272: Protein of u 89.5 0.56 1.2E-05 29.6 3.3 46 134-184 7-55 (57)
100 KOG1100 Predicted E3 ubiquitin 89.1 0.25 5.4E-06 39.6 1.9 39 135-181 161-200 (207)
101 KOG1812 Predicted E3 ubiquitin 87.5 0.25 5.4E-06 43.2 1.0 37 131-168 145-182 (384)
102 PF02439 Adeno_E3_CR2: Adenovi 86.1 2.4 5.1E-05 24.6 4.2 24 56-79 5-28 (38)
103 PF13901 DUF4206: Domain of un 86.0 0.61 1.3E-05 37.1 2.4 41 131-177 151-196 (202)
104 KOG3899 Uncharacterized conser 86.0 0.44 9.5E-06 40.1 1.6 27 154-180 325-364 (381)
105 KOG0802 E3 ubiquitin ligase [P 85.7 0.39 8.4E-06 43.8 1.3 47 127-181 474-520 (543)
106 KOG3053 Uncharacterized conser 85.5 0.38 8.3E-06 39.6 1.1 49 131-180 19-81 (293)
107 COG5220 TFB3 Cdk activating ki 85.3 0.34 7.4E-06 39.6 0.7 47 131-177 9-60 (314)
108 PF05290 Baculo_IE-1: Baculovi 85.3 0.73 1.6E-05 34.3 2.4 50 131-180 79-131 (140)
109 smart00132 LIM Zinc-binding do 84.7 1 2.2E-05 25.0 2.4 38 134-181 1-38 (39)
110 PF01708 Gemini_mov: Geminivir 84.3 2 4.4E-05 29.7 4.0 37 47-83 28-64 (91)
111 KOG0825 PHD Zn-finger protein 84.1 0.73 1.6E-05 43.6 2.3 50 131-180 95-153 (1134)
112 KOG0269 WD40 repeat-containing 82.1 1.2 2.6E-05 41.9 2.9 40 134-175 781-820 (839)
113 KOG4362 Transcriptional regula 81.9 0.39 8.5E-06 44.7 -0.3 46 132-181 21-69 (684)
114 PF00412 LIM: LIM domain; Int 81.3 1.2 2.7E-05 27.4 1.9 38 135-182 1-38 (58)
115 PF11023 DUF2614: Protein of u 80.2 8.4 0.00018 27.9 6.0 18 167-184 82-99 (114)
116 PF10571 UPF0547: Uncharacteri 78.6 1.3 2.9E-05 23.5 1.2 23 134-158 2-24 (26)
117 PF07975 C1_4: TFIIH C1-like d 78.6 1.9 4E-05 26.8 2.1 42 135-177 2-50 (51)
118 smart00249 PHD PHD zinc finger 78.6 1.7 3.6E-05 25.0 1.8 31 134-165 1-31 (47)
119 PF02891 zf-MIZ: MIZ/SP-RING z 78.1 1.6 3.5E-05 26.8 1.7 41 133-179 3-50 (50)
120 TIGR00622 ssl1 transcription f 78.0 3.1 6.8E-05 30.1 3.4 70 107-177 31-110 (112)
121 KOG4718 Non-SMC (structural ma 77.8 1.1 2.3E-05 36.0 1.0 42 132-176 181-222 (235)
122 KOG3113 Uncharacterized conser 77.2 2.6 5.6E-05 34.8 3.0 51 130-182 109-159 (293)
123 KOG3005 GIY-YIG type nuclease 75.4 2 4.3E-05 35.7 2.0 50 131-180 181-242 (276)
124 PF00628 PHD: PHD-finger; Int 74.5 1.5 3.4E-05 26.4 0.9 43 135-178 2-50 (51)
125 PF13719 zinc_ribbon_5: zinc-r 73.8 2.1 4.5E-05 24.5 1.3 26 134-159 4-36 (37)
126 KOG1815 Predicted E3 ubiquitin 72.8 2.5 5.5E-05 37.6 2.2 37 130-169 68-104 (444)
127 PF13717 zinc_ribbon_4: zinc-r 71.2 3 6.4E-05 23.8 1.5 26 134-159 4-36 (36)
128 PF01363 FYVE: FYVE zinc finge 70.2 1.9 4.1E-05 27.8 0.6 37 131-167 8-44 (69)
129 KOG1829 Uncharacterized conser 66.7 2 4.4E-05 39.5 0.2 42 131-176 510-556 (580)
130 PHA02849 putative transmembran 66.7 13 0.00028 25.1 4.0 32 50-81 9-40 (82)
131 PF15050 SCIMP: SCIMP protein 66.7 12 0.00027 27.3 4.2 25 52-77 7-31 (133)
132 cd00065 FYVE FYVE domain; Zinc 66.0 5.4 0.00012 24.5 2.1 36 133-168 3-38 (57)
133 PF15102 TMEM154: TMEM154 prot 64.8 4.3 9.4E-05 30.7 1.7 6 163-168 130-135 (146)
134 smart00064 FYVE Protein presen 64.3 6.8 0.00015 25.0 2.4 38 131-168 9-46 (68)
135 KOG3842 Adaptor protein Pellin 64.0 9.2 0.0002 32.7 3.6 54 128-182 337-415 (429)
136 KOG2066 Vacuolar assembly/sort 63.6 2.7 5.8E-05 39.9 0.4 42 133-176 785-830 (846)
137 KOG2068 MOT2 transcription fac 62.0 7 0.00015 33.4 2.6 48 133-180 250-297 (327)
138 COG5109 Uncharacterized conser 60.8 43 0.00093 28.8 7.0 46 131-177 335-383 (396)
139 KOG2807 RNA polymerase II tran 58.7 12 0.00026 32.2 3.4 70 107-178 306-375 (378)
140 KOG1812 Predicted E3 ubiquitin 58.5 4.9 0.00011 35.2 1.1 46 131-176 305-351 (384)
141 PF12877 DUF3827: Domain of un 58.4 7 0.00015 36.4 2.1 18 49-66 265-282 (684)
142 KOG2071 mRNA cleavage and poly 57.5 5.1 0.00011 36.8 1.1 36 130-167 511-557 (579)
143 KOG2041 WD40 repeat protein [G 57.1 6.5 0.00014 37.3 1.7 50 128-181 1127-1185(1189)
144 PF02060 ISK_Channel: Slow vol 56.3 17 0.00037 26.8 3.5 27 57-83 45-71 (129)
145 PF06750 DiS_P_DiS: Bacterial 54.8 20 0.00043 24.8 3.5 39 131-182 32-70 (92)
146 PF02038 ATP1G1_PLM_MAT8: ATP1 54.8 10 0.00023 23.3 1.8 28 56-83 13-40 (50)
147 PF08374 Protocadherin: Protoc 54.3 9 0.00019 30.9 1.9 33 51-85 35-67 (221)
148 PF01102 Glycophorin_A: Glycop 53.6 7.6 0.00016 28.5 1.3 31 57-87 63-93 (122)
149 cd00350 rubredoxin_like Rubred 53.2 7.7 0.00017 21.5 1.0 9 170-178 17-25 (33)
150 PF06844 DUF1244: Protein of u 53.0 8.8 0.00019 25.1 1.3 11 158-168 12-22 (68)
151 PHA02902 putative IMV membrane 52.6 62 0.0014 21.0 5.9 15 66-80 13-27 (70)
152 PF07649 C1_3: C1-like domain; 52.2 13 0.00029 19.9 1.8 29 134-163 2-30 (30)
153 PF03229 Alpha_GJ: Alphavirus 51.0 35 0.00077 24.8 4.3 33 53-85 82-115 (126)
154 PRK05978 hypothetical protein; 50.9 10 0.00022 28.8 1.6 23 156-183 43-65 (148)
155 PF14311 DUF4379: Domain of un 50.8 11 0.00024 23.2 1.6 23 153-176 33-55 (55)
156 PF04423 Rad50_zn_hook: Rad50 50.3 4.7 0.0001 24.9 -0.2 12 171-182 21-32 (54)
157 PF04710 Pellino: Pellino; In 50.3 4.8 0.0001 35.3 -0.3 66 110-179 255-337 (416)
158 PF07010 Endomucin: Endomucin; 50.1 1E+02 0.0022 25.2 7.2 8 77-84 210-217 (259)
159 PF14979 TMEM52: Transmembrane 50.1 70 0.0015 24.3 5.9 21 66-86 30-50 (154)
160 PF04710 Pellino: Pellino; In 49.3 5.6 0.00012 34.9 0.0 50 132-182 328-402 (416)
161 KOG4577 Transcription factor L 49.0 4.2 9E-05 34.3 -0.8 40 132-181 92-131 (383)
162 PRK09458 pspB phage shock prot 48.8 46 0.001 22.3 4.3 10 105-114 34-43 (75)
163 PF13832 zf-HC5HC2H_2: PHD-zin 48.5 14 0.0003 26.0 2.0 34 131-166 54-88 (110)
164 smart00647 IBR In Between Ring 48.5 5 0.00011 25.0 -0.3 21 146-166 38-58 (64)
165 PF05808 Podoplanin: Podoplani 48.4 5.9 0.00013 30.5 0.0 33 50-82 125-157 (162)
166 KOG0824 Predicted E3 ubiquitin 47.0 12 0.00026 31.7 1.6 49 130-181 103-151 (324)
167 PF01299 Lamp: Lysosome-associ 46.1 15 0.00033 30.9 2.2 24 54-77 270-293 (306)
168 PF05510 Sarcoglycan_2: Sarcog 45.9 58 0.0013 28.7 5.7 32 51-82 279-310 (386)
169 PF10497 zf-4CXXC_R1: Zinc-fin 45.4 35 0.00075 24.3 3.6 24 155-178 37-69 (105)
170 PF14569 zf-UDP: Zinc-binding 44.3 39 0.00085 22.8 3.4 50 131-180 8-61 (80)
171 KOG1729 FYVE finger containing 43.6 4.4 9.5E-05 34.1 -1.5 37 133-170 215-251 (288)
172 PF10717 ODV-E18: Occlusion-de 43.6 71 0.0015 21.8 4.6 16 50-65 19-34 (85)
173 PF07406 NICE-3: NICE-3 protei 43.4 12 0.00025 29.6 1.0 17 158-174 124-142 (186)
174 PHA03163 hypothetical protein; 43.2 1.1E+02 0.0024 21.2 5.8 10 34-43 26-35 (92)
175 PF07282 OrfB_Zn_ribbon: Putat 43.2 27 0.00058 22.3 2.5 36 131-166 27-64 (69)
176 PF06679 DUF1180: Protein of u 42.9 71 0.0015 24.6 5.2 10 76-85 112-121 (163)
177 PF09943 DUF2175: Uncharacteri 42.7 17 0.00038 25.7 1.7 34 133-168 3-36 (101)
178 TIGR00540 hemY_coli hemY prote 42.7 25 0.00054 30.6 3.1 13 51-63 37-49 (409)
179 PF14169 YdjO: Cold-inducible 42.5 14 0.00029 23.7 1.0 14 169-182 38-51 (59)
180 PHA02681 ORF089 virion membran 42.5 1.1E+02 0.0024 21.0 5.6 15 104-118 49-63 (92)
181 PLN02189 cellulose synthase 42.2 29 0.00062 34.3 3.5 50 131-180 33-86 (1040)
182 COG4847 Uncharacterized protei 41.4 24 0.00053 24.7 2.2 36 132-169 6-41 (103)
183 KOG1815 Predicted E3 ubiquitin 41.1 8.8 0.00019 34.2 -0.1 39 131-169 225-267 (444)
184 PF05605 zf-Di19: Drought indu 40.8 5.3 0.00012 24.6 -1.1 38 132-180 2-41 (54)
185 PF02009 Rifin_STEVOR: Rifin/s 40.6 43 0.00094 28.4 4.0 10 58-67 260-269 (299)
186 KOG4185 Predicted E3 ubiquitin 40.5 4.5 9.7E-05 33.7 -1.9 47 133-179 208-265 (296)
187 PF12877 DUF3827: Domain of un 40.5 20 0.00044 33.5 2.2 36 50-85 262-297 (684)
188 TIGR02976 phageshock_pspB phag 40.2 89 0.0019 20.9 4.7 7 74-80 20-26 (75)
189 PF04216 FdhE: Protein involve 40.1 3 6.5E-05 34.9 -3.0 48 131-178 171-219 (290)
190 PRK03564 formate dehydrogenase 39.9 13 0.00027 31.7 0.7 47 131-178 186-234 (309)
191 COG3357 Predicted transcriptio 39.3 14 0.00031 25.7 0.8 28 153-184 63-90 (97)
192 PF13908 Shisa: Wnt and FGF in 39.2 24 0.00051 27.2 2.1 19 52-70 77-95 (179)
193 PF09723 Zn-ribbon_8: Zinc rib 39.0 6.5 0.00014 23.1 -0.8 24 153-178 10-34 (42)
194 PF05393 Hum_adeno_E3A: Human 38.9 41 0.00089 23.3 3.0 8 77-84 51-58 (94)
195 PF07010 Endomucin: Endomucin; 38.7 67 0.0015 26.3 4.6 26 55-80 192-217 (259)
196 PF14654 Epiglycanin_C: Mucin, 38.7 91 0.002 22.0 4.7 34 49-83 13-47 (106)
197 KOG3579 Predicted E3 ubiquitin 38.4 22 0.00047 30.1 1.8 40 131-170 267-306 (352)
198 PRK11827 hypothetical protein; 37.1 12 0.00025 24.0 0.1 19 164-182 2-20 (60)
199 COG4357 Zinc finger domain con 36.9 34 0.00073 24.1 2.3 28 154-182 65-92 (105)
200 PF13771 zf-HC5HC2H: PHD-like 36.5 14 0.0003 24.9 0.4 33 131-165 35-68 (90)
201 PF03107 C1_2: C1 domain; Int 36.4 23 0.0005 19.0 1.2 29 134-163 2-30 (30)
202 PF02318 FYVE_2: FYVE-type zin 36.3 22 0.00048 25.6 1.5 47 131-178 53-102 (118)
203 PRK14584 hmsS hemin storage sy 35.7 1.5E+02 0.0033 22.6 5.9 11 105-115 108-118 (153)
204 KOG3653 Transforming growth fa 35.7 2E+02 0.0043 26.4 7.4 14 158-171 289-303 (534)
205 PLN02436 cellulose synthase A 35.7 41 0.0009 33.4 3.5 50 131-180 35-88 (1094)
206 PF06937 EURL: EURL protein; 35.6 34 0.00074 28.6 2.6 42 133-174 31-74 (285)
207 PF07191 zinc-ribbons_6: zinc- 35.4 11 0.00024 24.9 -0.3 39 134-181 3-41 (70)
208 KOG0956 PHD finger protein AF1 35.4 13 0.00027 35.2 0.0 47 132-179 117-180 (900)
209 PRK10747 putative protoheme IX 34.6 47 0.001 28.8 3.4 12 52-63 38-49 (398)
210 KOG3039 Uncharacterized conser 33.4 36 0.00079 28.2 2.4 33 131-167 42-74 (303)
211 KOG4218 Nuclear hormone recept 33.4 13 0.00029 32.2 -0.1 47 131-178 14-75 (475)
212 PF01034 Syndecan: Syndecan do 32.9 17 0.00037 23.6 0.3 12 58-69 13-24 (64)
213 PF13807 GNVR: G-rich domain o 32.8 96 0.0021 20.5 4.1 27 53-79 54-80 (82)
214 PF05656 DUF805: Protein of un 32.8 1.2E+02 0.0026 21.2 4.9 14 72-85 61-74 (120)
215 TIGR01562 FdhE formate dehydro 32.7 13 0.00029 31.6 -0.3 47 131-178 183-232 (305)
216 COG1545 Predicted nucleic-acid 32.4 29 0.00063 25.9 1.6 21 152-180 33-53 (140)
217 PRK13415 flagella biosynthesis 32.2 2.4E+02 0.0052 22.9 6.8 6 139-144 137-142 (219)
218 PF13179 DUF4006: Family of un 31.4 1.1E+02 0.0024 19.9 3.9 23 57-79 16-38 (66)
219 PF14205 Cys_rich_KTR: Cystein 31.3 33 0.00072 21.5 1.4 8 134-141 6-13 (55)
220 PF10083 DUF2321: Uncharacteri 30.9 26 0.00056 26.9 1.1 43 136-181 8-50 (158)
221 PF15345 TMEM51: Transmembrane 30.7 37 0.00079 27.7 2.0 11 54-64 57-67 (233)
222 smart00734 ZnF_Rad18 Rad18-lik 30.5 24 0.00053 18.4 0.6 9 172-180 3-11 (26)
223 COG1622 CyoA Heme/copper-type 30.4 1.2E+02 0.0025 25.0 4.9 7 163-169 216-222 (247)
224 PHA02657 hypothetical protein; 29.6 1.2E+02 0.0026 20.9 4.0 15 49-63 20-34 (95)
225 PTZ00303 phosphatidylinositol 29.6 30 0.00066 33.4 1.5 35 133-167 461-500 (1374)
226 KOG0860 Synaptobrevin/VAMP-lik 29.4 86 0.0019 22.8 3.5 7 53-59 88-94 (116)
227 smart00531 TFIIE Transcription 29.2 42 0.00092 25.1 2.0 39 130-182 97-135 (147)
228 PRK01343 zinc-binding protein; 29.1 37 0.0008 21.5 1.4 11 171-181 10-20 (57)
229 PF15353 HECA: Headcase protei 28.8 36 0.00078 24.3 1.5 13 154-166 40-52 (107)
230 TIGR00686 phnA alkylphosphonat 28.6 29 0.00063 24.9 1.0 26 134-159 4-30 (109)
231 PHA03291 envelope glycoprotein 28.4 57 0.0012 28.4 2.8 30 56-85 288-317 (401)
232 PHA02844 putative transmembran 28.0 1.9E+02 0.0041 19.3 4.7 7 73-79 64-70 (75)
233 PF02480 Herpes_gE: Alphaherpe 27.6 20 0.00044 32.0 0.0 10 56-65 354-363 (439)
234 cd00730 rubredoxin Rubredoxin; 27.2 64 0.0014 19.7 2.2 40 133-179 2-43 (50)
235 COG3492 Uncharacterized protei 27.0 33 0.00072 23.9 1.0 11 158-168 43-53 (104)
236 KOG1538 Uncharacterized conser 26.5 30 0.00065 32.8 0.9 36 146-181 1042-1077(1081)
237 KOG4080 Mitochondrial ribosoma 26.4 24 0.00053 27.3 0.3 10 156-165 106-115 (176)
238 PRK06266 transcription initiat 26.2 90 0.0019 24.3 3.4 15 168-182 134-148 (178)
239 PF05502 Dynactin_p62: Dynacti 26.2 34 0.00075 30.9 1.2 16 131-146 25-40 (483)
240 KOG1245 Chromatin remodeling c 26.1 25 0.00054 36.1 0.3 49 130-179 1106-1158(1404)
241 PLN03207 stomagen; Provisional 26.1 2.1E+02 0.0045 20.3 4.8 8 156-163 103-110 (113)
242 PHA03240 envelope glycoprotein 26.1 75 0.0016 25.8 2.9 20 51-70 212-231 (258)
243 TIGR01478 STEVOR variant surfa 26.1 92 0.002 26.3 3.6 16 71-86 273-288 (295)
244 COG2835 Uncharacterized conser 25.7 30 0.00064 22.2 0.5 10 172-181 10-19 (60)
245 KOG3054 Uncharacterized conser 25.6 1.9E+02 0.0041 24.1 5.2 19 62-80 6-24 (299)
246 COG1592 Rubrerythrin [Energy p 25.5 40 0.00086 26.1 1.3 8 171-178 150-157 (166)
247 PHA02650 hypothetical protein; 25.4 2.2E+02 0.0048 19.3 5.7 7 73-79 65-71 (81)
248 COG5416 Uncharacterized integr 25.0 2.5E+02 0.0055 19.7 5.1 21 51-71 57-77 (98)
249 KOG4323 Polycomb-like PHD Zn-f 24.5 41 0.00089 30.3 1.3 49 131-179 167-224 (464)
250 PF09237 GAGA: GAGA factor; I 24.4 20 0.00044 22.3 -0.4 7 172-178 26-32 (54)
251 PF10577 UPF0560: Uncharacteri 24.3 1.9E+02 0.0042 27.9 5.7 29 57-85 276-305 (807)
252 PF00558 Vpu: Vpu protein; In 24.2 1.3E+02 0.0027 20.5 3.4 7 104-110 57-63 (81)
253 PTZ00370 STEVOR; Provisional 24.2 94 0.002 26.3 3.3 14 72-85 270-283 (296)
254 KOG2927 Membrane component of 23.6 1.8E+02 0.0038 25.5 4.9 18 13-30 185-202 (372)
255 PF14316 DUF4381: Domain of un 23.5 2.1E+02 0.0045 21.2 4.9 7 163-169 139-145 (146)
256 PF05191 ADK_lid: Adenylate ki 23.5 34 0.00075 19.4 0.5 30 150-181 3-32 (36)
257 COG3813 Uncharacterized protei 23.3 83 0.0018 21.0 2.3 48 135-184 8-55 (84)
258 PF15179 Myc_target_1: Myc tar 23.0 89 0.0019 24.7 2.8 10 60-69 30-39 (197)
259 PRK10220 hypothetical protein; 22.9 56 0.0012 23.5 1.5 25 134-158 5-30 (111)
260 PF03119 DNA_ligase_ZBD: NAD-d 22.9 21 0.00045 19.1 -0.5 10 172-181 1-10 (28)
261 smart00109 C1 Protein kinase C 22.5 82 0.0018 17.9 2.1 33 132-165 11-44 (49)
262 KOG3653 Transforming growth fa 22.4 5E+02 0.011 23.9 7.6 9 53-61 152-160 (534)
263 PF11044 TMEMspv1-c74-12: Plec 22.2 1.9E+02 0.0042 17.4 3.6 13 61-73 11-23 (49)
264 smart00834 CxxC_CXXC_SSSS Puta 21.9 26 0.00055 19.8 -0.3 11 170-180 26-36 (41)
265 TIGR00373 conserved hypothetic 21.8 93 0.002 23.6 2.7 13 169-181 127-139 (158)
266 PF10146 zf-C4H2: Zinc finger- 21.3 64 0.0014 26.3 1.8 19 160-178 198-216 (230)
267 PF15145 DUF4577: Domain of un 20.7 2.3E+02 0.0049 20.6 4.2 12 103-114 100-111 (128)
268 PF08274 PhnA_Zn_Ribbon: PhnA 20.6 32 0.0007 18.8 -0.0 24 134-157 4-28 (30)
269 PLN02638 cellulose synthase A 20.3 1.2E+02 0.0026 30.4 3.6 50 131-180 16-69 (1079)
270 PF02009 Rifin_STEVOR: Rifin/s 20.3 1.5E+02 0.0032 25.2 3.8 22 56-77 255-276 (299)
271 KOG1512 PHD Zn-finger protein 20.2 44 0.00095 28.3 0.6 30 134-164 316-345 (381)
272 PRK07353 F0F1 ATP synthase sub 20.2 1.6E+02 0.0034 21.4 3.6 13 53-65 4-16 (140)
273 KOG2113 Predicted RNA binding 20.1 86 0.0019 27.0 2.3 43 132-180 343-386 (394)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.85 E-value=1.5e-21 Score=164.48 Aligned_cols=76 Identities=32% Similarity=0.840 Sum_probs=65.8
Q ss_pred ccCCCCHHHHhhCCceeecccccccCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCC-CccccCCCC
Q 045417 103 AARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTT-CPVCRSNLA 181 (184)
Q Consensus 103 ~~~gl~~~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~-CP~CR~~l~ 181 (184)
+.+++.+..++++|...|...+..... ..|+||||+|++||++|.|| |+|.||..|||.||.++.+ ||+||+++-
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~~---~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDAT---DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCCC---ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 567788999999999999886554322 69999999999999999999 9999999999999977754 999999775
Q ss_pred C
Q 045417 182 S 182 (184)
Q Consensus 182 ~ 182 (184)
.
T Consensus 279 ~ 279 (348)
T KOG4628|consen 279 T 279 (348)
T ss_pred C
Confidence 4
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=99.67 E-value=1.6e-17 Score=101.05 Aligned_cols=44 Identities=55% Similarity=1.302 Sum_probs=40.3
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 177 (184)
++|+||+++|.+++.+..++ |||.||.+||.+|++++.+||+||
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 999999999999999999999998
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.53 E-value=7.7e-15 Score=118.94 Aligned_cols=77 Identities=31% Similarity=0.676 Sum_probs=58.9
Q ss_pred cCCCCHHHHhhCCceeecccccccCCCCCcccCccccccCCCC----ceeecCCCCCcccHHHHHHHHhcCCCCccccCC
Q 045417 104 ARGLDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDE----TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN 179 (184)
Q Consensus 104 ~~gl~~~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~----~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 179 (184)
..+..++.++++|.+.....+. .....+.+|+||++++.+++ .+.+++.|+|.||.+||.+|++.+.+||+||..
T Consensus 147 k~~~~~~~i~~lp~vl~~~e~~-~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~ 225 (238)
T PHA02929 147 KGKNYKKFLKTIPSVLSEYEKL-YNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTP 225 (238)
T ss_pred hcchhHHHHHhcchhhhhhhhh-hcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCE
Confidence 4566888999999886543222 12235679999999987654 234555699999999999999999999999987
Q ss_pred CC
Q 045417 180 LA 181 (184)
Q Consensus 180 l~ 181 (184)
+.
T Consensus 226 ~~ 227 (238)
T PHA02929 226 FI 227 (238)
T ss_pred ee
Confidence 64
No 4
>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=99.52 E-value=6.2e-15 Score=99.23 Aligned_cols=52 Identities=35% Similarity=0.807 Sum_probs=38.6
Q ss_pred cccCCCCCcccCccccccCCC----------CceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 045417 125 TLKVGKGALECAVCLNEFEDD----------ETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177 (184)
Q Consensus 125 ~~~~~~~~~eCaICL~~f~~~----------~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 177 (184)
..+....++.|+||++++.+. -.+.+. .|||.||.+||.+||+.+.+||+||
T Consensus 12 ~~~~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~-~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 12 LWSWDIADDNCAICREPLEDPCPECQAPQDECPIVWG-PCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp EEEESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEE-TTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred EEeecCcCCcccccChhhhChhhhhcCCccccceEec-ccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 333344555799999999432 233344 4999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.45 E-value=4e-14 Score=116.52 Aligned_cols=52 Identities=42% Similarity=1.124 Sum_probs=47.5
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLAS 182 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~ 182 (184)
..+.||+||+++|-.+|+++.+| |+|.||..|++.|+. -+..||+||.++.|
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 35689999999999999999999 999999999999997 56689999999986
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.32 E-value=6.6e-13 Score=112.01 Aligned_cols=69 Identities=29% Similarity=0.815 Sum_probs=51.2
Q ss_pred CCHHHHhhCCceeecccccccCCCCCcccCcccccc-CCC---------CceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 045417 107 LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEF-EDD---------ETLRLIPKCDHVFHPECIDAWLESHTTCPVC 176 (184)
Q Consensus 107 l~~~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f-~~~---------~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~C 176 (184)
..++..+.+|+.+.+ +..+++..|.||+|++ ..+ .+-+.|| |||++|-+|+..|++++++||+|
T Consensus 267 ~~kdl~~~~~t~t~e-----ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPIC 340 (491)
T COG5243 267 ATKDLNAMYPTATEE-----QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPIC 340 (491)
T ss_pred HhhHHHhhcchhhhh-----hhcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcc
Confidence 334445555554333 2356788999999994 433 1345677 99999999999999999999999
Q ss_pred cCCCC
Q 045417 177 RSNLA 181 (184)
Q Consensus 177 R~~l~ 181 (184)
|.++.
T Consensus 341 r~p~i 345 (491)
T COG5243 341 RRPVI 345 (491)
T ss_pred cCccc
Confidence 99864
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=5.1e-12 Score=103.60 Aligned_cols=51 Identities=27% Similarity=0.815 Sum_probs=44.2
Q ss_pred CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417 129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASE 183 (184)
Q Consensus 129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 183 (184)
......|.+|||..++.... | |||+||+.||.+|...+..||+||....|+
T Consensus 236 ~~a~~kC~LCLe~~~~pSaT---p-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSAT---P-CGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCCCCceEEEecCCCCCCcC---c-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 34567899999998876554 5 999999999999999999999999988765
No 8
>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=99.21 E-value=1.4e-11 Score=73.78 Aligned_cols=44 Identities=55% Similarity=1.321 Sum_probs=36.7
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCC
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNL 180 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l 180 (184)
+|+||++.+ .+.+.+.+ |||.||.+|++.|++. +..||+||..+
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 34455554 9999999999999987 77899999864
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.19 E-value=1.6e-11 Score=76.54 Aligned_cols=46 Identities=35% Similarity=0.962 Sum_probs=38.6
Q ss_pred CcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
+.+|.||++...+ +.++| |||. |+..|+..|++++..||+||+++.
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 4589999998654 56667 9999 999999999999999999999885
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.18 E-value=2.3e-11 Score=95.38 Aligned_cols=49 Identities=33% Similarity=0.941 Sum_probs=39.4
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----------------CCCCccccCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----------------HTTCPVCRSNLAS 182 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----------------~~~CP~CR~~l~~ 182 (184)
.++.+|+||++.+++. + +++ |||+||+.||..|+.. +.+||+||.++..
T Consensus 16 ~~~~~CpICld~~~dP--V-vT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQVRDP--V-VTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcCCCc--E-EcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 3568999999998764 2 334 9999999999999842 3479999998864
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=2.3e-11 Score=93.43 Aligned_cols=51 Identities=31% Similarity=0.886 Sum_probs=43.5
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
.+-..|+|||+.+.+...+- .+|||+||.+||..-++....||+||+.|+.
T Consensus 129 ~~~~~CPiCl~~~sek~~vs--TkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVS--TKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred ccccCCCceecchhhccccc--cccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 45579999999998765543 3799999999999999999999999987764
No 12
>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=99.13 E-value=4e-11 Score=70.91 Aligned_cols=39 Identities=46% Similarity=1.215 Sum_probs=32.5
Q ss_pred cCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 045417 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVC 176 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~C 176 (184)
|+||++++.+ .+..++ |||.|+.+||..|++++.+||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999886 445555 99999999999999999999998
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.13 E-value=3.6e-11 Score=82.31 Aligned_cols=52 Identities=31% Similarity=0.738 Sum_probs=39.9
Q ss_pred CCcccCccccccCC--------CCc-eeecCCCCCcccHHHHHHHHhc---CCCCccccCCCCC
Q 045417 131 GALECAVCLNEFED--------DET-LRLIPKCDHVFHPECIDAWLES---HTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~--------~~~-~r~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~ 182 (184)
+++.|.||...|+. |+. -.+...|+|.||.+||.+|+.+ +..||+||++...
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 46789999999972 232 2234469999999999999974 4689999997643
No 14
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.05 E-value=1.1e-10 Score=93.15 Aligned_cols=50 Identities=30% Similarity=0.856 Sum_probs=39.7
Q ss_pred CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc---CCCCccccCCCCC
Q 045417 129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES---HTTCPVCRSNLAS 182 (184)
Q Consensus 129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~~ 182 (184)
..+..+|.||||.-++. |.. -|||+||+-||.+||.. .+.||+||..|..
T Consensus 44 ~~~~FdCNICLd~akdP--VvT--lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP--VVT--LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeeccccCCC--EEe--ecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 45778999999986653 433 29999999999999954 3468999998864
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=99.04 E-value=1.5e-10 Score=92.14 Aligned_cols=51 Identities=27% Similarity=0.847 Sum_probs=39.1
Q ss_pred CCcccCccccccCCC-----CceeecCCCCCcccHHHHHHHHhcC------CCCccccCCCC
Q 045417 131 GALECAVCLNEFEDD-----ETLRLIPKCDHVFHPECIDAWLESH------TTCPVCRSNLA 181 (184)
Q Consensus 131 ~~~eCaICL~~f~~~-----~~~r~lp~C~H~FH~~CI~~Wl~~~------~~CP~CR~~l~ 181 (184)
.+.+|+||+|..-+. ..--+|+.|+|.||..||..|.+.+ .+||+||....
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 457999999987432 1234677799999999999998653 35999998653
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.03 E-value=2.1e-10 Score=69.56 Aligned_cols=44 Identities=27% Similarity=0.937 Sum_probs=38.2
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
+|.||+++|.+....++++ |||+|+..|++.+......||+||+
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 5999999996666777776 9999999999999866778999985
No 17
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.00 E-value=2.3e-10 Score=76.72 Aligned_cols=50 Identities=30% Similarity=0.711 Sum_probs=38.3
Q ss_pred CcccCccccccCC-----------CC-ceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 132 ALECAVCLNEFED-----------DE-TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 132 ~~eCaICL~~f~~-----------~~-~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
-+.|+||...+.+ ++ ....--.|+|.||.+||..||..+..||++|+...
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 4578888777742 33 33333459999999999999999999999998653
No 18
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=1.6e-10 Score=104.38 Aligned_cols=51 Identities=35% Similarity=0.958 Sum_probs=44.3
Q ss_pred CCCcccCccccccCCCCc--eeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 130 KGALECAVCLNEFEDDET--LRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~--~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
..+..|+||+|++..++. .+.++ |+|+||..|+..|++++++||+||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 356799999999998765 66777 9999999999999999999999998443
No 19
>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=98.96 E-value=4.1e-10 Score=67.00 Aligned_cols=39 Identities=46% Similarity=1.261 Sum_probs=33.3
Q ss_pred cCccccccCCCCceeecCCCCCcccHHHHHHHHh--cCCCCccc
Q 045417 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE--SHTTCPVC 176 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~--~~~~CP~C 176 (184)
|+||++.+.+.. ++++ |||.|+.+||..|++ ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988654 5565 999999999999998 56679998
No 20
>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=98.91 E-value=1.2e-09 Score=63.01 Aligned_cols=38 Identities=42% Similarity=1.236 Sum_probs=31.5
Q ss_pred cCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccc
Q 045417 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVC 176 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~C 176 (184)
|+||++.. .....++ |+|.||..|++.|++ .+..||+|
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 78999883 3455666 999999999999998 66779987
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=98.85 E-value=3.6e-09 Score=68.48 Aligned_cols=46 Identities=28% Similarity=0.632 Sum_probs=39.5
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
..|+||.+.+.++ + +++ |||+|+..||..|++++.+||+|+..+..
T Consensus 2 ~~Cpi~~~~~~~P--v-~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDP--V-ILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCC--E-ECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 4799999999875 3 345 99999999999999988999999988743
No 22
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.84 E-value=4.6e-10 Score=74.67 Aligned_cols=52 Identities=31% Similarity=0.749 Sum_probs=39.4
Q ss_pred CCCcccCccccccCC--------CC-ceeecCCCCCcccHHHHHHHHh---cCCCCccccCCCC
Q 045417 130 KGALECAVCLNEFED--------DE-TLRLIPKCDHVFHPECIDAWLE---SHTTCPVCRSNLA 181 (184)
Q Consensus 130 ~~~~eCaICL~~f~~--------~~-~~r~lp~C~H~FH~~CI~~Wl~---~~~~CP~CR~~l~ 181 (184)
..+..|-||..+|+. || .-.++-.|.|.||.+||.+|+. ++..||+||++..
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 345589999999973 33 2234446999999999999995 4567999998754
No 23
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.81 E-value=2.1e-09 Score=64.62 Aligned_cols=38 Identities=37% Similarity=1.035 Sum_probs=28.4
Q ss_pred cCccccccCCCCceeecCCCCCcccHHHHHHHHhcC----CCCccc
Q 045417 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH----TTCPVC 176 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~----~~CP~C 176 (184)
|+||++.|.++..+ + |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l---~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL---P-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE----S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc---C-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999976443 4 99999999999999653 469988
No 24
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=1e-09 Score=89.41 Aligned_cols=53 Identities=30% Similarity=0.707 Sum_probs=43.4
Q ss_pred CCCCcccCccccccCCCC-------ceeecCCCCCcccHHHHHHHH--hcCCCCccccCCCCC
Q 045417 129 GKGALECAVCLNEFEDDE-------TLRLIPKCDHVFHPECIDAWL--ESHTTCPVCRSNLAS 182 (184)
Q Consensus 129 ~~~~~eCaICL~~f~~~~-------~~r~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~l~~ 182 (184)
..++.-|+||-..+...+ .+..|. |+|+||..||.-|- .++++||.|++.+..
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 346778999999887654 566776 99999999999995 577899999987654
No 25
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=1.3e-09 Score=76.57 Aligned_cols=67 Identities=25% Similarity=0.528 Sum_probs=46.6
Q ss_pred CCceeecccccccCCCCCcccCccccccC-------------CCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 115 FPTFVYSDVKTLKVGKGALECAVCLNEFE-------------DDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 115 ~p~~~~~~~~~~~~~~~~~eCaICL~~f~-------------~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
|...+++.+.--.-+-..+.|+||...+. .++.+..-..|+|.||.+||..||+++..||+|.++-.
T Consensus 29 F~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 29 FELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred eEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 33344554443333445668999887663 23444444469999999999999999999999987643
No 26
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.65 E-value=2.2e-08 Score=86.91 Aligned_cols=49 Identities=31% Similarity=0.754 Sum_probs=41.5
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
+....|+||++.|.+.. +++ |||.||..||..|+..+..||+||..+..
T Consensus 24 e~~l~C~IC~d~~~~Pv---itp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 24 DTSLRCHICKDFFDVPV---LTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred ccccCCCcCchhhhCcc---CCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 36679999999997653 345 99999999999999988899999997653
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=1.9e-08 Score=81.83 Aligned_cols=50 Identities=30% Similarity=0.787 Sum_probs=40.6
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHH-HHhcCCC-CccccCCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDA-WLESHTT-CPVCRSNLASE 183 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~-Wl~~~~~-CP~CR~~l~~~ 183 (184)
..+.+|+||+++....... + |||+||..||-. |-+++.. ||+||+.+.++
T Consensus 213 ~~d~kC~lC~e~~~~ps~t---~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCT---P-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccccceeeeecccCCcccc---c-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 3578999999997764433 4 999999999999 9766665 99999988765
No 28
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=3.8e-08 Score=86.10 Aligned_cols=52 Identities=27% Similarity=0.876 Sum_probs=39.1
Q ss_pred CCcccCccccccCC---CC-------ce---eecCCCCCcccHHHHHHHHh-cCCCCccccCCCCC
Q 045417 131 GALECAVCLNEFED---DE-------TL---RLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~---~~-------~~---r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~ 182 (184)
...+|+||+.+.+- +. .+ .++..|+|+||..|+..|.. .+-.||+||.+|.+
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 44589999998852 11 11 12334999999999999998 45589999999875
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=98.50 E-value=9.5e-08 Score=59.26 Aligned_cols=42 Identities=31% Similarity=1.017 Sum_probs=31.8
Q ss_pred ccCccccccCCCCceeecCCCC-----CcccHHHHHHHHhc--CCCCcccc
Q 045417 134 ECAVCLNEFEDDETLRLIPKCD-----HVFHPECIDAWLES--HTTCPVCR 177 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~CR 177 (184)
.|.||+++.++++.+ ..| |. |.+|..|++.|+.. +.+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l-~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPL-VSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCee-Eec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 389999944444444 566 75 89999999999944 45899995
No 30
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.45 E-value=3.5e-08 Score=65.75 Aligned_cols=50 Identities=34% Similarity=0.795 Sum_probs=23.6
Q ss_pred CcccCccccccC-CCCc-eeec--CCCCCcccHHHHHHHHhc----C-------CCCccccCCCC
Q 045417 132 ALECAVCLNEFE-DDET-LRLI--PKCDHVFHPECIDAWLES----H-------TTCPVCRSNLA 181 (184)
Q Consensus 132 ~~eCaICL~~f~-~~~~-~r~l--p~C~H~FH~~CI~~Wl~~----~-------~~CP~CR~~l~ 181 (184)
+.+|.||.+.+. +++. ..+. +.|++.||..|+.+||.. + .+||.|+++|.
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 358999999876 3322 2232 369999999999999942 1 25999998764
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=1.9e-07 Score=82.19 Aligned_cols=47 Identities=30% Similarity=0.819 Sum_probs=37.1
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-----CCCCccccCCCCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-----HTTCPVCRSNLAS 182 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-----~~~CP~CR~~l~~ 182 (184)
+..|+|||++.... ++ ..|||+||..||-+++.. ...||+||..+.+
T Consensus 186 ~~~CPICL~~~~~p--~~--t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP--VR--TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc--cc--cccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 67999999986543 22 259999999999998843 3579999988765
No 32
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.38 E-value=2.9e-07 Score=55.45 Aligned_cols=38 Identities=32% Similarity=0.928 Sum_probs=22.2
Q ss_pred cCccccccCCCC-ceeecCCCCCcccHHHHHHHHhcC----CCCc
Q 045417 135 CAVCLNEFEDDE-TLRLIPKCDHVFHPECIDAWLESH----TTCP 174 (184)
Q Consensus 135 CaICL~~f~~~~-~~r~lp~C~H~FH~~CI~~Wl~~~----~~CP 174 (184)
|+||.| |.+++ .-.+|+ |||+|+.+|++.+++++ .+||
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 76544 446787 99999999999999743 3576
No 33
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.30 E-value=1.6e-07 Score=87.61 Aligned_cols=52 Identities=31% Similarity=0.860 Sum_probs=39.2
Q ss_pred CCCcccCccccccCCCC---ceeecCCCCCcccHHHHHHHHhc--CCCCccccCCCC
Q 045417 130 KGALECAVCLNEFEDDE---TLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA 181 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~---~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~ 181 (184)
.+..|||||..-...-| .-...+.|.|.||..|+..|+++ +.+||+||.+++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 46679999998876211 11223459999999999999964 568999998875
No 34
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.30 E-value=2.7e-07 Score=80.07 Aligned_cols=49 Identities=35% Similarity=0.870 Sum_probs=38.5
Q ss_pred CCcccCccccccCCCCc-eeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 131 GALECAVCLNEFEDDET-LRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~-~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
+...|+||||.+++... ++.. -|.|.||..|+..|. ..+||+||....|
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~-~c~Hsfh~~cl~~w~--~~scpvcR~~q~p 223 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTI-LCNHSFHCSCLMKWW--DSSCPVCRYCQSP 223 (493)
T ss_pred cCCCcchhHhhcCccccceeee-ecccccchHHHhhcc--cCcChhhhhhcCc
Confidence 45689999999987653 2333 399999999999994 4689999976654
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=3.3e-07 Score=74.63 Aligned_cols=45 Identities=38% Similarity=0.941 Sum_probs=39.2
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
.+...|+||++.|.+. .+++ |+|.|+..|+..++.....||.||.
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 3677999999999987 6666 9999999999999885567999993
No 36
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=5.1e-07 Score=76.44 Aligned_cols=48 Identities=29% Similarity=0.812 Sum_probs=40.9
Q ss_pred CCCcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
+++.||.||+++-.+ +.+|| |.|. .|..|-+.---++..||+||+++.
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchH
Confidence 457799999998664 56778 9998 999999998777889999999875
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.16 E-value=9.1e-07 Score=73.15 Aligned_cols=46 Identities=30% Similarity=0.681 Sum_probs=39.1
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 180 (184)
.-+.|-||-+.|.. +.+..|||-||.-||...|..+..||+||.+-
T Consensus 24 s~lrC~IC~~~i~i----p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 24 SMLRCRICDCRISI----PCETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred hHHHhhhhhheeec----ceecccccchhHHHHHHHhcCCCCCccccccH
Confidence 55689999998774 33346999999999999999999999999863
No 38
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.11 E-value=1.5e-06 Score=58.22 Aligned_cols=48 Identities=25% Similarity=0.516 Sum_probs=36.1
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-CCCCccccCCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-HTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~l~~ 182 (184)
+...|+|+.+-|.+... ++ +||.|...||..|+++ +.+||+|+..+..
T Consensus 3 ~~f~CpIt~~lM~dPVi---~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVI---LP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SSEEE---ET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhCcee---CC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 45689999999997543 35 9999999999999988 8899999988764
No 39
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.10 E-value=7.5e-07 Score=75.01 Aligned_cols=49 Identities=29% Similarity=0.782 Sum_probs=41.5
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
++-..|-||.+-|..+- +.| |+|.||.-||..+|..+..||.|+.++.+
T Consensus 21 D~lLRC~IC~eyf~ip~---itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIPM---ITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHHHhHHHHHhcCce---ecc-ccchHHHHHHHHHhccCCCCCceecccch
Confidence 35678999999998642 235 99999999999999999999999987754
No 40
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=6.4e-06 Score=70.37 Aligned_cols=50 Identities=28% Similarity=0.897 Sum_probs=39.5
Q ss_pred CCcccCccccccCCCC----ceeecCCCCCcccHHHHHHHH--hc-----CCCCccccCCC
Q 045417 131 GALECAVCLNEFEDDE----TLRLIPKCDHVFHPECIDAWL--ES-----HTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~----~~r~lp~C~H~FH~~CI~~Wl--~~-----~~~CP~CR~~l 180 (184)
.+.+|.||++...+.. ....+|+|.|.|+.+||+.|- .+ .+.||.||...
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 4668999999987544 234568899999999999997 33 46899999754
No 41
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.86 E-value=1.2e-05 Score=64.47 Aligned_cols=51 Identities=25% Similarity=0.640 Sum_probs=43.6
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--------CCCCccccCCCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPVCRSNLASE 183 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~~l~~~ 183 (184)
-...|..|-..+..+|++|+ .|-|+||++|+++|-.+ .-.||-|-.+|.|.
T Consensus 49 Y~pNC~LC~t~La~gdt~RL--vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTRL--VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCCceeCCccccCcceee--hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 44589999999999999998 49999999999999643 23799999988764
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.85 E-value=3e-06 Score=77.90 Aligned_cols=50 Identities=28% Similarity=0.575 Sum_probs=41.8
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
....|++|+..+.++.....-+ |+|.||..||+.|-+...+||+||....
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence 3447999999998876655554 9999999999999999999999998653
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.79 E-value=4.6e-06 Score=54.07 Aligned_cols=44 Identities=32% Similarity=0.890 Sum_probs=23.1
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 180 (184)
...|++|.+-++++..+ ..|.|+|+..||..-+.+ .||+|+.+-
T Consensus 7 lLrCs~C~~~l~~pv~l---~~CeH~fCs~Ci~~~~~~--~CPvC~~Pa 50 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCL---GGCEHIFCSSCIRDCIGS--ECPVCHTPA 50 (65)
T ss_dssp TTS-SSS-S--SS-B------SSS--B-TTTGGGGTTT--B-SSS--B-
T ss_pred hcCCcHHHHHhcCCcee---ccCccHHHHHHhHHhcCC--CCCCcCChH
Confidence 45799999998865433 359999999999886553 499998754
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=3.3e-06 Score=71.45 Aligned_cols=49 Identities=31% Similarity=0.637 Sum_probs=39.6
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccCCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~ 182 (184)
.+..|+|||+-++. .+..+.|.|-||.+||..-++ .+.+||.||+.+..
T Consensus 42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 56789999998775 333457999999999999985 46789999998764
No 45
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=1.3e-05 Score=50.14 Aligned_cols=44 Identities=27% Similarity=0.665 Sum_probs=32.4
Q ss_pred cccCccccccCCCCceeecCCCCCc-ccHHHH-HHHHhcCCCCccccCCC
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHV-FHPECI-DAWLESHTTCPVCRSNL 180 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI-~~Wl~~~~~CP~CR~~l 180 (184)
.||.||+|.-.+ .+.. .|||. .+.+|- ..|-..+..||+||+++
T Consensus 8 dECTICye~pvd--sVlY--tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 8 DECTICYEHPVD--SVLY--TCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred cceeeeccCcch--HHHH--HcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 699999987443 2322 39997 888885 44545788999999875
No 46
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.62 E-value=1.8e-05 Score=65.83 Aligned_cols=50 Identities=30% Similarity=0.818 Sum_probs=41.6
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-----------------------cCCCCccccCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-----------------------SHTTCPVCRSNLA 181 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-----------------------~~~~CP~CR~~l~ 181 (184)
....|.|||--|.+++...+.+ |.|.||..|+..+|. .+..||+||..|.
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 4568999999999999888877 999999999988762 1235999998775
No 47
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=3.7e-05 Score=70.76 Aligned_cols=48 Identities=31% Similarity=0.834 Sum_probs=37.6
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHH-hcCCCCccccCCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~l~~ 182 (184)
+-..|++|-+.+.+ .+. ++|+|+||.+||..-+ .++..||.|.+...+
T Consensus 642 ~~LkCs~Cn~R~Kd--~vI--~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD--AVI--TKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCchhh--HHH--HhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 45689999977664 332 3699999999999999 467789999886643
No 48
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.49 E-value=5.7e-05 Score=65.95 Aligned_cols=49 Identities=33% Similarity=0.779 Sum_probs=42.1
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
.+..|++|...+.++-.. . .|||.|+..|+..|+..+..||.||..+..
T Consensus 20 ~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred ccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccch
Confidence 567899999999876553 2 499999999999999999999999887754
No 49
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.38 E-value=5.5e-05 Score=65.20 Aligned_cols=44 Identities=32% Similarity=0.958 Sum_probs=35.5
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCccccCCCC
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA 181 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~ 181 (184)
-|-||-|.= ..+++.| |||..|..|+..|-.+ ..+||.||.++-
T Consensus 371 LCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 371 LCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 499998763 3477777 9999999999999733 468999998763
No 50
>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=97.33 E-value=7.3e-05 Score=55.50 Aligned_cols=36 Identities=17% Similarity=0.691 Sum_probs=29.5
Q ss_pred CCcccCccccccCCCCceeecCCCC------CcccHHHHHHHH
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCD------HVFHPECIDAWL 167 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~------H~FH~~CI~~Wl 167 (184)
...||+||++.+.+++.+..++ || |.||.+|+..|-
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence 3569999999999855565555 65 999999999994
No 51
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.32 E-value=6.8e-05 Score=64.48 Aligned_cols=47 Identities=36% Similarity=0.911 Sum_probs=38.7
Q ss_pred CCcccCccccccCC-CCceeecCCCCCcccHHHHHHHHhcC--CCCccccC
Q 045417 131 GALECAVCLNEFED-DETLRLIPKCDHVFHPECIDAWLESH--TTCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~-~~~~r~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~ 178 (184)
-+..|-.|-+.+-. ++.+.-|| |.|+||..|+.+.|.++ .+||-||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 35579999998854 45777888 99999999999999665 47999994
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.32 E-value=7.8e-05 Score=47.59 Aligned_cols=42 Identities=36% Similarity=0.773 Sum_probs=27.3
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCcc
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPV 175 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~ 175 (184)
-...|+|.+..|+++ ++-. .|+|+|-.+.|.+|+++ ...||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 456899999999965 4433 49999999999999943 446998
No 53
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.22 E-value=0.00029 Score=61.50 Aligned_cols=49 Identities=37% Similarity=0.865 Sum_probs=41.6
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
..+.+|.||..-+.+.... | |||.|+..||+.-+.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~pv~t---p-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVT---P-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccc---c-ccccccHHHHHHHhccCCCCccccccccc
Confidence 5788999999888765433 6 99999999999988888889999998764
No 54
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.10 E-value=0.00013 Score=55.70 Aligned_cols=30 Identities=30% Similarity=0.822 Sum_probs=27.2
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccH
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHP 160 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~ 160 (184)
++..||.||||+++.++++..|| |-.+||.
T Consensus 175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 35679999999999999999999 9999995
No 55
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.03 E-value=0.001 Score=56.12 Aligned_cols=46 Identities=26% Similarity=0.501 Sum_probs=37.7
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
.+...|+||+.....+-.+.+ -|-+||..||-.++.++..||+=-.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~~ 343 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTGY 343 (357)
T ss_pred CccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccCC
Confidence 355689999999887655544 7999999999999999999998433
No 56
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.99 E-value=0.00044 Score=67.80 Aligned_cols=52 Identities=25% Similarity=0.694 Sum_probs=40.6
Q ss_pred CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC----------CCCccccCCCC
Q 045417 129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH----------TTCPVCRSNLA 181 (184)
Q Consensus 129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~----------~~CP~CR~~l~ 181 (184)
.+.++.|-||+.+--.......|. |+|+||.+|...-|+++ -+||+|+..+.
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 456778999998876666666665 99999999998777654 27999998764
No 57
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.95 E-value=0.00064 Score=41.59 Aligned_cols=41 Identities=34% Similarity=1.023 Sum_probs=26.8
Q ss_pred cCccccccCCCCceeecC-CCCC---cccHHHHHHHHh--cCCCCccc
Q 045417 135 CAVCLNEFEDDETLRLIP-KCDH---VFHPECIDAWLE--SHTTCPVC 176 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp-~C~H---~FH~~CI~~Wl~--~~~~CP~C 176 (184)
|-||+++-.+++.+.. | .|.= ..|.+|+..|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~~li~-pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLIS-PCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE--SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceec-ccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 6799999877664433 3 3433 689999999995 45679987
No 58
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.92 E-value=0.00031 Score=65.46 Aligned_cols=50 Identities=32% Similarity=0.783 Sum_probs=39.5
Q ss_pred CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc-------CCCCccccC
Q 045417 129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES-------HTTCPVCRS 178 (184)
Q Consensus 129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~-------~~~CP~CR~ 178 (184)
..+.+||.||.+.+..-+.+---..|-|+||..||..|-++ ...||.|+.
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 45778999999999877665444458899999999999743 236999984
No 59
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.71 E-value=0.0015 Score=53.85 Aligned_cols=53 Identities=28% Similarity=0.526 Sum_probs=39.7
Q ss_pred ccCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCccccCCCC
Q 045417 126 LKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA 181 (184)
Q Consensus 126 ~~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~ 181 (184)
......+.+|++|-+.-..+.. .. +|+|+||.-||..-+.. ..+||.|-.++.
T Consensus 233 ss~~t~~~~C~~Cg~~PtiP~~--~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 233 SSTGTSDTECPVCGEPPTIPHV--IG-KCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccccCCceeeccCCCCCCCee--ec-cccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3445678899999987554332 33 49999999999887643 468999988776
No 60
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.66 E-value=0.0018 Score=39.70 Aligned_cols=45 Identities=24% Similarity=0.624 Sum_probs=22.9
Q ss_pred cCccccccCCCCc-eeecCCCCCcccHHHHHHHHh-cCCCCccccCCC
Q 045417 135 CAVCLNEFEDDET-LRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNL 180 (184)
Q Consensus 135 CaICL~~f~~~~~-~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l 180 (184)
|++|.+++...+. ..-- .|++.++..|...-++ ....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999955443 2222 5899999999888886 478899999864
No 61
>PHA02862 5L protein; Provisional
Probab=96.59 E-value=0.0012 Score=49.57 Aligned_cols=47 Identities=17% Similarity=0.561 Sum_probs=31.7
Q ss_pred cccCccccccCCCCceeecC--CCCCcccHHHHHHHHh--cCCCCccccCCCC
Q 045417 133 LECAVCLNEFEDDETLRLIP--KCDHVFHPECIDAWLE--SHTTCPVCRSNLA 181 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp--~C~H~FH~~CI~~Wl~--~~~~CP~CR~~l~ 181 (184)
..|-||+++-+++ .+-.. +-...-|.+|+.+|++ ++.+|++|+.+..
T Consensus 3 diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 4799999985433 22110 0025689999999995 4557999998653
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.58 E-value=0.0022 Score=48.95 Aligned_cols=46 Identities=22% Similarity=0.773 Sum_probs=33.0
Q ss_pred CCcccCccccccCCCCceeecC-CCCC---cccHHHHHHHHhc--CCCCccccCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIP-KCDH---VFHPECIDAWLES--HTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp-~C~H---~FH~~CI~~Wl~~--~~~CP~CR~~l 180 (184)
.+.+|-||.++-. +.. -| .|.. ..|.+|++.|+.. ..+|++|+.+.
T Consensus 7 ~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 7 MDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 5669999998843 222 23 3555 5699999999954 45799998764
No 63
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.57 E-value=0.00065 Score=57.31 Aligned_cols=50 Identities=28% Similarity=0.652 Sum_probs=42.5
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
.....|.+|-.-|-+..++. .|-|-||..||...|....+||.|...+..
T Consensus 13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 45679999999998866653 499999999999999999999999876654
No 64
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.54 E-value=0.001 Score=59.40 Aligned_cols=49 Identities=39% Similarity=0.855 Sum_probs=37.7
Q ss_pred CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-----cCCCCccccCCCC
Q 045417 129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-----SHTTCPVCRSNLA 181 (184)
Q Consensus 129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-----~~~~CP~CR~~l~ 181 (184)
..+..+|.+|-++-++.... .|.|.||.-||.++.. .+.+||+|-..|.
T Consensus 533 nk~~~~C~lc~d~aed~i~s----~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDYIES----SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccCceeecccCChhhhhHhh----hhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 34677999999886543222 5999999999999984 3578999987654
No 65
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.0023 Score=55.50 Aligned_cols=47 Identities=23% Similarity=0.774 Sum_probs=38.7
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--------CCCCccccC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--------HTTCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~ 178 (184)
...+|.||+++....+....+| |+|+||..|...++.. .-.||-+.-
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 5568999999998888999998 9999999999999832 336876643
No 66
>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=96.37 E-value=0.0016 Score=45.96 Aligned_cols=32 Identities=31% Similarity=0.813 Sum_probs=25.9
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHH
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECID 164 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~ 164 (184)
++..|++|-..+..+ ...+.| |||+||..|++
T Consensus 77 ~~~~C~vC~k~l~~~-~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNS-VFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCc-eEEEeC-CCeEEeccccc
Confidence 455799999999874 455567 99999999975
No 67
>PHA03096 p28-like protein; Provisional
Probab=96.37 E-value=0.0019 Score=54.14 Aligned_cols=46 Identities=24% Similarity=0.562 Sum_probs=33.9
Q ss_pred cccCccccccCCCC----ceeecCCCCCcccHHHHHHHHhc---CCCCccccC
Q 045417 133 LECAVCLNEFEDDE----TLRLIPKCDHVFHPECIDAWLES---HTTCPVCRS 178 (184)
Q Consensus 133 ~eCaICL~~f~~~~----~~r~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~ 178 (184)
-+|.||++...... .--.|+.|.|.|+..||..|-.. ..+||.||.
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 48999999886532 33467889999999999999743 234555543
No 68
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.19 E-value=0.0026 Score=54.30 Aligned_cols=44 Identities=34% Similarity=0.731 Sum_probs=31.5
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
-.+.|.||+++..+ ...+| |||+-+ |..--. ...+||+||+.+.
T Consensus 304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~-~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSK-HLPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeeec-CCcEEE--chHHHh-hCCCCchhHHHHH
Confidence 45689999999886 44456 999966 655542 2345999998753
No 69
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.11 E-value=0.006 Score=49.77 Aligned_cols=52 Identities=17% Similarity=0.369 Sum_probs=46.0
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
...-|+||.+.+.....+..|.+|||+|..+|++..+.....||+|-.++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 4567999999999888888888899999999999999999999999877653
No 70
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.05 E-value=0.0036 Score=49.52 Aligned_cols=44 Identities=23% Similarity=0.611 Sum_probs=37.3
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN 179 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 179 (184)
...|-||-++|+.+... .|||.||..|...-.+....|-+|-+.
T Consensus 196 PF~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred ceeehhchhhccchhhh----hcchhHHHHHHHHHhccCCcceecchh
Confidence 45799999999976443 599999999999988888999999664
No 71
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.04 E-value=0.00037 Score=59.94 Aligned_cols=51 Identities=22% Similarity=0.642 Sum_probs=43.2
Q ss_pred CCcccCccccccCCC-CceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 131 GALECAVCLNEFEDD-ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~~-~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
-...|+||.+.+... +.+.-+- |||.+|.+|+..||.....||.||++|..
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 445799999999876 5665554 99999999999999998999999998753
No 72
>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=95.96 E-value=0.0052 Score=36.85 Aligned_cols=41 Identities=20% Similarity=0.686 Sum_probs=24.2
Q ss_pred cCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC--CCccc
Q 045417 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT--TCPVC 176 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~--~CP~C 176 (184)
|.+|.+-...|...... .|+=.+|..|++.+++.+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 67787777777665432 4888999999999997665 79987
No 73
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.60 E-value=0.0054 Score=57.51 Aligned_cols=42 Identities=26% Similarity=0.762 Sum_probs=33.3
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 180 (184)
..|..|-..++-+-.-.+ |||.||.+|+. .+...||-|+.++
T Consensus 841 skCs~C~~~LdlP~VhF~---CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFL---CGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccceeeee---cccHHHHHhhc---cCcccCCccchhh
Confidence 479999998887654433 99999999999 4556799998743
No 74
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.48 E-value=0.011 Score=46.02 Aligned_cols=30 Identities=33% Similarity=0.966 Sum_probs=24.6
Q ss_pred CCCCcccHHHHHHHHhc-----C------CCCccccCCCCC
Q 045417 153 KCDHVFHPECIDAWLES-----H------TTCPVCRSNLAS 182 (184)
Q Consensus 153 ~C~H~FH~~CI~~Wl~~-----~------~~CP~CR~~l~~ 182 (184)
.||.-||.-|+..||+. + ..||+|-.++..
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 49999999999999952 2 269999988764
No 75
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.48 E-value=0.012 Score=50.36 Aligned_cols=50 Identities=20% Similarity=0.437 Sum_probs=39.4
Q ss_pred CCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 128 VGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 128 ~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
...++..|+||...- ..-...| |+|.=|..||.+-+.+.+.|=.|+..+.
T Consensus 418 p~sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CCcccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceee
Confidence 345777899998652 2223345 9999999999999999999999988664
No 76
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.47 E-value=0.0094 Score=49.97 Aligned_cols=45 Identities=36% Similarity=0.852 Sum_probs=35.0
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHHHHHH-hcCCCCccc-cCCC
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVC-RSNL 180 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~C-R~~l 180 (184)
+.|+.|..-....- +. +.|+|.|+.+||..-| .+...||.| |+++
T Consensus 275 LkCplc~~Llrnp~--kT-~cC~~~fc~eci~~al~dsDf~CpnC~rkdv 321 (427)
T COG5222 275 LKCPLCHCLLRNPM--KT-PCCGHTFCDECIGTALLDSDFKCPNCSRKDV 321 (427)
T ss_pred ccCcchhhhhhCcc--cC-ccccchHHHHHHhhhhhhccccCCCcccccc
Confidence 67999987766543 33 5699999999999776 677889999 4444
No 77
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.19 E-value=0.027 Score=46.61 Aligned_cols=52 Identities=23% Similarity=0.592 Sum_probs=41.2
Q ss_pred CCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 129 GKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 129 ~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
..+...|+|...+|........+-.|||+|-..+|.+- .....||+|-.++.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT 161 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence 35677899999999766655555559999999999997 33567999987754
No 78
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.79 E-value=0.015 Score=48.53 Aligned_cols=46 Identities=24% Similarity=0.507 Sum_probs=38.4
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
...|-||...|..+... +|+|.||..|-..=++....|.+|-+...
T Consensus 241 Pf~c~icr~~f~~pVvt----~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVT----KCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred Cccccccccccccchhh----cCCceeehhhhccccccCCcceecccccc
Confidence 34599999999976443 69999999999988888899999977653
No 79
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.73 E-value=0.016 Score=36.43 Aligned_cols=33 Identities=21% Similarity=0.622 Sum_probs=25.9
Q ss_pred ceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 147 TLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 147 ~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
+-.++| |+|+.+..|.+.+ +-+-||.|-+++..
T Consensus 19 ~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 19 KGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEF 51 (55)
T ss_pred cccccc-ccceeeccccChh--hccCCCCCCCcccC
Confidence 345566 9999999998876 45679999887764
No 80
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.68 E-value=0.024 Score=48.32 Aligned_cols=52 Identities=15% Similarity=0.395 Sum_probs=35.7
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh-cCCCCccccCCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l~~ 182 (184)
+++-|+.|+|+++..|+-..-..||-..|.-|...--+ -+..||-||+....
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 44569999999988776554335997766666444322 25689999986654
No 81
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.63 E-value=0.0061 Score=50.85 Aligned_cols=41 Identities=27% Similarity=0.758 Sum_probs=30.0
Q ss_pred CcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNL 180 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l 180 (184)
..-|+||++.-.+ ...|+ |||. -|.+|=... ..||+||+-+
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkrm----~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKRM----NECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhcccc----ccCchHHHHH
Confidence 4579999987443 55676 9996 677785443 3799999754
No 82
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.39 E-value=0.024 Score=47.21 Aligned_cols=47 Identities=21% Similarity=0.639 Sum_probs=38.4
Q ss_pred CCcccCccccccCCCCc-eeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417 131 GALECAVCLNEFEDDET-LRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~-~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
....|+||.+.+-.... +..++ |||.-|..|+.+....+-+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 44469999999876653 44555 9999999999999887789999987
No 83
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.31 E-value=0.057 Score=46.25 Aligned_cols=64 Identities=20% Similarity=0.477 Sum_probs=42.4
Q ss_pred HHhhCCceeecccccccCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHH--HhcCCCCccccCCC
Q 045417 111 VIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAW--LESHTTCPVCRSNL 180 (184)
Q Consensus 111 ~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~W--l~~~~~CP~CR~~l 180 (184)
.+..-|..+-+. ..+.+++...|.||-+...- .-++| |+|..|.-|--.- |-.+..||+||.+-
T Consensus 42 nlsaEPnlttsS--addtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 42 NLSAEPNLTTSS--ADDTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccCCcccccc--ccccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 344445544333 22334466689999987553 44567 9999998886543 45678999999764
No 84
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.06 E-value=0.075 Score=33.39 Aligned_cols=41 Identities=24% Similarity=0.710 Sum_probs=32.9
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCcc
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPV 175 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~ 175 (184)
....|.+|-+.|.+++.+.+-|.||=.+|.+|-+. ...|-.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 34589999999998888888899999999999554 345544
No 85
>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=93.50 E-value=0.062 Score=46.45 Aligned_cols=26 Identities=35% Similarity=1.086 Sum_probs=19.9
Q ss_pred CCCcccHHHHHHHHhc-------------CCCCccccCC
Q 045417 154 CDHVFHPECIDAWLES-------------HTTCPVCRSN 179 (184)
Q Consensus 154 C~H~FH~~CI~~Wl~~-------------~~~CP~CR~~ 179 (184)
|.-.+|.+|+-+|+.+ +..||+||+.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~ 349 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAK 349 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccc
Confidence 4456789999888843 3479999986
No 86
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.30 E-value=0.024 Score=55.47 Aligned_cols=45 Identities=29% Similarity=0.841 Sum_probs=37.1
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
+...|.||++.+.....+. .|||.++..|+..|+..+..||.|+.
T Consensus 1152 ~~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhh
Confidence 3347999999988433333 49999999999999999999999974
No 87
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.77 E-value=0.065 Score=50.11 Aligned_cols=41 Identities=27% Similarity=0.598 Sum_probs=29.2
Q ss_pred ccCccccccCCCC---------ceeecCCCCCcccHHHHHHHHhcCCCCcc
Q 045417 134 ECAVCLNEFEDDE---------TLRLIPKCDHVFHPECIDAWLESHTTCPV 175 (184)
Q Consensus 134 eCaICL~~f~~~~---------~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~ 175 (184)
+|+||++.+..-. ...-. .|+|+-|.+|..+|+.....||.
T Consensus 1020 ~~~~~~~~~~~C~~C~l~V~gss~~Cg-~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1020 QCAICKGFTFQCAICHLAVRGSSNFCG-TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eccccccceeeeeeEeeEeeccchhhc-cccccccHHHHHHHHhcCCcCCC
Confidence 5666666654321 11123 39999999999999999999984
No 88
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.75 E-value=0.042 Score=46.35 Aligned_cols=42 Identities=36% Similarity=0.791 Sum_probs=28.5
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 180 (184)
.|--|=-.+. ..-|+.| |+|+||.+|-.. ...+.||.|-..|
T Consensus 92 fCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 4655643332 3447788 999999999654 3456899996544
No 89
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.72 E-value=0.044 Score=51.18 Aligned_cols=44 Identities=27% Similarity=0.753 Sum_probs=33.0
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHHHHHHhc--CCCCccccCCCC
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES--HTTCPVCRSNLA 181 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~l~ 181 (184)
.+|.||++ .+.....+ |+|.|+.+|+..-+.. ...||+||..+.
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 69999999 23343444 9999999999988743 336999997653
No 90
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.48 E-value=0.056 Score=51.19 Aligned_cols=35 Identities=23% Similarity=0.576 Sum_probs=27.5
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHH
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL 167 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl 167 (184)
.+.+|.+|...+... .-.+.| |||.||++||..-.
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 567899999888764 344556 99999999997664
No 91
>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=91.71 E-value=0.22 Score=38.16 Aligned_cols=35 Identities=26% Similarity=0.665 Sum_probs=21.5
Q ss_pred CcccCccccccCCCCce---------eecCCCCCc-ccHHHHHHHH
Q 045417 132 ALECAVCLNEFEDDETL---------RLIPKCDHV-FHPECIDAWL 167 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~---------r~lp~C~H~-FH~~CI~~Wl 167 (184)
+..|+||||---....+ |--- |+-. -|..|+|++-
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 45899999875432211 1111 5533 5889999985
No 92
>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=91.03 E-value=0.084 Score=32.19 Aligned_cols=43 Identities=26% Similarity=0.736 Sum_probs=24.9
Q ss_pred ccCccccccCCCCceeecCCCC-CcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 134 ECAVCLNEFEDDETLRLIPKCD-HVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
.|--|+-+ +...+ +|+ |..+-.|+...+.+...||+|..+|..
T Consensus 4 nCKsCWf~--~k~Li----~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCWFA--NKGLI----KCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS-S----SSEE----E-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhhhc--CCCee----eecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 45556643 22223 365 999999999999999999999988764
No 93
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.57 E-value=0.15 Score=42.59 Aligned_cols=48 Identities=29% Similarity=0.816 Sum_probs=34.7
Q ss_pred CcccCccccccCCCCc-eeecCCCC-----CcccHHHHHHHHh--cCCCCccccCCC
Q 045417 132 ALECAVCLNEFEDDET-LRLIPKCD-----HVFHPECIDAWLE--SHTTCPVCRSNL 180 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~-~r~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~CR~~l 180 (184)
+..|-||.++...... .-..| |. +..|..|++.|+. +...|.+|....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 4689999998765432 22333 54 5679999999996 566799997754
No 94
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.34 E-value=0.23 Score=47.01 Aligned_cols=52 Identities=27% Similarity=0.646 Sum_probs=38.9
Q ss_pred CCCcccCccccccCCCCceeecCCCC---CcccHHHHHHHHh--cCCCCccccCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCD---HVFHPECIDAWLE--SHTTCPVCRSNLA 181 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~---H~FH~~CI~~Wl~--~~~~CP~CR~~l~ 181 (184)
+++..|-||..+=..++.+---.+|. .-.|.+|+.+|+. ....|-+|+.+..
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 45578999999887777775533454 3489999999995 3456999987653
No 95
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.25 E-value=0.093 Score=48.27 Aligned_cols=44 Identities=25% Similarity=0.626 Sum_probs=33.5
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
...|.||+..|......-+...|||..|.+|+..-. +.+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence 457999999987665554445799999999998764 46788 654
No 96
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.24 E-value=0.21 Score=42.22 Aligned_cols=45 Identities=24% Similarity=0.591 Sum_probs=33.8
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
+-.+|+||.+.+..+.-- - .=||+-|..|=. +....||.||.++.
T Consensus 47 ~lleCPvC~~~l~~Pi~Q--C-~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIFQ--C-DNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCccccee--c-CCCcEehhhhhh---hhcccCCccccccc
Confidence 566999999999876432 1 246999988865 34678999998875
No 97
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.75 E-value=0.3 Score=42.50 Aligned_cols=47 Identities=19% Similarity=0.535 Sum_probs=38.6
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCC---CCccccC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHT---TCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~---~CP~CR~ 178 (184)
+...|||=.+.-.+++.-..|. |||+...+-+..-.++.. .||+|=.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 5668999988888777777776 999999999999876544 6999943
No 98
>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=89.66 E-value=0.94 Score=33.30 Aligned_cols=29 Identities=21% Similarity=0.257 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 045417 55 PSLAIIIVVLISALFFMGFFSIYIRHCSD 83 (184)
Q Consensus 55 ~~~~iii~vli~~l~~l~~~~i~~r~~~~ 83 (184)
.+.+|+++++.+++.+++++++++|+.+.
T Consensus 65 ~i~~Ii~gv~aGvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 65 AIIGIIFGVMAGVIGIILLISYCIRRLRK 93 (122)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred ceeehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46677777777766666665555555433
No 99
>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=89.52 E-value=0.56 Score=29.61 Aligned_cols=46 Identities=26% Similarity=0.776 Sum_probs=35.3
Q ss_pred ccCccccccCCCC-ceeecCCCCC--cccHHHHHHHHhcCCCCccccCCCCCCC
Q 045417 134 ECAVCLNEFEDDE-TLRLIPKCDH--VFHPECIDAWLESHTTCPVCRSNLASEP 184 (184)
Q Consensus 134 eCaICL~~f~~~~-~~r~lp~C~H--~FH~~CI~~Wl~~~~~CP~CR~~l~~~p 184 (184)
.|--|-.++..+. ..++ |.+ -|+.+|.+.-| +..||.|-.+++..|
T Consensus 7 nCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 5777877777655 3333 664 59999999987 578999999998876
No 100
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.09 E-value=0.25 Score=39.63 Aligned_cols=39 Identities=33% Similarity=0.847 Sum_probs=28.3
Q ss_pred cCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCCC
Q 045417 135 CAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
|-.|-+. +..+-++| |.|. +|..|=+. -..||+|+....
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 6666654 55688888 9986 88888543 356999987653
No 101
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.49 E-value=0.25 Score=43.23 Aligned_cols=37 Identities=27% Similarity=0.703 Sum_probs=27.7
Q ss_pred CCcccCccccccCCC-CceeecCCCCCcccHHHHHHHHh
Q 045417 131 GALECAVCLNEFEDD-ETLRLIPKCDHVFHPECIDAWLE 168 (184)
Q Consensus 131 ~~~eCaICL~~f~~~-~~~r~lp~C~H~FH~~CI~~Wl~ 168 (184)
...+|.||..+.... +... ...|+|.|+.+|+...+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhh
Confidence 456899999555544 4444 346999999999998875
No 102
>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=86.07 E-value=2.4 Score=24.62 Aligned_cols=24 Identities=21% Similarity=0.373 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 045417 56 SLAIIIVVLISALFFMGFFSIYIR 79 (184)
Q Consensus 56 ~~~iii~vli~~l~~l~~~~i~~r 79 (184)
.++|+.++++.+.++++.+.+|.-
T Consensus 5 ~IaIIv~V~vg~~iiii~~~~YaC 28 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMFYYAC 28 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHH
Confidence 455565655555555444444443
No 103
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=86.00 E-value=0.61 Score=37.13 Aligned_cols=41 Identities=34% Similarity=0.887 Sum_probs=29.8
Q ss_pred CCcccCccccc-----cCCCCceeecCCCCCcccHHHHHHHHhcCCCCcccc
Q 045417 131 GALECAVCLNE-----FEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCR 177 (184)
Q Consensus 131 ~~~eCaICL~~-----f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 177 (184)
-+..|.+|-++ |+. +.+...++|+-+||..|... ..||-|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 35678888753 333 35556678999999999772 6799994
No 104
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.96 E-value=0.44 Score=40.06 Aligned_cols=27 Identities=26% Similarity=0.824 Sum_probs=21.6
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCccccCCC
Q 045417 154 CDHVFHPECIDAWLE-------------SHTTCPVCRSNL 180 (184)
Q Consensus 154 C~H~FH~~CI~~Wl~-------------~~~~CP~CR~~l 180 (184)
|.-.+|..|+.+|+. ++.+||+||++.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 667889999999874 345899999864
No 105
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.75 E-value=0.39 Score=43.83 Aligned_cols=47 Identities=30% Similarity=0.887 Sum_probs=37.3
Q ss_pred cCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 127 KVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 127 ~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
...+....|.||++++ ..+..+ |. |..|...|+..+..||+|+..+.
T Consensus 474 ~l~~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~ 520 (543)
T KOG0802|consen 474 QLREPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMK 520 (543)
T ss_pred hhhcccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhh
Confidence 3344667999999998 344444 77 99999999999999999987654
No 106
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.51 E-value=0.38 Score=39.62 Aligned_cols=49 Identities=24% Similarity=0.732 Sum_probs=32.8
Q ss_pred CCcccCccccccCCCCce-eecCCCC-----CcccHHHHHHHHhc--------CCCCccccCCC
Q 045417 131 GALECAVCLNEFEDDETL-RLIPKCD-----HVFHPECIDAWLES--------HTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~-r~lp~C~-----H~FH~~CI~~Wl~~--------~~~CP~CR~~l 180 (184)
.+..|=||+..=+++..- -+-| |. |=.|..|+..|+.. ..+||-|+.+.
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 445799999875553322 1222 43 77999999999932 23699998764
No 107
>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=85.35 E-value=0.34 Score=39.61 Aligned_cols=47 Identities=26% Similarity=0.647 Sum_probs=35.0
Q ss_pred CCcccCcccccc--CCCCceeecCCCCCcccHHHHHHHHhc-CCCCc--ccc
Q 045417 131 GALECAVCLNEF--EDDETLRLIPKCDHVFHPECIDAWLES-HTTCP--VCR 177 (184)
Q Consensus 131 ~~~eCaICL~~f--~~~~~~r~lp~C~H~FH~~CI~~Wl~~-~~~CP--~CR 177 (184)
.+..|+||..+. .++..+-+-|.|-|..|..|+|.-+.. ...|| -|-
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 345899999875 334455556679999999999999965 45799 663
No 108
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=85.34 E-value=0.73 Score=34.31 Aligned_cols=50 Identities=20% Similarity=0.527 Sum_probs=34.9
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHh---cCCCCccccCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE---SHTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~---~~~~CP~CR~~l 180 (184)
.-.||-||.|.-.+..-+.--.-||-..+.-|...-++ -+..||+|+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF 131 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence 45699999998765432222123998899888766553 467899998765
No 109
>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=84.71 E-value=1 Score=25.03 Aligned_cols=38 Identities=32% Similarity=0.678 Sum_probs=26.8
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
.|+.|-+.+.+++.... .=+..||.+| ..|..|+..|.
T Consensus 1 ~C~~C~~~i~~~~~~~~--~~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLR--ALGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEE--eCCccccccC--------CCCcccCCcCc
Confidence 37888888877633322 2468899888 67888887765
No 110
>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=84.29 E-value=2 Score=29.70 Aligned_cols=37 Identities=11% Similarity=0.201 Sum_probs=25.7
Q ss_pred CCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 045417 47 PYSNMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSD 83 (184)
Q Consensus 47 ~~~~~~~~~~~~iii~vli~~l~~l~~~~i~~r~~~~ 83 (184)
+++...|+....+++++++++.++.....++.|-|..
T Consensus 28 ~ss~~~ws~vv~v~i~~lvaVg~~YL~y~~fLkDlIl 64 (91)
T PF01708_consen 28 SSSGLPWSRVVEVAIFTLVAVGCLYLAYTWFLKDLIL 64 (91)
T ss_pred CCCCCcceeEeeeeehHHHHHHHHHHHHHHHHHHHhh
Confidence 4566778877777777777777776666666666554
No 111
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=84.14 E-value=0.73 Score=43.62 Aligned_cols=50 Identities=18% Similarity=0.317 Sum_probs=35.1
Q ss_pred CCcccCccccccCCCC---ceeecCCCCCcccHHHHHHHHh------cCCCCccccCCC
Q 045417 131 GALECAVCLNEFEDDE---TLRLIPKCDHVFHPECIDAWLE------SHTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~---~~r~lp~C~H~FH~~CI~~Wl~------~~~~CP~CR~~l 180 (184)
+...|.+|..++.+++ ..-.+..|+|.||..||..|.. .+-.|+.|...|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 4557888888887632 1222235999999999999983 244689997765
No 112
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=82.10 E-value=1.2 Score=41.91 Aligned_cols=40 Identities=20% Similarity=0.435 Sum_probs=30.6
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCcc
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPV 175 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~ 175 (184)
.|.+|-..+.. .....+.|||.-|.+|+..|+..+..||.
T Consensus 781 ~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred Cceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 68888766542 22334579999999999999998888876
No 113
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=81.90 E-value=0.39 Score=44.70 Aligned_cols=46 Identities=35% Similarity=0.916 Sum_probs=34.9
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc---CCCCccccCCCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES---HTTCPVCRSNLA 181 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~l~ 181 (184)
..||+||++.+.+. .+.+|.|.|+.-|+..-+.. ...||+|+..+.
T Consensus 21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 45999999998876 22269999999998765533 457999997654
No 114
>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=81.33 E-value=1.2 Score=27.37 Aligned_cols=38 Identities=29% Similarity=0.630 Sum_probs=21.1
Q ss_pred cCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
|+-|-..+.+++.+.. .-+..||.+| .+|-.|++.|..
T Consensus 1 C~~C~~~I~~~~~~~~--~~~~~~H~~C--------f~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK--AMGKFWHPEC--------FKCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEE--ETTEEEETTT--------SBETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEE--eCCcEEEccc--------cccCCCCCccCC
Confidence 5556666665444422 1456667666 456666666554
No 115
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=80.20 E-value=8.4 Score=27.86 Aligned_cols=18 Identities=28% Similarity=0.648 Sum_probs=12.2
Q ss_pred HhcCCCCccccCCCCCCC
Q 045417 167 LESHTTCPVCRSNLASEP 184 (184)
Q Consensus 167 l~~~~~CP~CR~~l~~~p 184 (184)
+.+...|+.|+++++.+|
T Consensus 82 LGr~D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 82 LGRVDACMHCKEPLTLDP 99 (114)
T ss_pred hchhhccCcCCCcCccCc
Confidence 344456888888887654
No 116
>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=78.65 E-value=1.3 Score=23.45 Aligned_cols=23 Identities=26% Similarity=0.697 Sum_probs=14.2
Q ss_pred ccCccccccCCCCceeecCCCCCcc
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVF 158 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~F 158 (184)
.|+-|-.+... ..+.-|.|||.|
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 47777776643 234456688877
No 117
>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=78.64 E-value=1.9 Score=26.78 Aligned_cols=42 Identities=33% Similarity=0.815 Sum_probs=21.7
Q ss_pred cCccccccCCCC------ceeecCCCCCcccHHHHHHHH-hcCCCCcccc
Q 045417 135 CAVCLNEFEDDE------TLRLIPKCDHVFHPECIDAWL-ESHTTCPVCR 177 (184)
Q Consensus 135 CaICL~~f~~~~------~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR 177 (184)
|--|+..|..+. ....-|+|++.|+.+| |..+ +.=.+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence 555677776642 3455678999999999 3333 3334699884
No 118
>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 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=78.15 E-value=1.6 Score=26.77 Aligned_cols=41 Identities=27% Similarity=0.802 Sum_probs=17.8
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHH--HHHHh-----cCCCCccccCC
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECI--DAWLE-----SHTTCPVCRSN 179 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI--~~Wl~-----~~~~CP~CR~~ 179 (184)
..|+|....++.+ +|-. .|.|. +|+ +.||. +.-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~-~C~H~---~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGK-NCKHL---QCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEET-T--SS-----EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCC-cCccc---ceECHHHHHHHhhccCCeECcCCcCc
Confidence 4688888877653 5554 38887 343 34553 23469999764
No 120
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.00 E-value=3.1 Score=30.07 Aligned_cols=70 Identities=24% Similarity=0.412 Sum_probs=43.7
Q ss_pred CCHHHHhhCCceeecccccccCCCCCcccCccccccCCCC----------ceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 045417 107 LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDE----------TLRLIPKCDHVFHPECIDAWLESHTTCPVC 176 (184)
Q Consensus 107 l~~~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~----------~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~C 176 (184)
+.+..-.-+|...|.++...+ ......|--|+..|.+.. ....-++|++.|+.+|=.-+-+.=.+||-|
T Consensus 31 LARSyHHLfPl~~f~ev~~~~-~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC 109 (112)
T TIGR00622 31 LARSYHHLFPLKAFQEIPLEE-YNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGC 109 (112)
T ss_pred HHHhhhccCCCcccccccccc-cCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCC
Confidence 334444445665555442211 223357999999986531 123356799999999966665665679999
Q ss_pred c
Q 045417 177 R 177 (184)
Q Consensus 177 R 177 (184)
.
T Consensus 110 ~ 110 (112)
T TIGR00622 110 I 110 (112)
T ss_pred C
Confidence 5
No 121
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=77.82 E-value=1.1 Score=36.03 Aligned_cols=42 Identities=24% Similarity=0.657 Sum_probs=34.0
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVC 176 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~C 176 (184)
-.+|.+|..-.-.+..+ ..|+-.+|..|+..++.+...||.|
T Consensus 181 lk~Cn~Ch~LvIqg~rC---g~c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRC---GSCNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHHhHhHHHhheeecc---CcccchhhhHHHHHHhcccCcCCch
Confidence 34899999876555433 2488889999999999999999999
No 122
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.22 E-value=2.6 Score=34.81 Aligned_cols=51 Identities=18% Similarity=0.387 Sum_probs=39.9
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
.....|+|---+|........+-.|||+|-..-+.+. ...+|++|.+.+..
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~ 159 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQE 159 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccc
Confidence 4566899999998877666555569999999888875 46789999886643
No 123
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=75.36 E-value=2 Score=35.69 Aligned_cols=50 Identities=30% Similarity=0.616 Sum_probs=36.1
Q ss_pred CCcccCccccccCCCCceee---cCCCCCcccHHHHHHHHhc---------CCCCccccCCC
Q 045417 131 GALECAVCLNEFEDDETLRL---IPKCDHVFHPECIDAWLES---------HTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~---lp~C~H~FH~~CI~~Wl~~---------~~~CP~CR~~l 180 (184)
...+|-+|.+++.+.+..+. -+.|+-.+|..|+..-+.. ...||.|++-+
T Consensus 181 ~~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 181 LNVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred cchhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 34699999999955554443 2358889999999995522 35799998743
No 124
>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=74.48 E-value=1.5 Score=26.38 Aligned_cols=43 Identities=28% Similarity=0.673 Sum_probs=29.1
Q ss_pred cCccccccCCCCceeecCCCCCcccHHHHHHHHh------cCCCCccccC
Q 045417 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE------SHTTCPVCRS 178 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~------~~~~CP~CR~ 178 (184)
|.||...-.++ .+..-..|+..||..|+..=.. ..-.||.|+.
T Consensus 2 C~vC~~~~~~~-~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDG-DMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTS-SEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCC-CeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 88999844444 4444456999999999865432 2457888863
No 125
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=73.83 E-value=2.1 Score=24.52 Aligned_cols=26 Identities=35% Similarity=0.754 Sum_probs=16.8
Q ss_pred ccCccccccCCCCc-------eeecCCCCCccc
Q 045417 134 ECAVCLNEFEDDET-------LRLIPKCDHVFH 159 (184)
Q Consensus 134 eCaICL~~f~~~~~-------~r~lp~C~H~FH 159 (184)
+|+=|-..|+-++. ...-++|+|+|.
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 68888888865432 223456888875
No 126
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.76 E-value=2.5 Score=37.57 Aligned_cols=37 Identities=27% Similarity=0.861 Sum_probs=29.4
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES 169 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~ 169 (184)
....+|-||.+.+.. .+..+ .|+|.|+..|....+.+
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~-~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGL-GCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhc-CCCcHHHHHHHHHHhhh
Confidence 356799999999876 33344 49999999999999854
No 127
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=71.17 E-value=3 Score=23.78 Aligned_cols=26 Identities=35% Similarity=0.726 Sum_probs=16.1
Q ss_pred ccCccccccCCCCc-------eeecCCCCCccc
Q 045417 134 ECAVCLNEFEDDET-------LRLIPKCDHVFH 159 (184)
Q Consensus 134 eCaICL~~f~~~~~-------~r~lp~C~H~FH 159 (184)
+|+=|...|+-+|. ...-++|+|.|+
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 68888888865442 122346888774
No 128
>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=70.18 E-value=1.9 Score=27.83 Aligned_cols=37 Identities=19% Similarity=0.396 Sum_probs=19.2
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHH
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL 167 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl 167 (184)
+...|.+|...|.--..-.--..||++|+.+|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4568999999996544333344699999999976554
No 129
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=66.71 E-value=2 Score=39.49 Aligned_cols=42 Identities=31% Similarity=0.793 Sum_probs=25.5
Q ss_pred CCcccCcccc-----ccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 045417 131 GALECAVCLN-----EFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVC 176 (184)
Q Consensus 131 ~~~eCaICL~-----~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~C 176 (184)
.+.-|.+|-. .|+. +.++....|+++||..|... ....||-|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~-~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFET-RNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCccccccc-ccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 3456777722 2332 23333335999999999654 33449999
No 130
>PHA02849 putative transmembrane protein; Provisional
Probab=66.68 E-value=13 Score=25.10 Aligned_cols=32 Identities=19% Similarity=0.575 Sum_probs=16.5
Q ss_pred CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 045417 50 NMKFSPSLAIIIVVLISALFFMGFFSIYIRHC 81 (184)
Q Consensus 50 ~~~~~~~~~iii~vli~~l~~l~~~~i~~r~~ 81 (184)
+.+|....++++.+++.+..++.++.+|.-+|
T Consensus 9 d~~f~~g~v~vi~v~v~vI~i~~flLlyLvkw 40 (82)
T PHA02849 9 DIEFDAGAVTVILVFVLVISFLAFMLLYLIKW 40 (82)
T ss_pred ccccccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555555555554433
No 131
>PF15050 SCIMP: SCIMP protein
Probab=66.66 E-value=12 Score=27.35 Aligned_cols=25 Identities=20% Similarity=0.416 Sum_probs=11.6
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHH
Q 045417 52 KFSPSLAIIIVVLISALFFMGFFSIY 77 (184)
Q Consensus 52 ~~~~~~~iii~vli~~l~~l~~~~i~ 77 (184)
.||.++++. +|++++.+.++++.++
T Consensus 7 nFWiiLAVa-II~vS~~lglIlyCvc 31 (133)
T PF15050_consen 7 NFWIILAVA-IILVSVVLGLILYCVC 31 (133)
T ss_pred chHHHHHHH-HHHHHHHHHHHHHHHH
Confidence 467666655 3334433333343333
No 132
>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=66.02 E-value=5.4 Score=24.46 Aligned_cols=36 Identities=17% Similarity=0.414 Sum_probs=26.5
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHHHHHHh
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 168 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~ 168 (184)
..|.+|-..|..-..-.....||++|+.+|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 479999988876443333446999999999877653
No 133
>PF15102 TMEM154: TMEM154 protein family
Probab=64.85 E-value=4.3 Score=30.71 Aligned_cols=6 Identities=33% Similarity=1.387 Sum_probs=3.5
Q ss_pred HHHHHh
Q 045417 163 IDAWLE 168 (184)
Q Consensus 163 I~~Wl~ 168 (184)
+|.|..
T Consensus 130 ldkwm~ 135 (146)
T PF15102_consen 130 LDKWMN 135 (146)
T ss_pred HHhHHH
Confidence 566653
No 134
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=64.03 E-value=9.2 Score=32.74 Aligned_cols=54 Identities=30% Similarity=0.663 Sum_probs=35.6
Q ss_pred CCCCCcccCccccccC---------------CCC-ceeecCCCCCcccHHHHHHHHhc---------CCCCccccCCCCC
Q 045417 128 VGKGALECAVCLNEFE---------------DDE-TLRLIPKCDHVFHPECIDAWLES---------HTTCPVCRSNLAS 182 (184)
Q Consensus 128 ~~~~~~eCaICL~~f~---------------~~~-~~r~lp~C~H~FH~~CI~~Wl~~---------~~~CP~CR~~l~~ 182 (184)
.+....+|++|+..=. .|. ....-| |||+--.+-..-|-+- +..||.|-..|..
T Consensus 337 ~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 337 TGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 3445779999997521 111 122344 9999888888888632 4579999877754
No 136
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.60 E-value=2.7 Score=39.87 Aligned_cols=42 Identities=19% Similarity=0.564 Sum_probs=29.1
Q ss_pred cccCccccccCC-C---CceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 045417 133 LECAVCLNEFED-D---ETLRLIPKCDHVFHPECIDAWLESHTTCPVC 176 (184)
Q Consensus 133 ~eCaICL~~f~~-~---~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~C 176 (184)
..|.-|.+..-. + +.+.++ .|||+||..|+..-..++. |-.|
T Consensus 785 ~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 785 ERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHhcc-cChh
Confidence 379999887652 2 355556 4999999999987765443 5444
No 137
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=62.00 E-value=7 Score=33.44 Aligned_cols=48 Identities=19% Similarity=0.474 Sum_probs=36.5
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNL 180 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 180 (184)
.+|+||-+.....+...+--.|++..|..|...-...+.+||.||++.
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~ 297 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcc
Confidence 689999998855444333224888888888888888899999999754
No 138
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=60.84 E-value=43 Score=28.77 Aligned_cols=46 Identities=22% Similarity=0.509 Sum_probs=34.8
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC---CCCcccc
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH---TTCPVCR 177 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR 177 (184)
+-..|++=-+.-.+...-.++. |||+.-.+-++.--++. ..||+|-
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 4567999777766666666775 99999999998876543 4699993
No 139
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=58.75 E-value=12 Score=32.16 Aligned_cols=70 Identities=26% Similarity=0.459 Sum_probs=44.8
Q ss_pred CCHHHHhhCCceeecccccccCCCCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccC
Q 045417 107 LDREVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 107 l~~~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
+.+..-.-+|...+.++.... ..+...|-.|.++.......+-- .|.|.||.+|=.---.+=..||.|..
T Consensus 306 LARSyhhL~PL~~F~Eip~~~-~~~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 306 LARSYHHLFPLKPFVEIPETE-YNGSRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred HHHHHHhhcCCcchhhccccc-cCCCcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 444455556666665543221 22344599998888777766654 59999999994333344457999974
No 140
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.52 E-value=4.9 Score=35.21 Aligned_cols=46 Identities=24% Similarity=0.481 Sum_probs=32.1
Q ss_pred CCcccCccccccCCCC-ceeecCCCCCcccHHHHHHHHhcCCCCccc
Q 045417 131 GALECAVCLNEFEDDE-TLRLIPKCDHVFHPECIDAWLESHTTCPVC 176 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~-~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~C 176 (184)
.-..|+.|.-.++..+ ...+.-.|||.|+..|...|...+..|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 3457999987765443 222222499999999999998777766444
No 141
>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=58.43 E-value=7 Score=36.40 Aligned_cols=18 Identities=11% Similarity=0.157 Sum_probs=9.0
Q ss_pred CCCCcchHHHHHHHHHHH
Q 045417 49 SNMKFSPSLAIIIVVLIS 66 (184)
Q Consensus 49 ~~~~~~~~~~iii~vli~ 66 (184)
...+.|.++++++-++++
T Consensus 265 ~~~NlWII~gVlvPv~vV 282 (684)
T PF12877_consen 265 PPNNLWIIAGVLVPVLVV 282 (684)
T ss_pred CCCCeEEEehHhHHHHHH
Confidence 345566655554444333
No 142
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=57.53 E-value=5.1 Score=36.79 Aligned_cols=36 Identities=22% Similarity=0.606 Sum_probs=25.7
Q ss_pred CCCcccCccccccCC-----------CCceeecCCCCCcccHHHHHHHH
Q 045417 130 KGALECAVCLNEFED-----------DETLRLIPKCDHVFHPECIDAWL 167 (184)
Q Consensus 130 ~~~~eCaICL~~f~~-----------~~~~r~lp~C~H~FH~~CI~~Wl 167 (184)
...-.|+||.|.|+. .+.+.+. =|-+||..|+++--
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le--~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE--FGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec--cCceeeccccchHH
Confidence 355689999999963 2344442 48899999997753
No 143
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=57.11 E-value=6.5 Score=37.33 Aligned_cols=50 Identities=30% Similarity=0.658 Sum_probs=33.7
Q ss_pred CCCCCcccCccccccCC---------CCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 128 VGKGALECAVCLNEFED---------DETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 128 ~~~~~~eCaICL~~f~~---------~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
....+..|+-|...|-. +...-+.|.|.|.-|.+=|.. ...||+|...+.
T Consensus 1127 i~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1127 IDPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSMES 1185 (1189)
T ss_pred CCccCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChhh
Confidence 34456677777777742 223345677999999887665 478999977543
No 144
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=56.33 E-value=17 Score=26.82 Aligned_cols=27 Identities=26% Similarity=0.459 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 045417 57 LAIIIVVLISALFFMGFFSIYIRHCSD 83 (184)
Q Consensus 57 ~~iii~vli~~l~~l~~~~i~~r~~~~ 83 (184)
+.|++++.+..+|.++++.-|+|-.++
T Consensus 45 lYIL~vmgfFgff~~gImlsyvRSKK~ 71 (129)
T PF02060_consen 45 LYILVVMGFFGFFTVGIMLSYVRSKKR 71 (129)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ehHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 455555555666667777777775433
No 145
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=54.79 E-value=20 Score=24.83 Aligned_cols=39 Identities=18% Similarity=0.382 Sum_probs=31.2
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
....|.-|.....--|.+ | |-.|+..+..|..|++++..
T Consensus 32 ~rS~C~~C~~~L~~~~lI---P----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLI---P----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCcCcCCCCcCcccccc---h----------HHHHHHhCCCCcccCCCCCh
Confidence 345899998887765544 6 88999999999999998764
No 146
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=54.78 E-value=10 Score=23.35 Aligned_cols=28 Identities=25% Similarity=0.469 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 045417 56 SLAIIIVVLISALFFMGFFSIYIRHCSD 83 (184)
Q Consensus 56 ~~~iii~vli~~l~~l~~~~i~~r~~~~ 83 (184)
++-+.-.++.+++|+++++++.-++|..
T Consensus 13 tLrigGLi~A~vlfi~Gi~iils~kckC 40 (50)
T PF02038_consen 13 TLRIGGLIFAGVLFILGILIILSGKCKC 40 (50)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCTTHHHH
T ss_pred HhhccchHHHHHHHHHHHHHHHcCcccc
Confidence 5556666666777888888777666654
No 147
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=54.32 E-value=9 Score=30.90 Aligned_cols=33 Identities=21% Similarity=0.389 Sum_probs=16.7
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Q 045417 51 MKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSS 85 (184)
Q Consensus 51 ~~~~~~~~iii~vli~~l~~l~~~~i~~r~~~~~~ 85 (184)
...+..++||.+++.+++++ ++..++|+|+...
T Consensus 35 d~~~I~iaiVAG~~tVILVI--~i~v~vR~CRq~~ 67 (221)
T PF08374_consen 35 DYVKIMIAIVAGIMTVILVI--FIVVLVRYCRQSP 67 (221)
T ss_pred cceeeeeeeecchhhhHHHH--HHHHHHHHHhhcc
Confidence 34555555555555444433 3334557777443
No 148
>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=53.60 E-value=7.6 Score=28.52 Aligned_cols=31 Identities=13% Similarity=0.079 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCC
Q 045417 57 LAIIIVVLISALFFMGFFSIYIRHCSDSSNS 87 (184)
Q Consensus 57 ~~iii~vli~~l~~l~~~~i~~r~~~~~~~~ 87 (184)
-..+++|++++++.++.+++++.+|.+|+++
T Consensus 63 ~~~i~~Ii~gv~aGvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 63 EPAIIGIIFGVMAGVIGIILLISYCIRRLRK 93 (122)
T ss_dssp -TCHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred ccceeehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4444444455555444444556666655544
No 149
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=53.25 E-value=7.7 Score=21.46 Aligned_cols=9 Identities=44% Similarity=1.092 Sum_probs=6.4
Q ss_pred CCCCccccC
Q 045417 170 HTTCPVCRS 178 (184)
Q Consensus 170 ~~~CP~CR~ 178 (184)
...||+|.+
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 447888865
No 150
>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=53.01 E-value=8.8 Score=25.07 Aligned_cols=11 Identities=27% Similarity=1.050 Sum_probs=8.2
Q ss_pred ccHHHHHHHHh
Q 045417 158 FHPECIDAWLE 168 (184)
Q Consensus 158 FH~~CI~~Wl~ 168 (184)
||..|+..|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999984
No 151
>PHA02902 putative IMV membrane protein; Provisional
Probab=52.62 E-value=62 Score=21.03 Aligned_cols=15 Identities=20% Similarity=0.450 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHH
Q 045417 66 SALFFMGFFSIYIRH 80 (184)
Q Consensus 66 ~~l~~l~~~~i~~r~ 80 (184)
++.+.++++..|.|.
T Consensus 13 v~Ivclliya~YrR~ 27 (70)
T PHA02902 13 VIIFCLLIYAAYKRY 27 (70)
T ss_pred HHHHHHHHHHHHHHh
Confidence 333444455555554
No 152
>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=52.17 E-value=13 Score=19.87 Aligned_cols=29 Identities=24% Similarity=0.599 Sum_probs=10.5
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHH
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECI 163 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI 163 (184)
.|.+|-++... +....-+.|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 57888887766 334444459999999985
No 153
>PF03229 Alpha_GJ: Alphavirus glycoprotein J; InterPro: IPR004913 The exact function of the herpesvirus glycoprotein J is unknown, but it appears to play a role in the inhibition of apotosis of the host cell [].; GO: 0019050 suppression by virus of host apoptosis
Probab=50.99 E-value=35 Score=24.85 Aligned_cols=33 Identities=24% Similarity=0.296 Sum_probs=17.0
Q ss_pred cchHHHHHHHHHHHH-HHHHHHHHHHHHHhccCC
Q 045417 53 FSPSLAIIIVVLISA-LFFMGFFSIYIRHCSDSS 85 (184)
Q Consensus 53 ~~~~~~iii~vli~~-l~~l~~~~i~~r~~~~~~ 85 (184)
...++-.+|+-+.++ +..++...+.-|.|++..
T Consensus 82 ~d~aLp~VIGGLcaL~LaamGA~~LLrR~cRr~a 115 (126)
T PF03229_consen 82 VDFALPLVIGGLCALTLAAMGAGALLRRCCRRAA 115 (126)
T ss_pred cccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455555554443 345666666555555443
No 154
>PRK05978 hypothetical protein; Provisional
Probab=50.88 E-value=10 Score=28.83 Aligned_cols=23 Identities=22% Similarity=0.680 Sum_probs=18.6
Q ss_pred CcccHHHHHHHHhcCCCCccccCCCCCC
Q 045417 156 HVFHPECIDAWLESHTTCPVCRSNLASE 183 (184)
Q Consensus 156 H~FH~~CI~~Wl~~~~~CP~CR~~l~~~ 183 (184)
|.|+ .+|+-+.+||.|-.++...
T Consensus 43 ~LF~-----g~Lkv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 43 KLFR-----AFLKPVDHCAACGEDFTHH 65 (148)
T ss_pred cccc-----cccccCCCccccCCccccC
Confidence 6775 7888899999998877654
No 155
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=50.83 E-value=11 Score=23.22 Aligned_cols=23 Identities=26% Similarity=0.768 Sum_probs=12.5
Q ss_pred CCCCcccHHHHHHHHhcCCCCccc
Q 045417 153 KCDHVFHPECIDAWLESHTTCPVC 176 (184)
Q Consensus 153 ~C~H~FH~~CI~~Wl~~~~~CP~C 176 (184)
.|||.|... |..-......||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-HhhhccCCCCCCCC
Confidence 466655433 22222456679988
No 156
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=50.32 E-value=4.7 Score=24.89 Aligned_cols=12 Identities=33% Similarity=0.905 Sum_probs=5.8
Q ss_pred CCCccccCCCCC
Q 045417 171 TTCPVCRSNLAS 182 (184)
Q Consensus 171 ~~CP~CR~~l~~ 182 (184)
..||+|.+++.+
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 379999887653
No 157
>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=50.30 E-value=4.8 Score=35.34 Aligned_cols=66 Identities=26% Similarity=0.476 Sum_probs=7.3
Q ss_pred HHHhhCCceeecccccccCCCCCcccCccccccCC-----------CCceeecCCCCCcccHHHHHHHHh------cCCC
Q 045417 110 EVIDTFPTFVYSDVKTLKVGKGALECAVCLNEFED-----------DETLRLIPKCDHVFHPECIDAWLE------SHTT 172 (184)
Q Consensus 110 ~~i~~~p~~~~~~~~~~~~~~~~~eCaICL~~f~~-----------~~~~r~lp~C~H~FH~~CI~~Wl~------~~~~ 172 (184)
+-+...|+...-+.-..+.+..-..|+|=|..+.- .+.-..+ +|||++- ...|-. +..+
T Consensus 255 ~gL~~~Pt~~~Le~~~~~lNa~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl-~CGHVhG---~h~Wg~~~~~~~~~r~ 330 (416)
T PF04710_consen 255 EGLAHSPTKKHLEALRQELNAGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYL-NCGHVHG---YHNWGQDSDRDPRSRT 330 (416)
T ss_dssp HHHHHS-CCHHHHHHCHHSS------------------------------------------------------------
T ss_pred hhhhcCCcHHHHHHHHHHHhhcCCCCCcCCCccccccccccccccccCceeec-cccceee---eccccccccccccccc
Confidence 34444455433222223344456689887766532 1122234 5999865 346752 2457
Q ss_pred CccccCC
Q 045417 173 CPVCRSN 179 (184)
Q Consensus 173 CP~CR~~ 179 (184)
||+||..
T Consensus 331 CPlCr~~ 337 (416)
T PF04710_consen 331 CPLCRQV 337 (416)
T ss_dssp -------
T ss_pred CCCcccc
Confidence 9999874
No 158
>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=50.09 E-value=1e+02 Score=25.24 Aligned_cols=8 Identities=25% Similarity=0.538 Sum_probs=3.6
Q ss_pred HHHHhccC
Q 045417 77 YIRHCSDS 84 (184)
Q Consensus 77 ~~r~~~~~ 84 (184)
++|.|+..
T Consensus 210 Lyr~C~k~ 217 (259)
T PF07010_consen 210 LYRMCWKT 217 (259)
T ss_pred HHHHhhcC
Confidence 34445444
No 159
>PF14979 TMEM52: Transmembrane 52
Probab=50.06 E-value=70 Score=24.30 Aligned_cols=21 Identities=19% Similarity=0.385 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHhccCCC
Q 045417 66 SALFFMGFFSIYIRHCSDSSN 86 (184)
Q Consensus 66 ~~l~~l~~~~i~~r~~~~~~~ 86 (184)
.++++-|+....+|.|..+++
T Consensus 30 ~llLLCG~ta~C~rfCClrk~ 50 (154)
T PF14979_consen 30 FLLLLCGLTASCVRFCCLRKQ 50 (154)
T ss_pred HHHHHHHHHHHHHHHHHhccc
Confidence 334455667777885555554
No 160
>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=49.27 E-value=5.6 Score=34.91 Aligned_cols=50 Identities=26% Similarity=0.601 Sum_probs=0.0
Q ss_pred CcccCccccccCC---------------C-CceeecCCCCCcccHHHHHHHHhc---------CCCCccccCCCCC
Q 045417 132 ALECAVCLNEFED---------------D-ETLRLIPKCDHVFHPECIDAWLES---------HTTCPVCRSNLAS 182 (184)
Q Consensus 132 ~~eCaICL~~f~~---------------~-~~~r~lp~C~H~FH~~CI~~Wl~~---------~~~CP~CR~~l~~ 182 (184)
..+|++|+..=.- + -....-| |||+--.+...-|-+- +..||.|-..|..
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 6689999965310 1 1223345 9999888889889531 3579999888764
No 161
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=48.97 E-value=4.2 Score=34.27 Aligned_cols=40 Identities=28% Similarity=0.737 Sum_probs=29.8
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
+..|+-|.+.+-+.+.||. .-.|+||.+|+ .|=+|++.|.
T Consensus 92 GTKCsaC~~GIpPtqVVRk--Aqd~VYHl~CF--------~C~iC~R~L~ 131 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRK--AQDFVYHLHCF--------ACFICKRQLA 131 (383)
T ss_pred CCcchhhcCCCChHHHHHH--hhcceeehhhh--------hhHhhhcccc
Confidence 4479999998888888877 36799999995 3666665553
No 162
>PRK09458 pspB phage shock protein B; Provisional
Probab=48.78 E-value=46 Score=22.29 Aligned_cols=10 Identities=30% Similarity=0.488 Sum_probs=4.4
Q ss_pred CCCCHHHHhh
Q 045417 105 RGLDREVIDT 114 (184)
Q Consensus 105 ~gl~~~~i~~ 114 (184)
+|++.+..+.
T Consensus 34 ~~Ls~~d~~~ 43 (75)
T PRK09458 34 QGLSQEEQQR 43 (75)
T ss_pred CCCCHHHHHH
Confidence 4454444333
No 163
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=48.51 E-value=14 Score=25.95 Aligned_cols=34 Identities=26% Similarity=0.687 Sum_probs=22.8
Q ss_pred CCcccCccccccCCCCceee-cCCCCCcccHHHHHHH
Q 045417 131 GALECAVCLNEFEDDETLRL-IPKCDHVFHPECIDAW 166 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~-lp~C~H~FH~~CI~~W 166 (184)
....|.||... .|..++- -+.|...||..|....
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 45689999988 3333321 1238889999997653
No 164
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=48.49 E-value=5 Score=24.97 Aligned_cols=21 Identities=29% Similarity=0.564 Sum_probs=15.9
Q ss_pred CceeecCCCCCcccHHHHHHH
Q 045417 146 ETLRLIPKCDHVFHPECIDAW 166 (184)
Q Consensus 146 ~~~r~lp~C~H~FH~~CI~~W 166 (184)
+.....+.|+|.|+..|-.+|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 344455569999999998888
No 165
>PF05808 Podoplanin: Podoplanin; InterPro: IPR008783 This family consists of several mammalian podoplanin-like proteins which are thought to control specifically the unique shape of podocytes [].; GO: 0016021 integral to membrane; PDB: 3IET_X.
Probab=48.38 E-value=5.9 Score=30.48 Aligned_cols=33 Identities=24% Similarity=0.378 Sum_probs=0.0
Q ss_pred CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 045417 50 NMKFSPSLAIIIVVLISALFFMGFFSIYIRHCS 82 (184)
Q Consensus 50 ~~~~~~~~~iii~vli~~l~~l~~~~i~~r~~~ 82 (184)
....-..+.||+++++++.|+.+++++..|+..
T Consensus 125 GL~T~tLVGIIVGVLlaIG~igGIIivvvRKmS 157 (162)
T PF05808_consen 125 GLSTVTLVGIIVGVLLAIGFIGGIIIVVVRKMS 157 (162)
T ss_dssp ---------------------------------
T ss_pred CcceeeeeeehhhHHHHHHHHhheeeEEeehhc
Confidence 344556778899999999999888888888643
No 166
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.03 E-value=12 Score=31.75 Aligned_cols=49 Identities=20% Similarity=0.509 Sum_probs=38.6
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
.....|-||...+.-.... ..|.|.|+..|-..|......||.||....
T Consensus 103 ~~~~~~~~~~g~l~vpt~~---qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRI---QGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEecccc---cCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 3455788898887655443 249999999999999998899999987654
No 167
>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=46.12 E-value=15 Score=30.87 Aligned_cols=24 Identities=13% Similarity=0.231 Sum_probs=14.8
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHH
Q 045417 54 SPSLAIIIVVLISALFFMGFFSIY 77 (184)
Q Consensus 54 ~~~~~iii~vli~~l~~l~~~~i~ 77 (184)
+..+-|++++.++++++++++.++
T Consensus 270 ~~~vPIaVG~~La~lvlivLiaYl 293 (306)
T PF01299_consen 270 SDLVPIAVGAALAGLVLIVLIAYL 293 (306)
T ss_pred cchHHHHHHHHHHHHHHHHHHhhe
Confidence 456666677766666666555443
No 168
>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=45.92 E-value=58 Score=28.66 Aligned_cols=32 Identities=13% Similarity=0.395 Sum_probs=14.4
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 045417 51 MKFSPSLAIIIVVLISALFFMGFFSIYIRHCS 82 (184)
Q Consensus 51 ~~~~~~~~iii~vli~~l~~l~~~~i~~r~~~ 82 (184)
.++...+++.++|-..++++++++..|+..|+
T Consensus 279 R~y~~d~~vtl~iPl~i~llL~llLs~Imc~r 310 (386)
T PF05510_consen 279 RDYFPDFLVTLAIPLIIALLLLLLLSYIMCCR 310 (386)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHheec
Confidence 34444444444444444444444444444333
No 169
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=45.41 E-value=35 Score=24.26 Aligned_cols=24 Identities=25% Similarity=0.603 Sum_probs=18.3
Q ss_pred CCcccHHHHHHHHh---------cCCCCccccC
Q 045417 155 DHVFHPECIDAWLE---------SHTTCPVCRS 178 (184)
Q Consensus 155 ~H~FH~~CI~~Wl~---------~~~~CP~CR~ 178 (184)
.=.|+..|+..+.. .+-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 56699999888863 2346999986
No 170
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=44.28 E-value=39 Score=22.82 Aligned_cols=50 Identities=16% Similarity=0.494 Sum_probs=21.0
Q ss_pred CCcccCccccccC---CCCceeecCCCCCcccHHHHHHHHh-cCCCCccccCCC
Q 045417 131 GALECAVCLNEFE---DDETLRLIPKCDHVFHPECIDAWLE-SHTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~---~~~~~r~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~l 180 (184)
+...|.||-++.- +|+.....-.|+--.+..|.+-=.+ .++.||-|+...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 4558999999874 3443333334666678889876554 466799998653
No 171
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=43.58 E-value=4.4 Score=34.15 Aligned_cols=37 Identities=27% Similarity=0.567 Sum_probs=28.9
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH 170 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~ 170 (184)
..|.+|++++..+....... |.-+||..|+-.|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhh-ccccccccccccccccc
Confidence 38999999998755555543 66699999999999653
No 172
>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=43.57 E-value=71 Score=21.85 Aligned_cols=16 Identities=13% Similarity=0.376 Sum_probs=8.5
Q ss_pred CCCcchHHHHHHHHHH
Q 045417 50 NMKFSPSLAIIIVVLI 65 (184)
Q Consensus 50 ~~~~~~~~~iii~vli 65 (184)
-..+.+++.+.|.+.+
T Consensus 19 ~~~l~pn~lMtILivL 34 (85)
T PF10717_consen 19 LNGLNPNTLMTILIVL 34 (85)
T ss_pred ccccChhHHHHHHHHH
Confidence 3456676665444433
No 173
>PF07406 NICE-3: NICE-3 protein; InterPro: IPR010876 This family consists of several eukaryotic NICE-3 and related proteins. The gene coding for NICE-3 is part of the epidermal differentiation complex (EDC), which comprises a large number of genes that are of crucial importance for the maturation of the human epidermis []. The function of NICE-3 is unknown.
Probab=43.42 E-value=12 Score=29.57 Aligned_cols=17 Identities=18% Similarity=0.380 Sum_probs=9.4
Q ss_pred ccHHHHHHHH--hcCCCCc
Q 045417 158 FHPECIDAWL--ESHTTCP 174 (184)
Q Consensus 158 FH~~CI~~Wl--~~~~~CP 174 (184)
-.-+-+..|| .++..+|
T Consensus 124 ~~G~~~R~~L~~Lr~~~~p 142 (186)
T PF07406_consen 124 LPGENFRSYLLDLRNSSTP 142 (186)
T ss_pred cccccHHHHHHHHHhccCC
Confidence 3345677887 3344444
No 174
>PHA03163 hypothetical protein; Provisional
Probab=43.24 E-value=1.1e+02 Score=21.18 Aligned_cols=10 Identities=30% Similarity=0.547 Sum_probs=4.1
Q ss_pred cccCCCCCCC
Q 045417 34 LAQRSPESPG 43 (184)
Q Consensus 34 ~~~~~~~~~~ 43 (184)
..|..+..|.
T Consensus 26 ~~~~n~t~p~ 35 (92)
T PHA03163 26 LCQNNSTTPH 35 (92)
T ss_pred HHhcCCCCCC
Confidence 3444344343
No 175
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=43.19 E-value=27 Score=22.30 Aligned_cols=36 Identities=14% Similarity=0.285 Sum_probs=26.9
Q ss_pred CCcccCccccccCC--CCceeecCCCCCcccHHHHHHH
Q 045417 131 GALECAVCLNEFED--DETLRLIPKCDHVFHPECIDAW 166 (184)
Q Consensus 131 ~~~eCaICL~~f~~--~~~~r~lp~C~H~FH~~CI~~W 166 (184)
....|+.|-..... .......+.||+.+|.|---.+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA~ 64 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAAR 64 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHHHH
Confidence 34479999998877 5566667779999998865544
No 176
>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=42.92 E-value=71 Score=24.64 Aligned_cols=10 Identities=20% Similarity=0.099 Sum_probs=4.2
Q ss_pred HHHHHhccCC
Q 045417 76 IYIRHCSDSS 85 (184)
Q Consensus 76 i~~r~~~~~~ 85 (184)
+.+|.++.++
T Consensus 112 fvir~~R~r~ 121 (163)
T PF06679_consen 112 FVIRTFRLRR 121 (163)
T ss_pred HHHHHHhhcc
Confidence 3345444433
No 177
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=42.71 E-value=17 Score=25.75 Aligned_cols=34 Identities=18% Similarity=0.381 Sum_probs=27.6
Q ss_pred cccCccccccCCCCceeecCCCCCcccHHHHHHHHh
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLE 168 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~ 168 (184)
..|.||-+++-.|+....+.+ -..|++|+..=..
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 379999999999998877764 5689999977553
No 178
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=42.67 E-value=25 Score=30.56 Aligned_cols=13 Identities=15% Similarity=0.212 Sum_probs=5.2
Q ss_pred CCcchHHHHHHHH
Q 045417 51 MKFSPSLAIIIVV 63 (184)
Q Consensus 51 ~~~~~~~~iii~v 63 (184)
.+.+.++++++++
T Consensus 37 ie~s~~~~~~~~~ 49 (409)
T TIGR00540 37 IEMSITGLAIFFI 49 (409)
T ss_pred EEeeHHHHHHHHH
Confidence 3344444443333
No 179
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=42.54 E-value=14 Score=23.66 Aligned_cols=14 Identities=36% Similarity=1.004 Sum_probs=9.8
Q ss_pred cCCCCccccCCCCC
Q 045417 169 SHTTCPVCRSNLAS 182 (184)
Q Consensus 169 ~~~~CP~CR~~l~~ 182 (184)
....||+|..++..
T Consensus 38 ~~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 38 EEPVCPLCKSPMVS 51 (59)
T ss_pred CCccCCCcCCcccc
Confidence 34679999887653
No 180
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=42.47 E-value=1.1e+02 Score=20.95 Aligned_cols=15 Identities=7% Similarity=0.317 Sum_probs=8.9
Q ss_pred cCCCCHHHHhhCCce
Q 045417 104 ARGLDREVIDTFPTF 118 (184)
Q Consensus 104 ~~gl~~~~i~~~p~~ 118 (184)
+..+..++++.+-.+
T Consensus 49 ~D~lTpDQVrAlHRl 63 (92)
T PHA02681 49 EDKMTDDQVRAFHAL 63 (92)
T ss_pred hccCCHHHHHHHHHH
Confidence 345667777765443
No 181
>PLN02189 cellulose synthase
Probab=42.20 E-value=29 Score=34.35 Aligned_cols=50 Identities=20% Similarity=0.525 Sum_probs=34.5
Q ss_pred CCcccCccccccC---CCCceeecCCCCCcccHHHHHHHH-hcCCCCccccCCC
Q 045417 131 GALECAVCLNEFE---DDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~---~~~~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~l 180 (184)
+...|.||-++.. +|+.-.-...|+--.|..|.+-=. ..++.||-|+...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y 86 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRY 86 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 4458999999975 445444444577778999995433 3456899998754
No 182
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=41.38 E-value=24 Score=24.75 Aligned_cols=36 Identities=17% Similarity=0.371 Sum_probs=28.7
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES 169 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~ 169 (184)
...|.||-++...|+.....+ .-..|.+|+..=..+
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~~ 41 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKRK 41 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHhc
Confidence 458999999999999887765 455899999876543
No 183
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.11 E-value=8.8 Score=34.17 Aligned_cols=39 Identities=23% Similarity=0.447 Sum_probs=27.9
Q ss_pred CCcccCccccccCCCCcee----ecCCCCCcccHHHHHHHHhc
Q 045417 131 GALECAVCLNEFEDDETLR----LIPKCDHVFHPECIDAWLES 169 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r----~lp~C~H~FH~~CI~~Wl~~ 169 (184)
...+|+.|....+.+...- ....|+|.||+.|+..|-..
T Consensus 225 ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 225 NTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred cCccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 4446999999998766221 11239999999998888643
No 184
>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=40.85 E-value=5.3 Score=24.60 Aligned_cols=38 Identities=26% Similarity=0.723 Sum_probs=20.5
Q ss_pred CcccCccccccCCCCceeecCCCCCcccHHHHHHHH--hcCCCCccccCCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL--ESHTTCPVCRSNL 180 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~l 180 (184)
...|+.|-++|...+ + +.|+ .+.=- .+...||+|...+
T Consensus 2 ~f~CP~C~~~~~~~~-L-----~~H~-----~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKGFSESS-L-----VEHC-----EDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCCccCHHH-H-----HHHH-----HhHCcCCCCCccCCCchhhh
Confidence 357999988655422 2 3332 22221 1235699997643
No 185
>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=40.57 E-value=43 Score=28.39 Aligned_cols=10 Identities=50% Similarity=0.604 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 045417 58 AIIIVVLISA 67 (184)
Q Consensus 58 ~iii~vli~~ 67 (184)
+.++++++.+
T Consensus 260 aSiiaIliIV 269 (299)
T PF02009_consen 260 ASIIAILIIV 269 (299)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 186
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.52 E-value=4.5 Score=33.70 Aligned_cols=47 Identities=23% Similarity=0.565 Sum_probs=35.4
Q ss_pred cccCccccccCCC--Cce-eecCC-------CCCcccHHHHHHHHhcC-CCCccccCC
Q 045417 133 LECAVCLNEFEDD--ETL-RLIPK-------CDHVFHPECIDAWLESH-TTCPVCRSN 179 (184)
Q Consensus 133 ~eCaICL~~f~~~--~~~-r~lp~-------C~H~FH~~CI~~Wl~~~-~~CP~CR~~ 179 (184)
..|.||...|... ..+ +++.. |+|..+..|++.-+.+. ..||.||..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 5799999999843 233 33323 99999999999998544 589999864
No 187
>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=40.48 E-value=20 Score=33.47 Aligned_cols=36 Identities=19% Similarity=0.138 Sum_probs=22.8
Q ss_pred CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Q 045417 50 NMKFSPSLAIIIVVLISALFFMGFFSIYIRHCSDSS 85 (184)
Q Consensus 50 ~~~~~~~~~iii~vli~~l~~l~~~~i~~r~~~~~~ 85 (184)
...=+.++.||++|++-+++++++++|++..+.+..
T Consensus 262 ~~s~~~NlWII~gVlvPv~vV~~Iiiil~~~LCRk~ 297 (684)
T PF12877_consen 262 AKSPPNNLWIIAGVLVPVLVVLLIIIILYWKLCRKN 297 (684)
T ss_pred CCCCCCCeEEEehHhHHHHHHHHHHHHHHHHHhccc
Confidence 344466888888888877776665555544444443
No 188
>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=40.23 E-value=89 Score=20.86 Aligned_cols=7 Identities=0% Similarity=0.097 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 045417 74 FSIYIRH 80 (184)
Q Consensus 74 ~~i~~r~ 80 (184)
..++.++
T Consensus 20 ~wl~lHY 26 (75)
T TIGR02976 20 LWLILHY 26 (75)
T ss_pred HHHHHHH
Confidence 3333333
No 189
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=40.12 E-value=3 Score=34.88 Aligned_cols=48 Identities=17% Similarity=0.180 Sum_probs=20.2
Q ss_pred CCcccCccccccCCCCceeecC-CCCCcccHHHHHHHHhcCCCCccccC
Q 045417 131 GALECAVCLNEFEDDETLRLIP-KCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp-~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
....|+||-..-.-+.....-. .-.|.+|.-|=.+|--.+..||.|-.
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 3458999987643211110000 12355777788899888889999943
No 190
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=39.91 E-value=13 Score=31.74 Aligned_cols=47 Identities=15% Similarity=0.297 Sum_probs=29.1
Q ss_pred CCcccCccccccCCCCceeec--CCCCCcccHHHHHHHHhcCCCCccccC
Q 045417 131 GALECAVCLNEFEDDETLRLI--PKCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~l--p~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
....|+||-..-.... ++.- ..=.|.+|.-|=.+|--.+..||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s~-v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSV-VQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhhe-eeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4568999987742210 1110 012245666688889888889999954
No 191
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=39.30 E-value=14 Score=25.69 Aligned_cols=28 Identities=32% Similarity=0.815 Sum_probs=17.4
Q ss_pred CCCCcccHHHHHHHHhcCCCCccccCCCCCCC
Q 045417 153 KCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184 (184)
Q Consensus 153 ~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~p 184 (184)
+||-.|-.+= ++.-+.||-|+.+-..+|
T Consensus 63 kCGfef~~~~----ik~pSRCP~CKSE~Ie~p 90 (97)
T COG3357 63 KCGFEFRDDK----IKKPSRCPKCKSEWIEEP 90 (97)
T ss_pred ccCccccccc----cCCcccCCcchhhcccCC
Confidence 4666665421 233467999988776655
No 192
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=39.25 E-value=24 Score=27.20 Aligned_cols=19 Identities=11% Similarity=0.093 Sum_probs=8.2
Q ss_pred CcchHHHHHHHHHHHHHHH
Q 045417 52 KFSPSLAIIIVVLISALFF 70 (184)
Q Consensus 52 ~~~~~~~iii~vli~~l~~ 70 (184)
.+..++.||++|+++++++
T Consensus 77 ~~~iivgvi~~Vi~Iv~~I 95 (179)
T PF13908_consen 77 ITGIIVGVICGVIAIVVLI 95 (179)
T ss_pred eeeeeeehhhHHHHHHHhH
Confidence 3444444544444433333
No 193
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=39.02 E-value=6.5 Score=23.05 Aligned_cols=24 Identities=33% Similarity=0.749 Sum_probs=13.5
Q ss_pred CCCCcccHHH-HHHHHhcCCCCccccC
Q 045417 153 KCDHVFHPEC-IDAWLESHTTCPVCRS 178 (184)
Q Consensus 153 ~C~H~FH~~C-I~~Wl~~~~~CP~CR~ 178 (184)
+|||.|-..- +.+ .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~--~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE--DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC--CCCCcCCCCCC
Confidence 4777665332 111 23457999987
No 194
>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=38.93 E-value=41 Score=23.28 Aligned_cols=8 Identities=13% Similarity=0.571 Sum_probs=3.1
Q ss_pred HHHHhccC
Q 045417 77 YIRHCSDS 84 (184)
Q Consensus 77 ~~r~~~~~ 84 (184)
|+..|..|
T Consensus 51 wfvCC~kR 58 (94)
T PF05393_consen 51 WFVCCKKR 58 (94)
T ss_pred HHHHHHHh
Confidence 33334333
No 195
>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=38.74 E-value=67 Score=26.26 Aligned_cols=26 Identities=19% Similarity=0.557 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 045417 55 PSLAIIIVVLISALFFMGFFSIYIRH 80 (184)
Q Consensus 55 ~~~~iii~vli~~l~~l~~~~i~~r~ 80 (184)
+.++.++++.+.+|.++|++.++++.
T Consensus 192 pvvIaliVitl~vf~LvgLyr~C~k~ 217 (259)
T PF07010_consen 192 PVVIALIVITLSVFTLVGLYRMCWKT 217 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 33334444445556667777766554
No 196
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=38.73 E-value=91 Score=22.04 Aligned_cols=34 Identities=18% Similarity=0.337 Sum_probs=16.0
Q ss_pred CCCCcchHHHHHHHHHHHHH-HHHHHHHHHHHHhcc
Q 045417 49 SNMKFSPSLAIIIVVLISAL-FFMGFFSIYIRHCSD 83 (184)
Q Consensus 49 ~~~~~~~~~~iii~vli~~l-~~l~~~~i~~r~~~~ 83 (184)
+...=|-+++|.++.+++++ ++.++ ++++|.+.-
T Consensus 13 GsL~PWeIfLItLasVvvavGl~aGL-fFcvR~~ls 47 (106)
T PF14654_consen 13 GSLKPWEIFLITLASVVVAVGLFAGL-FFCVRNSLS 47 (106)
T ss_pred CCccchHHHHHHHHHHHHHHHHHHHH-HHHhhhccc
Confidence 34333445555444444444 44444 445666443
No 197
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.38 E-value=22 Score=30.05 Aligned_cols=40 Identities=20% Similarity=0.398 Sum_probs=30.0
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcC
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESH 170 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~ 170 (184)
..+.|.+|.|.++|-.-|..-.-=+|.||.-|-.+-++++
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 4578999999999866553222235999999999998764
No 198
>PRK11827 hypothetical protein; Provisional
Probab=37.05 E-value=12 Score=24.03 Aligned_cols=19 Identities=37% Similarity=0.623 Sum_probs=13.9
Q ss_pred HHHHhcCCCCccccCCCCC
Q 045417 164 DAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 164 ~~Wl~~~~~CP~CR~~l~~ 182 (184)
+.||..--.||+|+.++..
T Consensus 2 d~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWY 20 (60)
T ss_pred ChHHHhheECCCCCCcCeE
Confidence 4566666679999988753
No 199
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=36.86 E-value=34 Score=24.14 Aligned_cols=28 Identities=18% Similarity=0.357 Sum_probs=18.6
Q ss_pred CCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 154 CDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 154 C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
||+--|.-=+.++-. -.+||.|+.+.+|
T Consensus 65 CGvC~~~LT~~EY~~-~~~Cp~C~spFNp 92 (105)
T COG4357 65 CGVCRKLLTRAEYGM-CGSCPYCQSPFNP 92 (105)
T ss_pred hhhhhhhhhHHHHhh-cCCCCCcCCCCCc
Confidence 666555555566532 3569999998876
No 200
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=36.46 E-value=14 Score=24.87 Aligned_cols=33 Identities=24% Similarity=0.676 Sum_probs=22.2
Q ss_pred CCcccCccccccCCCCcee-ecCCCCCcccHHHHHH
Q 045417 131 GALECAVCLNEFEDDETLR-LIPKCDHVFHPECIDA 165 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r-~lp~C~H~FH~~CI~~ 165 (184)
....|.+|-.. .|..+. ..++|.-.||..|-..
T Consensus 35 ~~~~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 44589999976 243332 1246999999999654
No 201
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=36.43 E-value=23 Score=19.00 Aligned_cols=29 Identities=21% Similarity=0.484 Sum_probs=18.2
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHH
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECI 163 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI 163 (184)
.|.+|-.+..... ...-..|+-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCccC
Confidence 5888877766543 3333357777887773
No 202
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=36.32 E-value=22 Score=25.57 Aligned_cols=47 Identities=26% Similarity=0.464 Sum_probs=27.7
Q ss_pred CCcccCccccccCCC-CceeecCCCCCcccHHHHHHHHhcCC--CCccccC
Q 045417 131 GALECAVCLNEFEDD-ETLRLIPKCDHVFHPECIDAWLESHT--TCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~~-~~~r~lp~C~H~FH~~CI~~Wl~~~~--~CP~CR~ 178 (184)
++..|++|...|.-- ..-.....|+|.+|..|-.. ..+.. .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 566899999987432 12244457999999998544 11111 3777753
No 203
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=35.72 E-value=1.5e+02 Score=22.60 Aligned_cols=11 Identities=27% Similarity=0.365 Sum_probs=5.1
Q ss_pred CCCCHHHHhhC
Q 045417 105 RGLDREVIDTF 115 (184)
Q Consensus 105 ~gl~~~~i~~~ 115 (184)
-+++.+.++.+
T Consensus 108 F~l~~e~i~qL 118 (153)
T PRK14584 108 FALSPELIAQL 118 (153)
T ss_pred cCCCHHHHHHH
Confidence 44444444443
No 204
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=35.71 E-value=2e+02 Score=26.37 Aligned_cols=14 Identities=36% Similarity=0.840 Sum_probs=10.5
Q ss_pred ccHH-HHHHHHhcCC
Q 045417 158 FHPE-CIDAWLESHT 171 (184)
Q Consensus 158 FH~~-CI~~Wl~~~~ 171 (184)
||.. ++..||+++.
T Consensus 289 fh~kGsL~dyL~~nt 303 (534)
T KOG3653|consen 289 FHPKGSLCDYLKANT 303 (534)
T ss_pred eccCCcHHHHHHhcc
Confidence 6665 8999998764
No 205
>PLN02436 cellulose synthase A
Probab=35.68 E-value=41 Score=33.42 Aligned_cols=50 Identities=22% Similarity=0.554 Sum_probs=34.3
Q ss_pred CCcccCcccccc---CCCCceeecCCCCCcccHHHHHHHH-hcCCCCccccCCC
Q 045417 131 GALECAVCLNEF---EDDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f---~~~~~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~l 180 (184)
+...|.||-++. .+||.-.-...|+--.|..|.+-=. ..++.||-|+...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y 88 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRY 88 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 344899999997 4555444434476679999995433 3456799998754
No 206
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=35.55 E-value=34 Score=28.56 Aligned_cols=42 Identities=17% Similarity=0.419 Sum_probs=25.1
Q ss_pred cccCccccccCCCCceeecCCCCC-cccHHHHHHH-HhcCCCCc
Q 045417 133 LECAVCLNEFEDDETLRLIPKCDH-VFHPECIDAW-LESHTTCP 174 (184)
Q Consensus 133 ~eCaICL~~f~~~~~~r~lp~C~H-~FH~~CI~~W-l~~~~~CP 174 (184)
..|.||++---+|..-.-|..-.- .=|.+|++.| +..+..||
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 357777766544432111111111 3589999999 57788898
No 207
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=35.42 E-value=11 Score=24.94 Aligned_cols=39 Identities=26% Similarity=0.614 Sum_probs=17.7
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
.|+.|..+++... +|.++..|-... .....||-|..+|.
T Consensus 3 ~CP~C~~~L~~~~--------~~~~C~~C~~~~-~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 3 TCPKCQQELEWQG--------GHYHCEACQKDY-KKEAFCPDCGQPLE 41 (70)
T ss_dssp B-SSS-SBEEEET--------TEEEETTT--EE-EEEEE-TTT-SB-E
T ss_pred cCCCCCCccEEeC--------CEEECccccccc-eecccCCCcccHHH
Confidence 6788877754322 444555554432 34456888877653
No 208
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=35.37 E-value=13 Score=35.16 Aligned_cols=47 Identities=19% Similarity=0.468 Sum_probs=30.1
Q ss_pred CcccCccccccCCCC-----c--eeecCCCCCcccHHHHHHH----------HhcCCCCccccCC
Q 045417 132 ALECAVCLNEFEDDE-----T--LRLIPKCDHVFHPECIDAW----------LESHTTCPVCRSN 179 (184)
Q Consensus 132 ~~eCaICL~~f~~~~-----~--~r~lp~C~H~FH~~CI~~W----------l~~~~~CP~CR~~ 179 (184)
.-.|-||-|+=++.+ . +-.- .|.-.||..|-..- +.+-+.|-+|+..
T Consensus 117 nKtCYIC~E~GrpnkA~~GACMtCNKs-~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~H 180 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAAKGACMTCNKS-GCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYH 180 (900)
T ss_pred cceeeeecccCCccccccccceecccc-cchhhhhhhHhhhhccceeccccccccceechhHHHH
Confidence 348999999844322 1 1122 47789999997654 1344679999754
No 209
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=34.58 E-value=47 Score=28.82 Aligned_cols=12 Identities=25% Similarity=0.207 Sum_probs=4.7
Q ss_pred CcchHHHHHHHH
Q 045417 52 KFSPSLAIIIVV 63 (184)
Q Consensus 52 ~~~~~~~iii~v 63 (184)
+.+.++++++++
T Consensus 38 e~sl~~~~~~~~ 49 (398)
T PRK10747 38 ETSVTGLAIILI 49 (398)
T ss_pred EehHHHHHHHHH
Confidence 334444433333
No 210
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.42 E-value=36 Score=28.19 Aligned_cols=33 Identities=18% Similarity=0.208 Sum_probs=26.9
Q ss_pred CCcccCccccccCCCCceeecCCCCCcccHHHHHHHH
Q 045417 131 GALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWL 167 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl 167 (184)
+-+-|+.||..+.++... .=||+|..+||-+++
T Consensus 42 ~FdcCsLtLqPc~dPvit----~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDPVIT----PDGYLFDREAILEYI 74 (303)
T ss_pred CcceeeeecccccCCccC----CCCeeeeHHHHHHHH
Confidence 445899999999876443 389999999999886
No 211
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=33.37 E-value=13 Score=32.18 Aligned_cols=47 Identities=23% Similarity=0.526 Sum_probs=24.6
Q ss_pred CCcccCccccccCCCCceeecC--CCCCcc--------cHHHHHHHH-----hcCCCCccccC
Q 045417 131 GALECAVCLNEFEDDETLRLIP--KCDHVF--------HPECIDAWL-----ESHTTCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~lp--~C~H~F--------H~~CI~~Wl-----~~~~~CP~CR~ 178 (184)
.+.-|++|-+.... -..-+|. .|.-.| |..|+++-- ..++.||.||-
T Consensus 14 l~ElCPVCGDkVSG-YHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRF 75 (475)
T KOG4218|consen 14 LGELCPVCGDKVSG-YHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRF 75 (475)
T ss_pred cccccccccCcccc-ceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhH
Confidence 45579999887543 1112222 233333 344543321 23568999985
No 212
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=32.92 E-value=17 Score=23.61 Aligned_cols=12 Identities=33% Similarity=0.479 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHH
Q 045417 58 AIIIVVLISALF 69 (184)
Q Consensus 58 ~iii~vli~~l~ 69 (184)
++|.++++.+++
T Consensus 13 avIaG~Vvgll~ 24 (64)
T PF01034_consen 13 AVIAGGVVGLLF 24 (64)
T ss_dssp ------------
T ss_pred HHHHHHHHHHHH
Confidence 334444443333
No 213
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=32.83 E-value=96 Score=20.49 Aligned_cols=27 Identities=22% Similarity=0.367 Sum_probs=11.4
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHH
Q 045417 53 FSPSLAIIIVVLISALFFMGFFSIYIR 79 (184)
Q Consensus 53 ~~~~~~iii~vli~~l~~l~~~~i~~r 79 (184)
.+|...+++.+.+.+-+++++..+++|
T Consensus 54 ~~P~~~lil~l~~~~Gl~lgi~~~~~r 80 (82)
T PF13807_consen 54 VSPKRALILALGLFLGLILGIGLAFLR 80 (82)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334444433333333344444444554
No 214
>PF05656 DUF805: Protein of unknown function (DUF805); InterPro: IPR008523 This entry is represented by Lactobacillus phage LBR48, DUF805. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0016021 integral to membrane
Probab=32.76 E-value=1.2e+02 Score=21.23 Aligned_cols=14 Identities=14% Similarity=0.230 Sum_probs=7.9
Q ss_pred HHHHHHHHHhccCC
Q 045417 72 GFFSIYIRHCSDSS 85 (184)
Q Consensus 72 ~~~~i~~r~~~~~~ 85 (184)
..+.+.+|++++..
T Consensus 61 ~~lal~vRRlhD~G 74 (120)
T PF05656_consen 61 PSLALTVRRLHDIG 74 (120)
T ss_pred HHHHHHhhhhhcCC
Confidence 34555667665554
No 215
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=32.73 E-value=13 Score=31.57 Aligned_cols=47 Identities=15% Similarity=0.287 Sum_probs=28.7
Q ss_pred CCcccCccccccCCCCceeec---CCCCCcccHHHHHHHHhcCCCCccccC
Q 045417 131 GALECAVCLNEFEDDETLRLI---PKCDHVFHPECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~~~r~l---p~C~H~FH~~CI~~Wl~~~~~CP~CR~ 178 (184)
....|+||-..-..+. ++.. ..=.|.+|.-|=.+|--.+..||.|-.
T Consensus 183 ~~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 3458999987642111 1110 011244666688899888889999954
No 216
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=32.45 E-value=29 Score=25.91 Aligned_cols=21 Identities=38% Similarity=0.955 Sum_probs=15.9
Q ss_pred CCCCCcccHHHHHHHHhcCCCCccccCCC
Q 045417 152 PKCDHVFHPECIDAWLESHTTCPVCRSNL 180 (184)
Q Consensus 152 p~C~H~FH~~CI~~Wl~~~~~CP~CR~~l 180 (184)
++|||+|+. -+..||.|.++-
T Consensus 33 ~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 33 KKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred CCCCeEEcC--------CcccCCCCCCCC
Confidence 579999884 356799998763
No 217
>PRK13415 flagella biosynthesis protein FliZ; Provisional
Probab=32.19 E-value=2.4e+02 Score=22.88 Aligned_cols=6 Identities=67% Similarity=0.983 Sum_probs=2.2
Q ss_pred ccccCC
Q 045417 139 LNEFED 144 (184)
Q Consensus 139 L~~f~~ 144 (184)
|.++.+
T Consensus 137 L~Ei~d 142 (219)
T PRK13415 137 LKEIED 142 (219)
T ss_pred eeecCC
Confidence 333333
No 218
>PF13179 DUF4006: Family of unknown function (DUF4006)
Probab=31.44 E-value=1.1e+02 Score=19.94 Aligned_cols=23 Identities=30% Similarity=0.696 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 045417 57 LAIIIVVLISALFFMGFFSIYIR 79 (184)
Q Consensus 57 ~~iii~vli~~l~~l~~~~i~~r 79 (184)
+.|+.++++++++++++..+-+.
T Consensus 16 ~LIAvvLLLsIl~~lt~~ai~~Q 38 (66)
T PF13179_consen 16 MLIAVVLLLSILAFLTYWAIKVQ 38 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555556666666666555433
No 219
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=31.32 E-value=33 Score=21.51 Aligned_cols=8 Identities=38% Similarity=1.007 Sum_probs=5.7
Q ss_pred ccCccccc
Q 045417 134 ECAVCLNE 141 (184)
Q Consensus 134 eCaICL~~ 141 (184)
-|+||-..
T Consensus 6 ~CP~CgnK 13 (55)
T PF14205_consen 6 LCPICGNK 13 (55)
T ss_pred ECCCCCCc
Confidence 58888744
No 220
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=30.95 E-value=26 Score=26.87 Aligned_cols=43 Identities=21% Similarity=0.509 Sum_probs=27.6
Q ss_pred CccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 136 AVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 136 aICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
.||+..-...+..-.-|.=.+.||.+|=.+-+. .||.|..++-
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~Ir 50 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIR 50 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCC
Confidence 466665554444444343456799999877655 3999987764
No 221
>PF15345 TMEM51: Transmembrane protein 51
Probab=30.67 E-value=37 Score=27.73 Aligned_cols=11 Identities=27% Similarity=0.223 Sum_probs=5.0
Q ss_pred chHHHHHHHHH
Q 045417 54 SPSLAIIIVVL 64 (184)
Q Consensus 54 ~~~~~iii~vl 64 (184)
..+++++++..
T Consensus 57 t~SVAyVLVG~ 67 (233)
T PF15345_consen 57 TFSVAYVLVGS 67 (233)
T ss_pred eEEEEEehhhH
Confidence 34445544443
No 222
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=30.48 E-value=24 Score=18.42 Aligned_cols=9 Identities=44% Similarity=1.231 Sum_probs=6.2
Q ss_pred CCccccCCC
Q 045417 172 TCPVCRSNL 180 (184)
Q Consensus 172 ~CP~CR~~l 180 (184)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 588886654
No 223
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=30.40 E-value=1.2e+02 Score=25.05 Aligned_cols=7 Identities=43% Similarity=1.156 Sum_probs=4.8
Q ss_pred HHHHHhc
Q 045417 163 IDAWLES 169 (184)
Q Consensus 163 I~~Wl~~ 169 (184)
.+.|+++
T Consensus 216 f~~W~~~ 222 (247)
T COG1622 216 FDAWVAE 222 (247)
T ss_pred HHHHHHh
Confidence 7777754
No 224
>PHA02657 hypothetical protein; Provisional
Probab=29.62 E-value=1.2e+02 Score=20.89 Aligned_cols=15 Identities=20% Similarity=0.450 Sum_probs=8.2
Q ss_pred CCCCcchHHHHHHHH
Q 045417 49 SNMKFSPSLAIIIVV 63 (184)
Q Consensus 49 ~~~~~~~~~~iii~v 63 (184)
-...|..+++|.+.+
T Consensus 20 ~~~~~~~imVitvfv 34 (95)
T PHA02657 20 MKINFESILVFTIFI 34 (95)
T ss_pred EEecchhhhHHHHHH
Confidence 345666666554433
No 225
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=29.60 E-value=30 Score=33.39 Aligned_cols=35 Identities=20% Similarity=0.281 Sum_probs=24.7
Q ss_pred cccCccccccCCCC---ceee--cCCCCCcccHHHHHHHH
Q 045417 133 LECAVCLNEFEDDE---TLRL--IPKCDHVFHPECIDAWL 167 (184)
Q Consensus 133 ~eCaICL~~f~~~~---~~r~--lp~C~H~FH~~CI~~Wl 167 (184)
..|..|-..|..-. ..|. ..+||.+||..|-+...
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 57999999995321 1122 33599999999987664
No 226
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.36 E-value=86 Score=22.81 Aligned_cols=7 Identities=0% Similarity=0.059 Sum_probs=2.8
Q ss_pred cchHHHH
Q 045417 53 FSPSLAI 59 (184)
Q Consensus 53 ~~~~~~i 59 (184)
||..+-+
T Consensus 88 wWkn~Km 94 (116)
T KOG0860|consen 88 WWKNCKM 94 (116)
T ss_pred HHHHHHH
Confidence 3444433
No 227
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=29.17 E-value=42 Score=25.05 Aligned_cols=39 Identities=23% Similarity=0.529 Sum_probs=22.2
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLAS 182 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~ 182 (184)
.....|+-|-..|...+....... ..+..||.|...|..
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~d~--------------~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLLDM--------------DGTFTCPRCGEELEE 135 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhcCC--------------CCcEECCCCCCEEEE
Confidence 455678777777665443322110 123569999887643
No 228
>PRK01343 zinc-binding protein; Provisional
Probab=29.05 E-value=37 Score=21.53 Aligned_cols=11 Identities=27% Similarity=0.767 Sum_probs=6.8
Q ss_pred CCCccccCCCC
Q 045417 171 TTCPVCRSNLA 181 (184)
Q Consensus 171 ~~CP~CR~~l~ 181 (184)
..||+|++...
T Consensus 10 ~~CP~C~k~~~ 20 (57)
T PRK01343 10 RPCPECGKPST 20 (57)
T ss_pred CcCCCCCCcCc
Confidence 45777766543
No 229
>PF15353 HECA: Headcase protein family homologue
Probab=28.83 E-value=36 Score=24.35 Aligned_cols=13 Identities=31% Similarity=0.992 Sum_probs=11.8
Q ss_pred CCCcccHHHHHHH
Q 045417 154 CDHVFHPECIDAW 166 (184)
Q Consensus 154 C~H~FH~~CI~~W 166 (184)
.++..|.+|++.|
T Consensus 40 ~~~~MH~~CF~~w 52 (107)
T PF15353_consen 40 FGQYMHRECFEKW 52 (107)
T ss_pred CCCchHHHHHHHH
Confidence 5788999999999
No 230
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=28.57 E-value=29 Score=24.91 Aligned_cols=26 Identities=23% Similarity=0.567 Sum_probs=16.5
Q ss_pred ccCccccccCCCC-ceeecCCCCCccc
Q 045417 134 ECAVCLNEFEDDE-TLRLIPKCDHVFH 159 (184)
Q Consensus 134 eCaICL~~f~~~~-~~r~lp~C~H~FH 159 (184)
.|+-|-.+|.-.+ .+.+.|.|+|.+-
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW~ 30 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEWN 30 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccccc
Confidence 6888888875332 2345566777653
No 231
>PHA03291 envelope glycoprotein I; Provisional
Probab=28.37 E-value=57 Score=28.42 Aligned_cols=30 Identities=20% Similarity=0.234 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Q 045417 56 SLAIIIVVLISALFFMGFFSIYIRHCSDSS 85 (184)
Q Consensus 56 ~~~iii~vli~~l~~l~~~~i~~r~~~~~~ 85 (184)
++.|.|-+.|.+++++|-.+.++.+|.+++
T Consensus 288 iiQiAIPasii~cV~lGSC~Ccl~R~~rRr 317 (401)
T PHA03291 288 IIQIAIPASIIACVFLGSCACCLHRRCRRR 317 (401)
T ss_pred hheeccchHHHHHhhhhhhhhhhhhhhhcc
Confidence 334444444555555655544444444443
No 232
>PHA02844 putative transmembrane protein; Provisional
Probab=28.03 E-value=1.9e+02 Score=19.33 Aligned_cols=7 Identities=14% Similarity=0.624 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 045417 73 FFSIYIR 79 (184)
Q Consensus 73 ~~~i~~r 79 (184)
+...|.+
T Consensus 64 ~~flYLK 70 (75)
T PHA02844 64 LTFLYLK 70 (75)
T ss_pred HHHHHHh
Confidence 3333433
No 233
>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein. gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.
Probab=27.60 E-value=20 Score=32.01 Aligned_cols=10 Identities=20% Similarity=0.448 Sum_probs=0.0
Q ss_pred HHHHHHHHHH
Q 045417 56 SLAIIIVVLI 65 (184)
Q Consensus 56 ~~~iii~vli 65 (184)
.+++++++++
T Consensus 354 ~l~vVlgvav 363 (439)
T PF02480_consen 354 LLGVVLGVAV 363 (439)
T ss_dssp ----------
T ss_pred hHHHHHHHHH
Confidence 3333333333
No 234
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=27.23 E-value=64 Score=19.72 Aligned_cols=40 Identities=28% Similarity=0.590 Sum_probs=20.3
Q ss_pred cccCccccccCCC--CceeecCCCCCcccHHHHHHHHhcCCCCccccCC
Q 045417 133 LECAVCLNEFEDD--ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSN 179 (184)
Q Consensus 133 ~eCaICL~~f~~~--~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 179 (184)
.+|.+|.-.|.+. +...-.+ -|-.|-. |-....||+|.+.
T Consensus 2 y~C~~CgyiYd~~~Gd~~~~i~-pGt~f~~------Lp~~w~CP~C~a~ 43 (50)
T cd00730 2 YECRICGYIYDPAEGDPDEGIP-PGTPFED------LPDDWVCPVCGAG 43 (50)
T ss_pred cCCCCCCeEECCCCCCcccCcC-CCCCHhH------CCCCCCCCCCCCc
Confidence 3688888777653 2211111 2222211 2345589999753
No 235
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.00 E-value=33 Score=23.91 Aligned_cols=11 Identities=27% Similarity=1.054 Sum_probs=10.1
Q ss_pred ccHHHHHHHHh
Q 045417 158 FHPECIDAWLE 168 (184)
Q Consensus 158 FH~~CI~~Wl~ 168 (184)
||..|+..|..
T Consensus 43 FCRNCLs~Wy~ 53 (104)
T COG3492 43 FCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHH
Confidence 99999999984
No 236
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=26.46 E-value=30 Score=32.84 Aligned_cols=36 Identities=25% Similarity=0.673 Sum_probs=26.7
Q ss_pred CceeecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 146 ETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 146 ~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
..+...|.|.-+||.+=++.-.-++..||.||..-.
T Consensus 1042 ~~it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1042 ASITMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred chhhhCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 345556677788887777777778899999997644
No 237
>KOG4080 consensus Mitochondrial ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=26.40 E-value=24 Score=27.27 Aligned_cols=10 Identities=20% Similarity=0.448 Sum_probs=5.3
Q ss_pred CcccHHHHHH
Q 045417 156 HVFHPECIDA 165 (184)
Q Consensus 156 H~FH~~CI~~ 165 (184)
|..|..|...
T Consensus 106 ~~LC~~Cy~k 115 (176)
T KOG4080|consen 106 HTLCDYCYAK 115 (176)
T ss_pred cccHHHHHHH
Confidence 4455666543
No 238
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=26.20 E-value=90 Score=24.26 Aligned_cols=15 Identities=33% Similarity=0.627 Sum_probs=11.0
Q ss_pred hcCCCCccccCCCCC
Q 045417 168 ESHTTCPVCRSNLAS 182 (184)
Q Consensus 168 ~~~~~CP~CR~~l~~ 182 (184)
.....||.|-..|..
T Consensus 134 ~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 134 EYGFRCPQCGEMLEE 148 (178)
T ss_pred hcCCcCCCCCCCCee
Confidence 346779999887753
No 239
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=26.19 E-value=34 Score=30.93 Aligned_cols=16 Identities=31% Similarity=0.590 Sum_probs=11.6
Q ss_pred CCcccCccccccCCCC
Q 045417 131 GALECAVCLNEFEDDE 146 (184)
Q Consensus 131 ~~~eCaICL~~f~~~~ 146 (184)
+..-|+-||+++...+
T Consensus 25 ~~~yCp~CL~~~p~~e 40 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSSE 40 (483)
T ss_pred ceeECccccccCChhh
Confidence 4457999998886554
No 240
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=26.13 E-value=25 Score=36.06 Aligned_cols=49 Identities=31% Similarity=0.551 Sum_probs=37.4
Q ss_pred CCCcccCccccccCCCCceeecCCCCCcccHHHHHHHHhc----CCCCccccCC
Q 045417 130 KGALECAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLES----HTTCPVCRSN 179 (184)
Q Consensus 130 ~~~~eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~----~~~CP~CR~~ 179 (184)
.....|.+|....++.+.+.-. .|.-.||..|+..-+.. ...||-||..
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 4566899999998775444333 48889999999998854 4579999875
No 241
>PLN03207 stomagen; Provisional
Probab=26.13 E-value=2.1e+02 Score=20.32 Aligned_cols=8 Identities=25% Similarity=0.986 Sum_probs=4.8
Q ss_pred CcccHHHH
Q 045417 156 HVFHPECI 163 (184)
Q Consensus 156 H~FH~~CI 163 (184)
-.+|.+|+
T Consensus 103 sayhy~cv 110 (113)
T PLN03207 103 SAYHYKCV 110 (113)
T ss_pred cccccccC
Confidence 45676663
No 242
>PHA03240 envelope glycoprotein M; Provisional
Probab=26.10 E-value=75 Score=25.83 Aligned_cols=20 Identities=35% Similarity=0.464 Sum_probs=9.6
Q ss_pred CCcchHHHHHHHHHHHHHHH
Q 045417 51 MKFSPSLAIIIVVLISALFF 70 (184)
Q Consensus 51 ~~~~~~~~iii~vli~~l~~ 70 (184)
..+|.++++|++++|.++++
T Consensus 212 H~~WIiilIIiIiIIIL~cf 231 (258)
T PHA03240 212 HIAWIFIAIIIIIVIILFFF 231 (258)
T ss_pred hHhHHHHHHHHHHHHHHHHH
Confidence 34555555555554443333
No 243
>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=26.08 E-value=92 Score=26.30 Aligned_cols=16 Identities=13% Similarity=0.216 Sum_probs=9.1
Q ss_pred HHHHHHHHHHhccCCC
Q 045417 71 MGFFSIYIRHCSDSSN 86 (184)
Q Consensus 71 l~~~~i~~r~~~~~~~ 86 (184)
++++++|++-+++|.+
T Consensus 273 vvliiLYiWlyrrRK~ 288 (295)
T TIGR01478 273 VVLIILYIWLYRRRKK 288 (295)
T ss_pred HHHHHHHHHHHHhhcc
Confidence 3445567776655553
No 244
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=25.67 E-value=30 Score=22.19 Aligned_cols=10 Identities=50% Similarity=1.361 Sum_probs=7.8
Q ss_pred CCccccCCCC
Q 045417 172 TCPVCRSNLA 181 (184)
Q Consensus 172 ~CP~CR~~l~ 181 (184)
-||+||.+|.
T Consensus 10 aCP~~kg~L~ 19 (60)
T COG2835 10 ACPVCKGPLV 19 (60)
T ss_pred eccCcCCcce
Confidence 5899988764
No 245
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.58 E-value=1.9e+02 Score=24.06 Aligned_cols=19 Identities=16% Similarity=0.487 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 045417 62 VVLISALFFMGFFSIYIRH 80 (184)
Q Consensus 62 ~vli~~l~~l~~~~i~~r~ 80 (184)
.+++++.++++++.+|.++
T Consensus 6 ~vlVaa~llV~~i~l~l~~ 24 (299)
T KOG3054|consen 6 AVLVAAALLVAVILLFLWK 24 (299)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444443
No 246
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=25.55 E-value=40 Score=26.12 Aligned_cols=8 Identities=38% Similarity=1.402 Sum_probs=5.0
Q ss_pred CCCccccC
Q 045417 171 TTCPVCRS 178 (184)
Q Consensus 171 ~~CP~CR~ 178 (184)
..||+|-+
T Consensus 150 ~~CPiCga 157 (166)
T COG1592 150 EVCPICGA 157 (166)
T ss_pred CcCCCCCC
Confidence 45777754
No 247
>PHA02650 hypothetical protein; Provisional
Probab=25.41 E-value=2.2e+02 Score=19.26 Aligned_cols=7 Identities=14% Similarity=0.240 Sum_probs=2.8
Q ss_pred HHHHHHH
Q 045417 73 FFSIYIR 79 (184)
Q Consensus 73 ~~~i~~r 79 (184)
+...|.+
T Consensus 65 ~~flYLK 71 (81)
T PHA02650 65 FSFFVFK 71 (81)
T ss_pred HHHHHHH
Confidence 3334444
No 248
>COG5416 Uncharacterized integral membrane protein [Function unknown]
Probab=24.96 E-value=2.5e+02 Score=19.75 Aligned_cols=21 Identities=24% Similarity=0.316 Sum_probs=10.9
Q ss_pred CCcchHHHHHHHHHHHHHHHH
Q 045417 51 MKFSPSLAIIIVVLISALFFM 71 (184)
Q Consensus 51 ~~~~~~~~iii~vli~~l~~l 71 (184)
-++..+++++..++...++.+
T Consensus 57 ~~~PLilvil~s~v~G~Li~~ 77 (98)
T COG5416 57 WELPLILVILGAAVVGALIAM 77 (98)
T ss_pred hhhhHHHHHHHHHHHHHHHHH
Confidence 455555555555555544443
No 249
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=24.46 E-value=41 Score=30.29 Aligned_cols=49 Identities=22% Similarity=0.554 Sum_probs=31.4
Q ss_pred CCcccCccc-cccCCCCceeecCCCCCcccHHHHHHHHh----c----CCCCccccCC
Q 045417 131 GALECAVCL-NEFEDDETLRLIPKCDHVFHPECIDAWLE----S----HTTCPVCRSN 179 (184)
Q Consensus 131 ~~~eCaICL-~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~----~----~~~CP~CR~~ 179 (184)
.+..|.+|. ...-..+.+....+|+--||..|-..-.+ . ...|-+|+..
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 455699999 34444455555556778899999655432 1 2358888653
No 250
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=24.39 E-value=20 Score=22.27 Aligned_cols=7 Identities=57% Similarity=1.725 Sum_probs=2.0
Q ss_pred CCccccC
Q 045417 172 TCPVCRS 178 (184)
Q Consensus 172 ~CP~CR~ 178 (184)
+||+|.+
T Consensus 26 tCP~C~a 32 (54)
T PF09237_consen 26 TCPICGA 32 (54)
T ss_dssp E-TTT--
T ss_pred CCCcchh
Confidence 3555544
No 251
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=24.25 E-value=1.9e+02 Score=27.94 Aligned_cols=29 Identities=24% Similarity=0.393 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-hccCC
Q 045417 57 LAIIIVVLISALFFMGFFSIYIRH-CSDSS 85 (184)
Q Consensus 57 ~~iii~vli~~l~~l~~~~i~~r~-~~~~~ 85 (184)
++|+-+.++.+++++.++.+|.|+ |...+
T Consensus 276 l~ILG~~~livl~lL~vLl~yCrrkc~~~r 305 (807)
T PF10577_consen 276 LAILGGTALIVLILLCVLLCYCRRKCLKPR 305 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccCCcc
Confidence 344443444444555555566665 54444
No 252
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=24.24 E-value=1.3e+02 Score=20.51 Aligned_cols=7 Identities=29% Similarity=0.482 Sum_probs=3.0
Q ss_pred cCCCCHH
Q 045417 104 ARGLDRE 110 (184)
Q Consensus 104 ~~gl~~~ 110 (184)
+.|..++
T Consensus 57 S~Gd~Ee 63 (81)
T PF00558_consen 57 SDGDEEE 63 (81)
T ss_dssp TTTCCHH
T ss_pred CCCcHHH
Confidence 3444444
No 253
>PTZ00370 STEVOR; Provisional
Probab=24.16 E-value=94 Score=26.28 Aligned_cols=14 Identities=14% Similarity=0.190 Sum_probs=7.9
Q ss_pred HHHHHHHHHhccCC
Q 045417 72 GFFSIYIRHCSDSS 85 (184)
Q Consensus 72 ~~~~i~~r~~~~~~ 85 (184)
+++++|++-+++|.
T Consensus 270 vliilYiwlyrrRK 283 (296)
T PTZ00370 270 VLIILYIWLYRRRK 283 (296)
T ss_pred HHHHHHHHHHHhhc
Confidence 34445777665554
No 254
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.56 E-value=1.8e+02 Score=25.46 Aligned_cols=18 Identities=22% Similarity=0.122 Sum_probs=9.4
Q ss_pred CCChHHHHHHHHHHHhhc
Q 045417 13 GTNPLSLLLLMLLVANAL 30 (184)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~ 30 (184)
++..+.+++..+|++...
T Consensus 185 p~~~~~~vl~~~fvl~tl 202 (372)
T KOG2927|consen 185 PRPLMWQVLGVLFVLVTL 202 (372)
T ss_pred CCchhHHHHHHHHHHHHH
Confidence 344466666555554433
No 255
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=23.52 E-value=2.1e+02 Score=21.15 Aligned_cols=7 Identities=14% Similarity=0.776 Sum_probs=3.1
Q ss_pred HHHHHhc
Q 045417 163 IDAWLES 169 (184)
Q Consensus 163 I~~Wl~~ 169 (184)
...|++.
T Consensus 139 ~~~Wi~~ 145 (146)
T PF14316_consen 139 ARRWIKH 145 (146)
T ss_pred HHHHHhc
Confidence 3445443
No 256
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=23.52 E-value=34 Score=19.38 Aligned_cols=30 Identities=27% Similarity=0.637 Sum_probs=18.4
Q ss_pred ecCCCCCcccHHHHHHHHhcCCCCccccCCCC
Q 045417 150 LIPKCDHVFHPECIDAWLESHTTCPVCRSNLA 181 (184)
Q Consensus 150 ~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~ 181 (184)
+-++||++||..=-- -+....|..|-.+|.
T Consensus 3 ~C~~Cg~~Yh~~~~p--P~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNP--PKVEGVCDNCGGELV 32 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred CcCCCCCccccccCC--CCCCCccCCCCCeeE
Confidence 346799999943111 134467888877664
No 257
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.31 E-value=83 Score=21.01 Aligned_cols=48 Identities=29% Similarity=0.658 Sum_probs=28.9
Q ss_pred cCccccccCCCCceeecCCCCCcccHHHHHHHHhcCCCCccccCCCCCCC
Q 045417 135 CAVCLNEFEDDETLRLIPKCDHVFHPECIDAWLESHTTCPVCRSNLASEP 184 (184)
Q Consensus 135 CaICL~~f~~~~~~r~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~l~~~p 184 (184)
|--|-.++-.+..-.+.-.=.|.|+.+|.+.-| +..||.|-.++.-.|
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l--~g~CPnCGGelv~RP 55 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRL--HGLCPNCGGELVARP 55 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhh--cCcCCCCCchhhcCc
Confidence 444555554432211110123789999998755 468999988776544
No 258
>PF15179 Myc_target_1: Myc target protein 1
Probab=22.97 E-value=89 Score=24.66 Aligned_cols=10 Identities=40% Similarity=0.511 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 045417 60 IIVVLISALF 69 (184)
Q Consensus 60 ii~vli~~l~ 69 (184)
+|+++|.+++
T Consensus 30 ~iGLviG~li 39 (197)
T PF15179_consen 30 AIGLVIGALI 39 (197)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 259
>PRK10220 hypothetical protein; Provisional
Probab=22.95 E-value=56 Score=23.52 Aligned_cols=25 Identities=24% Similarity=0.805 Sum_probs=14.9
Q ss_pred ccCccccccCCCC-ceeecCCCCCcc
Q 045417 134 ECAVCLNEFEDDE-TLRLIPKCDHVF 158 (184)
Q Consensus 134 eCaICL~~f~~~~-~~r~lp~C~H~F 158 (184)
.|+-|-++|.-.+ .+.+.|.|+|-+
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW 30 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEW 30 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcC
Confidence 5888888875333 234445566654
No 260
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 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 zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=22.88 E-value=21 Score=19.07 Aligned_cols=10 Identities=70% Similarity=1.418 Sum_probs=4.4
Q ss_pred CCccccCCCC
Q 045417 172 TCPVCRSNLA 181 (184)
Q Consensus 172 ~CP~CR~~l~ 181 (184)
+||.|-..|.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4777766654
No 261
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=22.52 E-value=82 Score=17.93 Aligned_cols=33 Identities=24% Similarity=0.500 Sum_probs=23.5
Q ss_pred CcccCccccccCCCC-ceeecCCCCCcccHHHHHH
Q 045417 132 ALECAVCLNEFEDDE-TLRLIPKCDHVFHPECIDA 165 (184)
Q Consensus 132 ~~eCaICL~~f~~~~-~~r~lp~C~H~FH~~CI~~ 165 (184)
...|.+|.+.+.... .++- ..|+=..|..|.+.
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C-~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRC-SWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCC-CCCCchHHHHHHhh
Confidence 447999998887532 3332 35888899999875
No 262
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=22.44 E-value=5e+02 Score=23.85 Aligned_cols=9 Identities=22% Similarity=-0.086 Sum_probs=3.7
Q ss_pred cchHHHHHH
Q 045417 53 FSPSLAIII 61 (184)
Q Consensus 53 ~~~~~~iii 61 (184)
....+++++
T Consensus 152 ~~~~~al~~ 160 (534)
T KOG3653|consen 152 EVLIYALIP 160 (534)
T ss_pred ceehhhHHH
Confidence 334444444
No 263
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=22.17 E-value=1.9e+02 Score=17.37 Aligned_cols=13 Identities=15% Similarity=0.749 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q 045417 61 IVVLISALFFMGF 73 (184)
Q Consensus 61 i~vli~~l~~l~~ 73 (184)
+++++++|..+|+
T Consensus 11 vvIil~If~~iGl 23 (49)
T PF11044_consen 11 VVIILGIFAWIGL 23 (49)
T ss_pred HHHHHHHHHHHHH
Confidence 3333444444444
No 264
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=21.91 E-value=26 Score=19.76 Aligned_cols=11 Identities=36% Similarity=1.008 Sum_probs=7.4
Q ss_pred CCCCccccCCC
Q 045417 170 HTTCPVCRSNL 180 (184)
Q Consensus 170 ~~~CP~CR~~l 180 (184)
...||.|..++
T Consensus 26 ~~~CP~Cg~~~ 36 (41)
T smart00834 26 LATCPECGGDV 36 (41)
T ss_pred CCCCCCCCCcc
Confidence 34688887754
No 265
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=21.84 E-value=93 Score=23.63 Aligned_cols=13 Identities=38% Similarity=0.759 Sum_probs=9.9
Q ss_pred cCCCCccccCCCC
Q 045417 169 SHTTCPVCRSNLA 181 (184)
Q Consensus 169 ~~~~CP~CR~~l~ 181 (184)
....||.|-..|.
T Consensus 127 ~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 127 LNFTCPRCGAMLD 139 (158)
T ss_pred cCCcCCCCCCEee
Confidence 4677999987764
No 266
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=21.28 E-value=64 Score=26.28 Aligned_cols=19 Identities=21% Similarity=0.746 Sum_probs=12.6
Q ss_pred HHHHHHHHhcCCCCccccC
Q 045417 160 PECIDAWLESHTTCPVCRS 178 (184)
Q Consensus 160 ~~CI~~Wl~~~~~CP~CR~ 178 (184)
..|-..--++-..||+|++
T Consensus 198 ~sC~qqIHRNAPiCPlCK~ 216 (230)
T PF10146_consen 198 QSCHQQIHRNAPICPLCKA 216 (230)
T ss_pred HhHHHHHhcCCCCCccccc
Confidence 3444444466789999976
No 267
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=20.71 E-value=2.3e+02 Score=20.61 Aligned_cols=12 Identities=25% Similarity=0.401 Sum_probs=5.3
Q ss_pred ccCCCCHHHHhh
Q 045417 103 AARGLDREVIDT 114 (184)
Q Consensus 103 ~~~gl~~~~i~~ 114 (184)
.+.|-+-+.+++
T Consensus 100 ~aEgKdIdeLKK 111 (128)
T PF15145_consen 100 TAEGKDIDELKK 111 (128)
T ss_pred HhccCCHHHHHH
Confidence 344444444444
No 268
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=20.56 E-value=32 Score=18.78 Aligned_cols=24 Identities=29% Similarity=0.797 Sum_probs=9.2
Q ss_pred ccCccccccCCC-CceeecCCCCCc
Q 045417 134 ECAVCLNEFEDD-ETLRLIPKCDHV 157 (184)
Q Consensus 134 eCaICL~~f~~~-~~~r~lp~C~H~ 157 (184)
.|+-|-.++.-. ..+.+-|.|+|.
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----EE-SSSEEETTTTEE
T ss_pred CCCCCCCcceeccCCEEeCCccccc
Confidence 578888777532 233444567764
No 269
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=20.34 E-value=1.2e+02 Score=30.37 Aligned_cols=50 Identities=20% Similarity=0.552 Sum_probs=33.0
Q ss_pred CCcccCccccccC---CCCceeecCCCCCcccHHHHHHHH-hcCCCCccccCCC
Q 045417 131 GALECAVCLNEFE---DDETLRLIPKCDHVFHPECIDAWL-ESHTTCPVCRSNL 180 (184)
Q Consensus 131 ~~~eCaICL~~f~---~~~~~r~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~l 180 (184)
+...|.||-++.. +|+.-.-...|+-=.|..|.+-=. ..++.||-|+...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrY 69 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKY 69 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence 3448999999974 445333333466668999984322 3467899998754
No 270
>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=20.34 E-value=1.5e+02 Score=25.22 Aligned_cols=22 Identities=23% Similarity=0.377 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 045417 56 SLAIIIVVLISALFFMGFFSIY 77 (184)
Q Consensus 56 ~~~iii~vli~~l~~l~~~~i~ 77 (184)
..+|+..+++.+++++++++||
T Consensus 255 ~t~I~aSiiaIliIVLIMvIIY 276 (299)
T PF02009_consen 255 TTAIIASIIAILIIVLIMVIIY 276 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444454444444
No 271
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=20.24 E-value=44 Score=28.32 Aligned_cols=30 Identities=30% Similarity=0.578 Sum_probs=22.6
Q ss_pred ccCccccccCCCCceeecCCCCCcccHHHHH
Q 045417 134 ECAVCLNEFEDDETLRLIPKCDHVFHPECID 164 (184)
Q Consensus 134 eCaICL~~f~~~~~~r~lp~C~H~FH~~CI~ 164 (184)
.|.||+..-.+++.+.-- -|...||.-|+-
T Consensus 316 lC~IC~~P~~E~E~~FCD-~CDRG~HT~CVG 345 (381)
T KOG1512|consen 316 LCRICLGPVIESEHLFCD-VCDRGPHTLCVG 345 (381)
T ss_pred hhhccCCcccchheeccc-cccCCCCccccc
Confidence 588999887776655443 488899999974
No 272
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=20.16 E-value=1.6e+02 Score=21.40 Aligned_cols=13 Identities=23% Similarity=0.644 Sum_probs=5.4
Q ss_pred cchHHHHHHHHHH
Q 045417 53 FSPSLAIIIVVLI 65 (184)
Q Consensus 53 ~~~~~~iii~vli 65 (184)
|+.++.+.++.++
T Consensus 4 ~~~t~~~~~i~fl 16 (140)
T PRK07353 4 FDATLPLMAVQFV 16 (140)
T ss_pred cchhHHHHHHHHH
Confidence 3444444444333
No 273
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=20.08 E-value=86 Score=26.99 Aligned_cols=43 Identities=9% Similarity=-0.064 Sum_probs=29.1
Q ss_pred CcccCccccccCCCCceeecCCCCCc-ccHHHHHHHHhcCCCCccccCCC
Q 045417 132 ALECAVCLNEFEDDETLRLIPKCDHV-FHPECIDAWLESHTTCPVCRSNL 180 (184)
Q Consensus 132 ~~eCaICL~~f~~~~~~r~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~l 180 (184)
..+|-.|-+..-. ..+.+ |+|. |+-.|-. +.-..+||+|....
T Consensus 343 ~~~~~~~~~~~~s---t~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 343 SLKGTSAGFGLLS---TIWSG-GNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hcccccccCceee---eEeec-CCcccChhhhhh--cccCCccccccccc
Confidence 3467777655332 33444 9996 8888877 56678999997653
Done!