Query 013394
Match_columns 444
No_of_seqs 382 out of 2638
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 03:24:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013394.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013394hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 100.0 8.9E-56 1.9E-60 438.0 22.4 279 17-299 20-299 (348)
2 cd02123 PA_C_RZF_like PA_C-RZF 99.9 1.6E-21 3.6E-26 176.2 13.7 120 29-149 20-142 (153)
3 cd02127 PA_hPAP21_like PA_hPAP 99.8 2.5E-20 5.5E-25 161.2 11.6 107 39-149 1-111 (118)
4 cd02126 PA_EDEM3_like PA_EDEM3 99.8 2.4E-20 5.2E-25 163.3 11.0 109 35-147 2-119 (126)
5 cd02125 PA_VSR PA_VSR: Proteas 99.8 2.8E-20 6.1E-25 162.9 10.5 108 39-147 1-120 (127)
6 cd02122 PA_GRAIL_like PA _GRAI 99.8 2E-19 4.4E-24 159.7 11.3 111 35-147 17-131 (138)
7 cd04813 PA_1 PA_1: Protease-as 99.8 1.9E-19 4E-24 155.5 9.8 106 35-147 5-112 (117)
8 cd02132 PA_GO-like PA_GO-like: 99.8 2.7E-19 5.8E-24 159.3 11.1 112 28-147 14-132 (139)
9 cd02129 PA_hSPPL_like PA_hSPPL 99.8 1.7E-18 3.7E-23 149.5 9.0 94 50-146 21-114 (120)
10 cd04818 PA_subtilisin_1 PA_sub 99.7 3.4E-17 7.4E-22 141.6 11.3 113 36-152 1-117 (118)
11 cd04816 PA_SaNapH_like PA_SaNa 99.7 1.1E-16 2.3E-21 139.4 10.5 109 37-148 5-116 (122)
12 cd02130 PA_ScAPY_like PA_ScAPY 99.7 8.2E-16 1.8E-20 133.8 11.1 107 33-147 9-115 (122)
13 COG5540 RING-finger-containing 99.6 2.5E-16 5.4E-21 151.6 0.6 52 228-279 322-373 (374)
14 cd04817 PA_VapT_like PA_VapT_l 99.6 1.3E-14 2.9E-19 128.6 11.2 102 39-147 26-134 (139)
15 KOG3920 Uncharacterized conser 99.5 2.7E-15 5.8E-20 132.0 4.3 113 29-145 43-162 (193)
16 PF02225 PA: PA domain; Inter 99.5 5E-15 1.1E-19 123.6 3.6 96 48-143 5-100 (101)
17 cd02124 PA_PoS1_like PA_PoS1_l 99.5 5.9E-14 1.3E-18 123.3 8.4 89 52-147 34-122 (129)
18 PF13639 zf-RING_2: Ring finge 99.5 1.6E-14 3.4E-19 103.2 2.9 44 230-274 1-44 (44)
19 KOG2442 Uncharacterized conser 99.4 4.6E-13 1E-17 136.6 9.8 117 34-157 56-179 (541)
20 COG5243 HRD1 HRD ubiquitin lig 99.4 3.4E-13 7.3E-18 133.2 6.1 76 205-284 266-352 (491)
21 cd00538 PA PA: Protease-associ 99.3 3.9E-12 8.5E-17 110.1 7.5 92 54-146 25-118 (126)
22 cd02133 PA_C5a_like PA_C5a_lik 99.3 3.5E-11 7.6E-16 107.6 10.6 100 38-146 15-114 (143)
23 PHA02929 N1R/p28-like protein; 99.2 1.4E-11 3E-16 118.3 4.5 74 204-278 148-227 (238)
24 PF12678 zf-rbx1: RING-H2 zinc 99.2 1.9E-11 4.1E-16 96.9 4.3 45 229-274 19-73 (73)
25 cd04819 PA_2 PA_2: Protease-as 99.1 5.4E-10 1.2E-14 98.0 9.7 96 47-148 21-121 (127)
26 PLN03208 E3 ubiquitin-protein 99.0 5.6E-10 1.2E-14 103.3 5.2 55 228-285 17-86 (193)
27 KOG0317 Predicted E3 ubiquitin 99.0 5.1E-10 1.1E-14 108.3 5.0 50 229-282 239-288 (293)
28 cd04815 PA_M28_2 PA_M28_2: Pro 98.9 1.3E-09 2.9E-14 96.4 6.1 104 39-147 7-127 (134)
29 KOG0823 Predicted E3 ubiquitin 98.9 4.8E-10 1E-14 105.5 3.1 59 226-287 44-104 (230)
30 cd00162 RING RING-finger (Real 98.9 8.7E-10 1.9E-14 77.4 3.7 45 231-277 1-45 (45)
31 KOG0802 E3 ubiquitin ligase [P 98.9 5.4E-09 1.2E-13 112.8 9.1 54 228-282 290-345 (543)
32 cd02120 PA_subtilisin_like PA_ 98.9 5.7E-09 1.2E-13 90.7 7.0 83 58-147 36-119 (126)
33 PF13920 zf-C3HC4_3: Zinc fing 98.8 2E-09 4.4E-14 78.8 2.7 46 229-278 2-48 (50)
34 PF13923 zf-C3HC4_2: Zinc fing 98.8 3E-09 6.5E-14 73.8 3.3 39 232-273 1-39 (39)
35 cd02128 PA_TfR PA_TfR: Proteas 98.8 8.6E-09 1.9E-13 95.4 6.7 108 37-147 17-156 (183)
36 PF12861 zf-Apc11: Anaphase-pr 98.7 4.8E-09 1E-13 84.5 2.8 50 229-278 21-82 (85)
37 PF14634 zf-RING_5: zinc-RING 98.7 1E-08 2.2E-13 73.1 2.9 44 231-275 1-44 (44)
38 KOG0320 Predicted E3 ubiquitin 98.7 9.8E-09 2.1E-13 92.9 3.0 51 228-280 130-180 (187)
39 PHA02926 zinc finger-like prot 98.7 1.2E-08 2.6E-13 95.6 3.1 52 228-279 169-231 (242)
40 PF15227 zf-C3HC4_4: zinc fing 98.7 1.6E-08 3.4E-13 71.5 3.0 39 232-273 1-42 (42)
41 PF00097 zf-C3HC4: Zinc finger 98.6 1.4E-08 3.1E-13 70.9 2.5 40 232-273 1-41 (41)
42 smart00184 RING Ring finger. E 98.6 2.7E-08 5.8E-13 67.3 3.0 39 232-273 1-39 (39)
43 smart00504 Ubox Modified RING 98.6 7.5E-08 1.6E-12 73.5 4.3 46 230-279 2-47 (63)
44 COG5194 APC11 Component of SCF 98.4 1.9E-07 4.2E-12 73.5 3.0 50 230-280 32-83 (88)
45 PF13445 zf-RING_UBOX: RING-ty 98.4 2.7E-07 5.7E-12 65.5 2.9 39 232-271 1-43 (43)
46 TIGR00599 rad18 DNA repair pro 98.4 2.4E-07 5.2E-12 95.3 3.4 49 228-280 25-73 (397)
47 KOG1734 Predicted RING-contain 98.3 1.4E-07 3E-12 90.4 1.2 55 227-281 222-284 (328)
48 KOG0828 Predicted E3 ubiquitin 98.3 6.7E-07 1.4E-11 91.9 5.2 52 228-279 570-635 (636)
49 COG5574 PEX10 RING-finger-cont 98.3 2.9E-07 6.3E-12 88.3 2.2 51 229-282 215-266 (271)
50 smart00744 RINGv The RING-vari 98.2 8.5E-07 1.8E-11 64.8 3.0 43 231-274 1-49 (49)
51 KOG1493 Anaphase-promoting com 98.2 3.8E-07 8.3E-12 71.2 0.7 50 229-278 20-81 (84)
52 cd02121 PA_GCPII_like PA_GCPII 98.1 4.4E-06 9.5E-11 79.9 6.5 61 47-110 43-105 (220)
53 PF04564 U-box: U-box domain; 98.1 1.2E-06 2.6E-11 69.3 2.1 49 229-280 4-52 (73)
54 cd04822 PA_M28_1_3 PA_M28_1_3: 98.1 9.7E-06 2.1E-10 73.1 8.0 63 47-112 18-101 (151)
55 COG5219 Uncharacterized conser 98.1 8.3E-07 1.8E-11 96.9 1.0 50 227-278 1467-1523(1525)
56 cd04820 PA_M28_1_1 PA_M28_1_1: 98.1 1.1E-05 2.5E-10 71.5 8.0 63 47-112 20-97 (137)
57 cd04814 PA_M28_1 PA_M28_1: Pro 98.1 1.1E-05 2.4E-10 72.0 7.7 62 48-112 19-101 (142)
58 KOG2164 Predicted E3 ubiquitin 98.0 2.2E-06 4.8E-11 89.1 2.7 54 229-285 186-243 (513)
59 KOG0804 Cytoplasmic Zn-finger 98.0 2.4E-06 5.1E-11 87.3 2.2 48 228-278 174-222 (493)
60 TIGR00570 cdk7 CDK-activating 98.0 5.4E-06 1.2E-10 82.3 4.0 53 229-281 3-57 (309)
61 KOG4265 Predicted E3 ubiquitin 97.9 5.1E-06 1.1E-10 83.2 2.8 52 227-282 288-340 (349)
62 PF11793 FANCL_C: FANCL C-term 97.8 3.5E-06 7.6E-11 66.2 0.1 50 229-278 2-66 (70)
63 KOG2177 Predicted E3 ubiquitin 97.8 8.6E-06 1.9E-10 79.2 1.5 43 228-274 12-54 (386)
64 KOG0287 Postreplication repair 97.7 1.1E-05 2.5E-10 79.7 1.5 48 230-281 24-71 (442)
65 cd02131 PA_hNAALADL2_like PA_h 97.7 4.2E-05 9.2E-10 68.5 4.9 39 74-112 38-76 (153)
66 COG5432 RAD18 RING-finger-cont 97.7 1.6E-05 3.6E-10 77.1 2.3 47 229-279 25-71 (391)
67 KOG2930 SCF ubiquitin ligase, 97.7 2E-05 4.2E-10 65.3 2.1 28 250-278 81-108 (114)
68 KOG0824 Predicted E3 ubiquitin 97.7 1.6E-05 3.4E-10 77.8 1.8 53 229-284 7-59 (324)
69 KOG4445 Uncharacterized conser 97.6 2.4E-05 5.2E-10 76.3 1.7 55 228-282 114-190 (368)
70 KOG0827 Predicted E3 ubiquitin 97.6 2.4E-05 5.1E-10 78.8 1.6 47 230-276 5-54 (465)
71 KOG1039 Predicted E3 ubiquitin 97.4 7.2E-05 1.6E-09 75.8 1.8 51 228-278 160-221 (344)
72 KOG4172 Predicted E3 ubiquitin 97.3 4.1E-05 8.8E-10 56.2 -0.7 48 229-279 7-55 (62)
73 KOG0311 Predicted E3 ubiquitin 97.3 5.7E-05 1.2E-09 75.4 -0.3 51 229-281 43-93 (381)
74 KOG0825 PHD Zn-finger protein 97.2 6.3E-05 1.4E-09 81.3 -0.2 48 229-277 123-170 (1134)
75 PF14835 zf-RING_6: zf-RING of 97.2 7.1E-05 1.5E-09 57.1 0.1 47 230-281 8-54 (65)
76 KOG1645 RING-finger-containing 97.2 0.00021 4.6E-09 72.5 3.0 48 229-276 4-54 (463)
77 KOG1785 Tyrosine kinase negati 96.9 0.0003 6.6E-09 71.1 0.9 50 229-281 369-419 (563)
78 KOG1428 Inhibitor of type V ad 96.9 0.00055 1.2E-08 78.0 2.9 69 211-279 3468-3545(3738)
79 KOG0801 Predicted E3 ubiquitin 96.9 0.00034 7.3E-09 62.7 1.0 28 229-256 177-204 (205)
80 KOG0978 E3 ubiquitin ligase in 96.9 0.00025 5.4E-09 77.4 0.2 48 230-280 644-691 (698)
81 PF11789 zf-Nse: Zinc-finger o 96.9 0.00053 1.1E-08 51.7 1.7 42 229-272 11-53 (57)
82 KOG1941 Acetylcholine receptor 96.9 0.00051 1.1E-08 69.4 2.0 47 229-275 365-413 (518)
83 KOG4159 Predicted E3 ubiquitin 96.7 0.0012 2.5E-08 68.4 3.1 49 227-279 82-130 (398)
84 KOG3970 Predicted E3 ubiquitin 96.5 0.0023 4.9E-08 60.4 3.4 54 229-283 50-110 (299)
85 PF05883 Baculo_RING: Baculovi 96.4 0.0012 2.5E-08 58.0 1.1 35 229-263 26-66 (134)
86 KOG0297 TNF receptor-associate 96.2 0.0024 5.2E-08 66.4 2.2 54 228-284 20-73 (391)
87 KOG1814 Predicted E3 ubiquitin 96.0 0.0063 1.4E-07 62.2 3.8 48 228-275 183-237 (445)
88 PF12906 RINGv: RING-variant d 95.8 0.006 1.3E-07 44.1 2.2 41 232-273 1-47 (47)
89 PF14570 zf-RING_4: RING/Ubox 95.8 0.0042 9.1E-08 45.0 1.2 45 232-277 1-47 (48)
90 PHA02862 5L protein; Provision 95.8 0.0057 1.2E-07 54.1 2.2 47 229-279 2-54 (156)
91 KOG1571 Predicted E3 ubiquitin 95.7 0.0062 1.3E-07 61.5 2.4 45 227-278 303-347 (355)
92 PF10367 Vps39_2: Vacuolar sor 95.7 0.0052 1.1E-07 51.5 1.5 32 228-260 77-108 (109)
93 PHA02825 LAP/PHD finger-like p 95.5 0.0098 2.1E-07 53.6 2.8 49 228-280 7-61 (162)
94 KOG1002 Nucleotide excision re 95.4 0.0058 1.3E-07 64.1 1.1 55 226-283 533-591 (791)
95 KOG2879 Predicted E3 ubiquitin 95.3 0.018 3.8E-07 56.2 3.9 50 227-278 237-287 (298)
96 KOG0827 Predicted E3 ubiquitin 95.2 0.0015 3.3E-08 66.1 -3.9 52 229-281 196-248 (465)
97 COG5222 Uncharacterized conser 95.1 0.016 3.4E-07 56.9 2.9 43 230-275 275-318 (427)
98 KOG3039 Uncharacterized conser 94.9 0.032 7E-07 53.5 4.3 55 228-283 220-275 (303)
99 COG5152 Uncharacterized conser 94.8 0.0098 2.1E-07 55.2 0.6 44 229-276 196-239 (259)
100 KOG4185 Predicted E3 ubiquitin 94.8 0.017 3.7E-07 57.6 2.3 48 230-277 4-54 (296)
101 KOG4739 Uncharacterized protei 94.7 0.011 2.3E-07 56.8 0.6 49 231-283 5-53 (233)
102 COG5236 Uncharacterized conser 94.6 0.026 5.6E-07 56.6 3.1 62 211-276 43-106 (493)
103 cd04821 PA_M28_1_2 PA_M28_1_2: 94.3 0.12 2.6E-06 47.1 6.5 39 73-111 46-103 (157)
104 PHA03096 p28-like protein; Pro 94.3 0.02 4.3E-07 57.0 1.4 46 230-275 179-231 (284)
105 KOG1813 Predicted E3 ubiquitin 93.9 0.022 4.8E-07 56.1 0.9 46 229-278 241-286 (313)
106 KOG2660 Locus-specific chromos 93.8 0.015 3.3E-07 58.0 -0.3 49 229-280 15-63 (331)
107 PF14447 Prok-RING_4: Prokaryo 93.8 0.038 8.2E-07 41.1 1.8 46 230-281 8-53 (55)
108 KOG4692 Predicted E3 ubiquitin 93.5 0.066 1.4E-06 53.9 3.5 49 227-279 420-468 (489)
109 PF04641 Rtf2: Rtf2 RING-finge 93.5 0.093 2E-06 51.6 4.5 55 227-283 111-166 (260)
110 KOG1952 Transcription factor N 93.2 0.043 9.3E-07 60.8 1.8 49 227-275 189-244 (950)
111 PF10272 Tmpp129: Putative tra 93.2 0.071 1.5E-06 54.6 3.2 29 250-278 311-351 (358)
112 COG5175 MOT2 Transcriptional r 92.9 0.058 1.3E-06 54.0 2.0 52 229-280 14-66 (480)
113 KOG4275 Predicted E3 ubiquitin 92.8 0.03 6.4E-07 55.0 -0.2 42 229-278 300-342 (350)
114 KOG2114 Vacuolar assembly/sort 92.5 0.033 7.2E-07 61.7 -0.2 42 230-277 841-882 (933)
115 PF08746 zf-RING-like: RING-li 92.4 0.066 1.4E-06 37.9 1.3 42 232-273 1-43 (43)
116 KOG3268 Predicted E3 ubiquitin 91.9 0.082 1.8E-06 48.4 1.5 49 230-278 166-228 (234)
117 KOG0826 Predicted E3 ubiquitin 91.4 0.31 6.8E-06 48.8 5.2 47 228-277 299-345 (357)
118 KOG1940 Zn-finger protein [Gen 90.9 0.098 2.1E-06 51.6 1.1 46 229-275 158-204 (276)
119 KOG1100 Predicted E3 ubiquitin 90.6 0.12 2.5E-06 49.3 1.2 40 231-278 160-200 (207)
120 KOG1001 Helicase-like transcri 90.4 0.11 2.3E-06 57.8 1.0 48 230-281 455-503 (674)
121 KOG2932 E3 ubiquitin ligase in 90.0 0.11 2.3E-06 51.6 0.5 43 230-277 91-133 (389)
122 KOG3002 Zn finger protein [Gen 89.0 0.26 5.5E-06 49.5 2.3 44 229-280 48-93 (299)
123 KOG2034 Vacuolar sorting prote 87.7 0.25 5.3E-06 55.4 1.4 35 228-263 816-850 (911)
124 KOG0298 DEAD box-containing he 86.8 0.22 4.7E-06 57.8 0.3 49 229-280 1153-1201(1394)
125 KOG3161 Predicted E3 ubiquitin 85.0 0.29 6.2E-06 53.0 0.1 43 230-276 12-55 (861)
126 KOG3800 Predicted E3 ubiquitin 84.4 0.73 1.6E-05 45.5 2.6 48 231-278 2-51 (300)
127 KOG0260 RNA polymerase II, lar 84.2 25 0.00053 41.4 14.6 23 87-109 1194-1217(1605)
128 KOG3053 Uncharacterized conser 84.0 0.41 8.9E-06 46.4 0.7 52 228-279 19-83 (293)
129 PF14446 Prok-RING_1: Prokaryo 83.9 1.1 2.4E-05 33.3 2.8 33 229-261 5-38 (54)
130 KOG2817 Predicted E3 ubiquitin 82.5 1 2.3E-05 46.3 3.0 46 229-274 334-381 (394)
131 KOG0825 PHD Zn-finger protein 81.4 0.8 1.7E-05 50.7 1.7 50 228-277 95-153 (1134)
132 KOG0309 Conserved WD40 repeat- 81.0 0.91 2E-05 50.1 2.0 25 247-272 1045-1069(1081)
133 KOG1609 Protein involved in mR 80.9 0.83 1.8E-05 45.5 1.6 52 229-280 78-136 (323)
134 KOG0260 RNA polymerase II, lar 79.6 53 0.0011 38.8 15.1 14 229-242 1391-1404(1605)
135 KOG0802 E3 ubiquitin ligase [P 79.6 1.1 2.4E-05 48.7 2.2 48 228-283 478-525 (543)
136 COG5220 TFB3 Cdk activating ki 79.2 1.1 2.5E-05 43.0 1.8 47 229-275 10-61 (314)
137 PF02891 zf-MIZ: MIZ/SP-RING z 78.3 1.9 4.2E-05 31.4 2.4 44 230-276 3-50 (50)
138 COG5183 SSM4 Protein involved 76.9 1.6 3.4E-05 48.7 2.2 50 228-278 11-66 (1175)
139 KOG1812 Predicted E3 ubiquitin 75.9 1.1 2.4E-05 46.7 0.7 38 229-266 146-184 (384)
140 smart00249 PHD PHD zinc finger 75.3 0.89 1.9E-05 31.3 -0.1 31 231-261 1-31 (47)
141 PF07800 DUF1644: Protein of u 74.9 2.9 6.3E-05 37.9 3.1 33 229-264 2-47 (162)
142 KOG1829 Uncharacterized conser 74.2 1.1 2.3E-05 48.9 0.1 42 229-274 511-557 (580)
143 KOG2195 Transferrin receptor a 72.4 5.8 0.00013 44.5 5.3 37 74-110 182-218 (702)
144 KOG4367 Predicted Zn-finger pr 71.8 2 4.4E-05 44.7 1.5 34 229-265 4-37 (699)
145 PF05290 Baculo_IE-1: Baculovi 70.7 3.2 6.9E-05 36.6 2.2 51 229-279 80-133 (140)
146 KOG3899 Uncharacterized conser 70.1 2.2 4.7E-05 42.3 1.2 29 250-278 325-365 (381)
147 KOG4362 Transcriptional regula 65.2 1.7 3.7E-05 47.9 -0.6 46 230-278 22-69 (684)
148 KOG4718 Non-SMC (structural ma 63.3 3.5 7.6E-05 39.1 1.1 41 230-273 182-222 (235)
149 KOG2807 RNA polymerase II tran 63.2 7.7 0.00017 39.1 3.5 67 208-275 308-375 (378)
150 PF13901 DUF4206: Domain of un 60.5 4 8.8E-05 38.6 1.0 41 229-275 152-197 (202)
151 KOG0269 WD40 repeat-containing 57.4 8.3 0.00018 43.0 2.9 42 229-272 779-820 (839)
152 PF05393 Hum_adeno_E3A: Human 57.1 6.7 0.00014 32.0 1.6 16 173-188 41-56 (94)
153 PF03854 zf-P11: P-11 zinc fin 57.0 4.2 9.1E-05 29.4 0.4 43 231-279 4-47 (50)
154 KOG3005 GIY-YIG type nuclease 56.7 5.7 0.00012 39.0 1.3 47 230-276 183-241 (276)
155 KOG3113 Uncharacterized conser 56.0 11 0.00025 36.7 3.2 54 229-285 111-165 (293)
156 KOG2066 Vacuolar assembly/sort 54.0 5.6 0.00012 44.5 0.9 43 229-273 784-830 (846)
157 KOG3579 Predicted E3 ubiquitin 50.5 8.6 0.00019 38.1 1.5 37 229-266 268-306 (352)
158 TIGR00622 ssl1 transcription f 48.7 20 0.00043 30.8 3.2 45 229-274 55-110 (112)
159 PF00628 PHD: PHD-finger; Int 48.5 7.5 0.00016 27.8 0.6 45 231-275 1-50 (51)
160 smart00132 LIM Zinc-binding do 47.4 20 0.00044 23.3 2.6 37 231-277 1-37 (39)
161 KOG1815 Predicted E3 ubiquitin 46.6 8.7 0.00019 40.8 0.9 36 228-265 69-104 (444)
162 PF01102 Glycophorin_A: Glycop 45.5 17 0.00038 31.6 2.5 12 165-176 67-78 (122)
163 PF13717 zinc_ribbon_4: zinc-r 45.4 11 0.00023 25.6 0.9 25 231-255 4-36 (36)
164 PF14569 zf-UDP: Zinc-binding 45.1 23 0.00049 28.4 2.8 57 228-284 8-68 (80)
165 KOG1729 FYVE finger containing 43.3 5.5 0.00012 39.9 -1.1 37 230-266 215-251 (288)
166 PLN02189 cellulose synthase 42.3 27 0.00059 40.7 4.0 56 229-284 34-93 (1040)
167 PF07975 C1_4: TFIIH C1-like d 42.1 14 0.00031 27.2 1.2 42 232-274 2-50 (51)
168 KOG0956 PHD finger protein AF1 41.6 2.2E+02 0.0048 32.0 10.4 62 205-275 102-179 (900)
169 PF15050 SCIMP: SCIMP protein 38.7 40 0.00087 29.3 3.5 11 161-171 8-18 (133)
170 PF06679 DUF1180: Protein of u 37.8 28 0.0006 31.9 2.7 23 170-192 99-121 (163)
171 COG5109 Uncharacterized conser 37.4 24 0.00051 35.6 2.3 44 230-273 337-382 (396)
172 PF13605 DUF4141: Domain of un 37.0 40 0.00087 25.2 2.9 28 1-28 1-28 (55)
173 PF01363 FYVE: FYVE zinc finge 37.0 19 0.00041 27.5 1.3 35 229-263 9-44 (69)
174 KOG4185 Predicted E3 ubiquitin 36.2 6.2 0.00013 39.2 -2.0 48 229-276 207-265 (296)
175 COG4882 Predicted aminopeptida 35.8 1.6E+02 0.0034 30.7 7.8 66 74-141 87-160 (486)
176 cd03029 GRX_hybridPRX5 Glutare 35.8 42 0.00092 25.4 3.1 57 78-135 2-59 (72)
177 KOG1812 Predicted E3 ubiquitin 35.4 18 0.00039 37.8 1.2 44 229-273 306-351 (384)
178 PLN02436 cellulose synthase A 34.7 42 0.00092 39.3 4.0 56 229-284 36-95 (1094)
179 PF07649 C1_3: C1-like domain; 34.6 26 0.00056 22.4 1.4 29 231-259 2-30 (30)
180 KOG3842 Adaptor protein Pellin 34.6 42 0.00091 33.9 3.5 53 228-280 340-416 (429)
181 KOG2071 mRNA cleavage and poly 34.5 23 0.0005 38.6 1.8 35 228-263 512-557 (579)
182 PF10571 UPF0547: Uncharacteri 34.0 17 0.00036 22.9 0.4 22 231-254 2-24 (26)
183 KOG3842 Adaptor protein Pellin 32.6 17 0.00037 36.6 0.4 45 227-276 288-350 (429)
184 PF00412 LIM: LIM domain; Int 32.3 36 0.00078 24.6 2.1 39 232-280 1-39 (58)
185 KOG3039 Uncharacterized conser 31.8 28 0.0006 34.0 1.7 34 229-265 43-76 (303)
186 PF15102 TMEM154: TMEM154 prot 31.6 25 0.00055 31.6 1.3 10 256-265 127-136 (146)
187 PF13956 Ibs_toxin: Toxin Ibs, 31.1 29 0.00062 20.0 1.0 13 1-14 2-14 (19)
188 PF04710 Pellino: Pellino; In 30.4 17 0.00037 37.8 0.0 66 208-276 254-337 (416)
189 TIGR02190 GlrX-dom Glutaredoxi 29.1 51 0.0011 25.7 2.6 58 76-134 7-65 (79)
190 PF15050 SCIMP: SCIMP protein 28.4 49 0.0011 28.7 2.5 18 167-184 11-28 (133)
191 PF08194 DIM: DIM protein; In 28.0 57 0.0012 22.3 2.2 10 17-26 21-30 (36)
192 KOG0824 Predicted E3 ubiquitin 27.6 73 0.0016 32.0 3.8 49 229-280 105-153 (324)
193 COG4847 Uncharacterized protei 27.4 50 0.0011 27.5 2.2 35 230-265 7-41 (103)
194 PF13719 zinc_ribbon_5: zinc-r 27.2 35 0.00076 23.1 1.1 25 231-255 4-36 (37)
195 PF05715 zf-piccolo: Piccolo Z 26.9 43 0.00093 25.4 1.6 19 267-285 2-20 (61)
196 KOG4218 Nuclear hormone recept 26.6 22 0.00048 36.2 0.1 47 229-276 15-76 (475)
197 PF06844 DUF1244: Protein of u 26.6 38 0.00083 26.2 1.3 12 254-265 12-23 (68)
198 PF02009 Rifin_STEVOR: Rifin/s 26.5 43 0.00094 33.7 2.1 22 167-188 260-281 (299)
199 PF05605 zf-Di19: Drought indu 26.2 28 0.0006 25.5 0.5 37 229-275 2-39 (54)
200 cd03028 GRX_PICOT_like Glutare 26.1 70 0.0015 25.7 3.0 59 76-135 7-72 (90)
201 PF14654 Epiglycanin_C: Mucin, 26.0 90 0.0019 26.1 3.5 34 155-188 11-44 (106)
202 PF06024 DUF912: Nucleopolyhed 25.9 62 0.0014 27.1 2.7 10 165-174 67-76 (101)
203 PF04423 Rad50_zn_hook: Rad50 25.6 19 0.00041 26.4 -0.5 11 269-279 22-32 (54)
204 KOG2068 MOT2 transcription fac 25.6 84 0.0018 32.0 3.9 46 230-277 250-297 (327)
205 PF07191 zinc-ribbons_6: zinc- 25.3 8.2 0.00018 30.3 -2.5 40 230-278 2-41 (70)
206 cd00350 rubredoxin_like Rubred 25.2 43 0.00093 22.0 1.2 7 269-275 19-25 (33)
207 PLN02248 cellulose synthase-li 24.8 1.2E+02 0.0025 36.0 5.3 51 228-279 123-178 (1135)
208 PF10577 UPF0560: Uncharacteri 24.3 2.2E+02 0.0047 32.6 7.1 21 124-144 206-226 (807)
209 cd00065 FYVE FYVE domain; Zinc 24.1 48 0.0011 24.0 1.5 35 230-264 3-38 (57)
210 PLN02915 cellulose synthase A 23.5 85 0.0018 36.9 3.9 56 228-283 14-73 (1044)
211 PF04216 FdhE: Protein involve 23.1 16 0.00035 36.4 -1.6 45 229-275 172-219 (290)
212 KOG0193 Serine/threonine prote 22.9 1.4E+02 0.003 33.1 5.2 23 234-258 195-217 (678)
213 PF07172 GRP: Glycine rich pro 22.0 51 0.0011 27.4 1.4 10 10-19 15-24 (95)
214 PRK00523 hypothetical protein; 22.0 92 0.002 24.6 2.7 21 166-186 7-27 (72)
215 PLN02638 cellulose synthase A 21.8 91 0.002 36.7 3.7 56 229-284 17-76 (1079)
216 smart00064 FYVE Protein presen 21.7 64 0.0014 24.4 1.8 36 229-264 10-46 (68)
217 PF15048 OSTbeta: Organic solu 21.6 1.1E+02 0.0024 26.8 3.3 17 151-167 24-40 (125)
218 PF02318 FYVE_2: FYVE-type zin 21.4 56 0.0012 28.0 1.6 47 228-275 53-102 (118)
219 PF06305 DUF1049: Protein of u 21.4 55 0.0012 24.7 1.4 6 149-154 7-12 (68)
220 PF10083 DUF2321: Uncharacteri 21.1 46 0.001 30.2 1.0 48 232-283 7-55 (158)
221 KOG4443 Putative transcription 21.0 49 0.0011 36.6 1.3 47 229-276 18-71 (694)
222 PF06906 DUF1272: Protein of u 21.0 1.1E+02 0.0024 23.0 2.8 45 230-277 6-51 (57)
223 KOG1245 Chromatin remodeling c 20.3 32 0.00068 41.8 -0.3 50 228-277 1107-1159(1404)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.9e-56 Score=438.02 Aligned_cols=279 Identities=53% Similarity=0.881 Sum_probs=251.4
Q ss_pred ccceEEEEEeCceeeEeeccccccCCCCCCCCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHH
Q 013394 17 LASANVVLIGNNVTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNA 96 (444)
Q Consensus 17 ~~~a~v~~~~~~~~~~f~~~~A~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~A 96 (444)
..++.+.+...|++++|.+.+|.||+....++..|.+|.++|.|||+++.+.+...+....++|||+||+|+|++|+++|
T Consensus 20 ~~a~~v~~~~~n~S~sf~d~~a~f~~s~~~e~~~G~l~~~ep~~aC~~i~~~p~~~~~~~~~laLI~Rg~CsFe~Kv~~A 99 (348)
T KOG4628|consen 20 LRAVAVALVDRNTSLSFADLPALFGPSLPSEGNLGVLVVAEPLNACNPITNFPEHSTRSTSFLALIRRGGCSFEDKVLNA 99 (348)
T ss_pred ccceEEEEccccccccccCCccccCCccccccceeeeecCCCccccCccccCccCCCCCcceEEEEEccCCchHHHHhhc
Confidence 66778888899999999999999999999999999999999999999999876666666789999999999999999999
Q ss_pred HHcCCeEEEEeccCCCcceeeecCCCCCceEEEEEEeccccchhhhhcCcccceeeeec-cccccchhhHHHHHHHHHHH
Q 013394 97 QKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGSTDMEIWIIP-SFENSAWSIMAISFISLLAM 175 (444)
Q Consensus 97 q~aGA~avII~n~~~~~~~~~~~g~~~~i~Ip~v~Is~~~G~~L~~~l~~~~v~v~I~P-~~~~s~~~i~~IsfI~ll~l 175 (444)
|++|++|+|||||.+.+.++.|.++..++.|+++||+...|+.|+++.+.....+|..+ .++...|.++.+.++.++++
T Consensus 100 Q~aGfkaaIVynn~~~~~lv~~~~~~~~v~i~~~~vs~~~ge~l~~~~~~~~~~~~~~~~~~~~~~ws~~~~~~i~~l~v 179 (348)
T KOG4628|consen 100 QRAGFKAAIVYNNVGSEDLVAMASNPSKVDIHIVFVSVFSGELLSSYAGRTEFECLLIPLGFDTSPWSILAISLISLLTV 179 (348)
T ss_pred ccccCceEEEecCCCCchheeeccCCccceeEEEEEeeehHHHHHHhhcccceeeeeccccccCCcchhhhhhhhhHHHH
Confidence 99999999999998888888999999999999999999999999999888889999888 78889999999889999999
Q ss_pred HHHHHhhhhccccccccccccccccccccCCcHHHHhhcccceeeccccccCCCccccccccccccCceeEEeccCCeec
Q 013394 176 SAVLATCFFVRRHRIRREAPRASRGREFHGMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFH 255 (444)
Q Consensus 176 ~~vl~~~~~~~~~r~rr~~~~~~~~r~~~~~~~~~~~~lp~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH 255 (444)
..++.+++++++++.+.+.+.. .+.+++.++.++++|..+|++..+++.. +.|+||||+|+.||++|+|||+|.||
T Consensus 180 ~~il~~~f~i~~~~~~~~~r~~---~~~~r~~k~~l~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLPC~H~FH 255 (348)
T KOG4628|consen 180 VAILVTCFFIYRIRRLIRARNR---LRRNRLIKRLLKKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILPCSHKFH 255 (348)
T ss_pred HHHHHHHHHHHHHHHHHHHHhH---hhhhhhHHHHHhhCCcEEeccccccCCC-ceEEEeecccccCCeeeEecCCCchh
Confidence 9999988888776654433322 4567899999999999999988877655 89999999999999999999999999
Q ss_pred HhHHHHHHhcCCCCCCccccCCcCCCCCCCCCCCCCCCCCCCCC
Q 013394 256 AFCVDSWLTSWRTFCPVCKRDARTSTGEPPASESTPLLSSSPAS 299 (444)
Q Consensus 256 ~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~~~~~~~~~~~~~~~~~ 299 (444)
..|||+||.++++.||+||+++....+.+...|.+|..+..+++
T Consensus 256 ~~CIDpWL~~~r~~CPvCK~di~~~~~~~~~~e~tp~~~~~~~~ 299 (348)
T KOG4628|consen 256 VNCIDPWLTQTRTFCPVCKRDIRTDSGSEPVSEDTPLLSQGPSS 299 (348)
T ss_pred hccchhhHhhcCccCCCCCCcCCCCCCCCCccCCCccccCCCCc
Confidence 99999999999888999999999999999999988877766644
No 2
>cd02123 PA_C_RZF_like PA_C-RZF_ like: Protease-associated (PA) domain C_RZF-like. This group includes various PA domain-containing proteins similar to C-RZF (chicken embryo RING zinc finger) protein. These proteins contain a C3H2C3 RING finger. C-RZF is expressed in embryo cells and is restricted mainly to brain and heart, it is localized to both the nucleus and endosomes. Additional C3H2C3 RING finger proteins belonging to this group, include Arabidopsis ReMembR-H2 protein and mouse sperizin. ReMembR-H2 is likely to be an integral membrane protein, and to traffic through the endosomal pathway. Sperizin is expressed in haploid germ cells and localized in the cytoplasm, it may participate in spermatogenesis. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and acce
Probab=99.87 E-value=1.6e-21 Score=176.18 Aligned_cols=120 Identities=52% Similarity=0.786 Sum_probs=103.2
Q ss_pred eeeEeeccccccCCCCCCCCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEec
Q 013394 29 VTLSFDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYD 108 (444)
Q Consensus 29 ~~~~f~~~~A~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n 108 (444)
....|+..+|.||+..++.++.|.|+.++|.+||+++++.+.+..+..++||||+||+|+|.+|+++||++||+||||||
T Consensus 20 ~~~~~~~~~A~FG~~~~~~~~~g~lv~~~p~~gC~~~~~~~~~~~~~~g~IvLV~RG~CtF~~Kv~nAq~aGA~avII~n 99 (153)
T cd02123 20 LTDEFDDLPANFGPIPPGSGLKGVLVVAEPLNACSPIENPPLNSNASGSFIVLIRRGNCSFETKVRNAQRAGYKAAIVYN 99 (153)
T ss_pred ccceEeeecccCCCCCCCCceEEEEEeCCccccCCCCcccccccccCCCeEEEEECCCCCHHHHHHHHHHCCCCEEEEEE
Confidence 44568889999999998888999999999999999998754344566899999999999999999999999999999999
Q ss_pred cCCCcceeeecCCCC---CceEEEEEEeccccchhhhhcCcccc
Q 013394 109 NEDDGVLVAMAGNSA---GIKIHAVFVSKASGEKLKQYAGSTDM 149 (444)
Q Consensus 109 ~~~~~~~~~~~g~~~---~i~Ip~v~Is~~~G~~L~~~l~~~~v 149 (444)
++++ .+..|.++.. .++||+++|++++|+.|++.++....
T Consensus 100 ~~~~-~~~~m~~~~~~~~~v~IP~v~Is~~dg~~L~~~l~~~~~ 142 (153)
T cd02123 100 DESN-DLISMSGNDQEIKGIDIPSVFVGKSTGEILKKYASYEKG 142 (153)
T ss_pred CCCC-cceeccCCCCCCcCCEEEEEEeeHHHHHHHHHHHhcCCc
Confidence 8775 4556666554 78999999999999999998877655
No 3
>cd02127 PA_hPAP21_like PA_hPAP21_like: Protease-associated domain containing proteins like the human secreted glycoprotein hPAP21 (human protease-associated domain-containing protein, 21kDa). This group contains various PA domain-containing proteins similar to hPAP21. Complex N-glycosylation may be required for the secretion of hPAP21. The significance of the PA domain to hPAP21 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.83 E-value=2.5e-20 Score=161.19 Aligned_cols=107 Identities=31% Similarity=0.438 Sum_probs=90.8
Q ss_pred ccCCCCCCCCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCC--ccee
Q 013394 39 NFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD--GVLV 116 (444)
Q Consensus 39 ~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~--~~~~ 116 (444)
.||..++.+...|.|+.++|.+||++.++. .+++++||||+||+|+|.+|+++||++||+||||||+.++ ....
T Consensus 1 ~~~~~~~~~~~~~~lv~~~p~~gC~~~~~~----~~~~g~I~Lv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~~~~~~ 76 (118)
T cd02127 1 DFGTIFNTRYKHVPLVPADPLEACEELRNI----HDINGNIALIERGGCSFLTKAINAQKAGALAVIITDVNNDSDEYYV 76 (118)
T ss_pred CCCccccccccceEEEECCccccCCCCCCc----cccCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCCccccce
Confidence 489999999999999999999999986542 3467999999999999999999999999999999998654 2344
Q ss_pred eecCC--CCCceEEEEEEeccccchhhhhcCcccc
Q 013394 117 AMAGN--SAGIKIHAVFVSKASGEKLKQYAGSTDM 149 (444)
Q Consensus 117 ~~~g~--~~~i~Ip~v~Is~~~G~~L~~~l~~~~v 149 (444)
.|.++ ...++||+++|++++|+.|++.+..+..
T Consensus 77 ~m~~~~~~~~i~IP~v~Is~~dG~~L~~~l~~g~~ 111 (118)
T cd02127 77 EMIQDDSSRRADIPAAFLLGKNGYMIRKTLERLGL 111 (118)
T ss_pred EecCCCCCCCceEEEEEecHHHHHHHHHHHHcCCc
Confidence 56555 4568999999999999999998876654
No 4
>cd02126 PA_EDEM3_like PA_EDEM3_like: protease associated domain (PA) domain-containing EDEM3-like proteins. This group contains various PA domain-containing proteins similar to mouse EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein). EDEM3 contains a region, similar to Class I alpha-mannosidases (gylcosyl hydrolase family 47), N-terminal to the PA domain. EDEM3 accelerates glycoprotein ERAD (ER-associated degradation). In transfected mammalian cells, overexpression of EDEM3 enhances the mannose trimming from the N-glycans, of a model misfolded protein [alpha1-antitrypsin null (Hong Kong)] as well as, from total glycoproteins. Mannose trimming appears to be involved in the selection of ERAD substrates. EDEM3 has a different specificity of trimming than ER alpha-mannosidase 1. The significance of the PA domain to EDEM3 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or pr
Probab=99.83 E-value=2.4e-20 Score=163.34 Aligned_cols=109 Identities=30% Similarity=0.491 Sum_probs=91.1
Q ss_pred ccccccCCCCCCC-CceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCc
Q 013394 35 DIEANFAPAIRGS-GDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDG 113 (444)
Q Consensus 35 ~~~A~Fg~~~~~~-~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~ 113 (444)
..+|.||..++.. .+.|.|+.++|.+||+++++.. ++.++||||+||+|+|.+|+++||++||+||||||+.++.
T Consensus 2 ~~pa~FG~~~~~~~~~~g~l~~~~p~~gC~~~~~~~----~~~gkIaLv~RG~C~f~~K~~~Aq~aGA~avII~n~~~~~ 77 (126)
T cd02126 2 AGPAQFGMDLTGDKAGVGRVVKAKPYRACSEITNAE----EVKGKIAIMERGDCMFVEKARRVQKAGAIGGIVIDNNEGS 77 (126)
T ss_pred CCCcccCCcCCCCCCceEEEEeCCchhcccCCCCcc----ccCceEEEEECCCCcHHHHHHHHHHCCCcEEEEEECCCCc
Confidence 3589999988864 6899999999999999886522 3579999999999999999999999999999999876652
Q ss_pred -----ceeeecCCC---CCceEEEEEEeccccchhhhhcCcc
Q 013394 114 -----VLVAMAGNS---AGIKIHAVFVSKASGEKLKQYAGST 147 (444)
Q Consensus 114 -----~~~~~~g~~---~~i~Ip~v~Is~~~G~~L~~~l~~~ 147 (444)
....|.++. ..+.||+++|++.+|+.|++.+..+
T Consensus 78 ~~~~~~~~~m~~~~~~~~~~~IP~v~I~~~dG~~L~~~l~~~ 119 (126)
T cd02126 78 SSDTAPMFAMSGDGDSTDDVTIPVVFLFSKEGSKLLAAIKEH 119 (126)
T ss_pred cccccceeEeecCCCCCCCCeEEEEEEEHHHHHHHHHHHHhC
Confidence 345566654 3679999999999999999987654
No 5
>cd02125 PA_VSR PA_VSR: Protease-associated (PA) domain-containing plant vacuolar sorting receptor (VSR). This group includes various PA domain-containing VSRs such as garden pea BP-80, pumpkin PV72, and various Arabidopsis VSRs including AtVSR1. In contrast to most eukaryotes, which only have one or two VSRs, plants have several. This may in part be a reflection of having a more complex vacuolar system with both lytic vacuoles and storage vacuoles. The lytic vacuole is thought to be equivalent to the mammalian lysosome and the yeast vacuole. Pea BP-80 is a type 1 transmembrane protein, involved in the targeting of proteins to the lytic vacuole; it has been suggested that this protein also mediates targeting to the storage vacuole. PV72 and AtVSR1 may mediate transport of seed storage proteins to protein storage vacuoles. The significance of the PA domain to VSRs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may partic
Probab=99.83 E-value=2.8e-20 Score=162.93 Aligned_cols=108 Identities=33% Similarity=0.440 Sum_probs=88.0
Q ss_pred ccCCCCCCCCceEEEEec-CCcCCCCCCCCCC--cc-cCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCcc
Q 013394 39 NFAPAIRGSGDCGVLYVA-EPLDACSNLTSKV--EK-VSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGV 114 (444)
Q Consensus 39 ~Fg~~~~~~~~~G~L~~~-~p~~aC~~l~~~~--~~-~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~ 114 (444)
+||...+++.+.|.|+.+ ++.+||+++.... .+ .+...++||||+||+|+|.+|+++||++||+||||||+.++.
T Consensus 1 ~FG~~~yg~~~~G~l~~~~~~~~gC~~~~~~~~~~~~~~~~~~~IvLv~RG~C~F~~K~~~Aq~aGA~avII~n~~~~~- 79 (127)
T cd02125 1 NFGLPQYGGTLTGVVVYPKENRTGCKEFDVFFKPKKSEPGRRPVILLLDRGGCFFTLKAWNAQQAGAAAVLVADNVDEP- 79 (127)
T ss_pred CCCCCCcCCeeEEEEEecCCccccCCCCcccccccccccCCCceEEEEECCCcCHHHHHHHHHHCCCcEEEEEECCCCc-
Confidence 699999999999999776 7899999986632 11 113578999999999999999999999999999999987763
Q ss_pred eeeec--------CCCCCceEEEEEEeccccchhhhhcCcc
Q 013394 115 LVAMA--------GNSAGIKIHAVFVSKASGEKLKQYAGST 147 (444)
Q Consensus 115 ~~~~~--------g~~~~i~Ip~v~Is~~~G~~L~~~l~~~ 147 (444)
+..|. +....++||++||++.+|+.|++.+..+
T Consensus 80 ~~~m~~~~~~~~~~~~~~i~IP~v~Is~~~G~~L~~~l~~g 120 (127)
T cd02125 80 LLTMDTPEESGSADYIEKITIPSALITKAFGEKLKKAISNG 120 (127)
T ss_pred cccccCcccccccccCCCceEeEEEECHHHHHHHHHHHhcC
Confidence 33342 2234678999999999999999987665
No 6
>cd02122 PA_GRAIL_like PA _GRAIL_like: Protease-associated (PA) domain GRAIL-like. This group includes PA domain containing E3 (ubiquitin ligases) similar to human GRAIL (gene related to anergy in lymphocytes) protein. Proteins in this group contain a C3H2C3 RING finger. E3 ubiquitin ligase is part of an enzymic cascade, the end result of which is the ubiquitination of proteins. In this cascade, E1 activates the ubiquitin, the activated ubiquitin is carried by E2, and E3 recognizes the acceptor protein as well as catalyzes the transfer of the activated ubiquitin from E2 to this acceptor. GRAIL, a transmembrane protein localized in the endosomes, controls the development of T cell clonal anergy, and may ubiquitinate membrane-associated targets for T cell activation. GRAIL1 is associated with, and regulated by, two isoforms of otubain 1 (the ubiquitin-specific protease). Additional E3s belonging to this group include human (h)Goliath and Xenopus GREUL1 (Goliath Related E3 Ubiquitin Ligase
Probab=99.80 E-value=2e-19 Score=159.66 Aligned_cols=111 Identities=19% Similarity=0.277 Sum_probs=90.3
Q ss_pred ccccccCCCCCCCCceEEEEec---CCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCC
Q 013394 35 DIEANFAPAIRGSGDCGVLYVA---EPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNED 111 (444)
Q Consensus 35 ~~~A~Fg~~~~~~~~~G~L~~~---~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~ 111 (444)
..+|.||...++.++.|.|+.+ .+.+||.++.+. ....+..++||||+||+|+|.+|+++||++||+||||||+++
T Consensus 17 ~~~a~fg~~~~~~~~~G~l~~~~~~~~~~gC~~~~~~-~~~~~~~g~IaLV~RG~C~F~~K~~nA~~aGA~aVIIyn~~~ 95 (138)
T cd02122 17 TESGRYGEHSPKEEAKGLVVVPDPPNDHYGCDPDTRF-PIPPNGEPWIALIQRGNCTFEEKIKLAAERNASAVVIYNNPG 95 (138)
T ss_pred ccccccCCCCCCCccEEEEecCCCCCCcCCCCCCccc-cCCccCCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCC
Confidence 3479999999999999998554 458999998752 112345799999999999999999999999999999999987
Q ss_pred -CcceeeecCCCCCceEEEEEEeccccchhhhhcCcc
Q 013394 112 -DGVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGST 147 (444)
Q Consensus 112 -~~~~~~~~g~~~~i~Ip~v~Is~~~G~~L~~~l~~~ 147 (444)
......|..+. ...||+++|++.+|+.|++.+..+
T Consensus 96 ~~~~~~~m~~~~-~~~ip~v~Is~~~G~~l~~~l~~G 131 (138)
T cd02122 96 TGNETVKMSHPG-TGDIVAIMITNPKGMEILELLERG 131 (138)
T ss_pred CCCceeeccCCC-CCcceEEEEcHHHHHHHHHHHHcC
Confidence 33455554443 347999999999999999988664
No 7
>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1. A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid
Probab=99.80 E-value=1.9e-19 Score=155.53 Aligned_cols=106 Identities=34% Similarity=0.507 Sum_probs=86.3
Q ss_pred ccccccCCCCCCCCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCcc
Q 013394 35 DIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGV 114 (444)
Q Consensus 35 ~~~A~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~ 114 (444)
+..|.|||..... +.+. +.++|.+||++.+. .++.++||||+||+|+|.+|+++||++||+||||||+.++..
T Consensus 5 ~~~~~~~~~~~~~-~~~~-~~~~p~~gC~~~~~-----~~l~gkIvLV~RG~CsF~~K~~nAq~aGA~avII~n~~~~~~ 77 (117)
T cd04813 5 GRYASFSPILNPH-LRGS-YKVSPTDACSLQEH-----AEIDGKVALVLRGGCGFLDKVMWAQRRGAKAVIVGDDEPGRG 77 (117)
T ss_pred ccccccCCccCcc-cccc-ccCCCCCCCCCCCc-----CCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCccc
Confidence 3678999988765 4443 44899999998732 456899999999999999999999999999999999877644
Q ss_pred eeeec--CCCCCceEEEEEEeccccchhhhhcCcc
Q 013394 115 LVAMA--GNSAGIKIHAVFVSKASGEKLKQYAGST 147 (444)
Q Consensus 115 ~~~~~--g~~~~i~Ip~v~Is~~~G~~L~~~l~~~ 147 (444)
+..|. ++...++||+++|++++|+.|+.++++.
T Consensus 78 ~~~m~~~~~~~~v~IPav~Is~~~g~~L~~l~~~~ 112 (117)
T cd04813 78 LITMFSNGDTDNVTIPAMFTSRTSYHLLSSLLPKS 112 (117)
T ss_pred ceecccCCCCCCcEEEEEEEcHHHHHHHHHhcccc
Confidence 44454 3445789999999999999999987753
No 8
>cd02132 PA_GO-like PA_GO-like: Protease-associated domain containing proteins like Arabidopsis thaliana growth-on protein GRO10. This group contains various PA domain-containing proteins similar to the functionally uncharacterized Arabidopsis GRO10. The PA domain may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.80 E-value=2.7e-19 Score=159.31 Aligned_cols=112 Identities=25% Similarity=0.460 Sum_probs=92.9
Q ss_pred ceeeEeeccccccCCCCCC---CCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEE
Q 013394 28 NVTLSFDDIEANFAPAIRG---SGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAA 104 (444)
Q Consensus 28 ~~~~~f~~~~A~Fg~~~~~---~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~av 104 (444)
...-+|.+.+|.||+.++. .++.+.|+.++|.+||+++.+ +++++||||+||+|+|.+|+++||++||+||
T Consensus 14 ~~~~~~~~~~a~FG~~~p~~~~~~~~~~lv~~~~~~gC~~~~~------~~~g~IvLV~RG~C~F~~K~~nA~~aGA~av 87 (139)
T cd02132 14 DEGDELVGVTARFGASLPSKEDNANKTRAVLANPLDCCSPSTS------KLSGSIALVERGECAFTEKAKIAEAGGASAL 87 (139)
T ss_pred ccccEEEeeccccCCCCCCcccCccEEEEEECCcccccCCCCc------ccCCeEEEEECCCCCHHHHHHHHHHcCCcEE
Confidence 3445789999999988865 357889999999999999853 3579999999999999999999999999999
Q ss_pred EEeccCCCcceeeecCC----CCCceEEEEEEeccccchhhhhcCcc
Q 013394 105 IVYDNEDDGVLVAMAGN----SAGIKIHAVFVSKASGEKLKQYAGST 147 (444)
Q Consensus 105 II~n~~~~~~~~~~~g~----~~~i~Ip~v~Is~~~G~~L~~~l~~~ 147 (444)
||||+.++ +..|.+. ...+.||+++|++.+|+.|++.++++
T Consensus 88 Iv~n~~~~--~~~~~~~~~~~~~~~~IP~v~Is~~~G~~L~~~l~~g 132 (139)
T cd02132 88 LIINDQEE--LYKMVCEDNDTSLNISIPVVMIPQSAGDALNKSLDQG 132 (139)
T ss_pred EEEECCCc--ccccccCCCCCCCCCcEeEEEecHHHHHHHHHHHHcC
Confidence 99998764 3344322 12578999999999999999988664
No 9
>cd02129 PA_hSPPL_like PA_hSPPL_like: Protease-associated domain containing human signal peptide peptidase-like (hSPPL)-like. This group contains various PA domain-containing proteins similar to hSPPL2a and 2b. These SPPLs are GxGD aspartic proteases. SPPL2a is sorted to the late endosomes, SPPL2b to the plasma membrane. In activated dendritic cells, hSPPL2a and 2b catalyze the intramembrane proteolysis of tumor necrosis factor alpha triggering IL-12 production. hSPPL2a and 2b may have a broad substrate spectrum. The significance of the PA domain to these SPPLs has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.76 E-value=1.7e-18 Score=149.45 Aligned_cols=94 Identities=21% Similarity=0.209 Sum_probs=77.2
Q ss_pred eEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCcceeeecCCCCCceEEE
Q 013394 50 CGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHA 129 (444)
Q Consensus 50 ~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~~~~~~g~~~~i~Ip~ 129 (444)
.-.|+.++|..||++.+..+ .++.++|+||+||+|+|.+|+++||++||+|||||||++........++...++||+
T Consensus 21 ~~~~~~~~~~~gC~~~~~~~---~~l~gkIaLV~RG~CsF~~K~~~Aq~aGA~aVII~nn~~~~~~~~~~~~~~~v~IP~ 97 (120)
T cd02129 21 LLPLRNLTSSVLCSASDVPP---GGLKGKAVVVMRGNCTFYEKARLAQSLGAEGLLIVSRERLVPPSGNRSEYEKIDIPV 97 (120)
T ss_pred ceeeecCCCcCCCCccccCc---cccCCeEEEEECCCcCHHHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCcCCcccE
Confidence 44688999999999886543 245799999999999999999999999999999999876422222233346789999
Q ss_pred EEEeccccchhhhhcCc
Q 013394 130 VFVSKASGEKLKQYAGS 146 (444)
Q Consensus 130 v~Is~~~G~~L~~~l~~ 146 (444)
+||++++|+.|++.+++
T Consensus 98 v~Is~~dG~~i~~~l~~ 114 (120)
T cd02129 98 ALLSYKDMLDIQQTFGD 114 (120)
T ss_pred EEEeHHHHHHHHHHhcc
Confidence 99999999999998874
No 10
>cd04818 PA_subtilisin_1 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following subtilisin-like proteases: i) melon cucumisin, ii) Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12, iv) members of the tomato P69 family, and v) tomato LeSBT2. However, these proteins belong to other subtilisin-like subgroups. Relatively little is known about proteins in this subgroup.
Probab=99.72 E-value=3.4e-17 Score=141.55 Aligned_cols=113 Identities=32% Similarity=0.461 Sum_probs=93.1
Q ss_pred cccccCCCCCC---CCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCC
Q 013394 36 IEANFAPAIRG---SGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD 112 (444)
Q Consensus 36 ~~A~Fg~~~~~---~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~ 112 (444)
.+|.||+.+.. ..+.|.|+.++|.++|++.... .+..+||||++||+|+|.+|+++|+++||+|+||||+.++
T Consensus 1 ~~a~fg~~~~~~~~~~~~~~~~~~~~~~~C~~~~~~----~~v~GkIvL~~rg~c~f~~k~~~a~~aGA~gvIi~~~~~~ 76 (118)
T cd04818 1 VSAGFGPALTNVTADVVLAGAAPASNTDGCTAFTNA----AAFAGKIALIDRGTCNFTVKVLNAQNAGAIAVIVANNVAG 76 (118)
T ss_pred CCcccCCcCccccccceeEEEecCCcccccCCCCcC----CCCCCEEEEEECCCCCHHHHHHHHHHCCCeEEEEEECCCC
Confidence 37899988885 5688999999999999988652 2467999999999999999999999999999999998776
Q ss_pred cceeeecCCCCCceEEEEEEeccccchhhhhcCc-ccceee
Q 013394 113 GVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGS-TDMEIW 152 (444)
Q Consensus 113 ~~~~~~~g~~~~i~Ip~v~Is~~~G~~L~~~l~~-~~v~v~ 152 (444)
.....|.++.....||+++|++++|+.|++++.. ..+.++
T Consensus 77 ~~~~~~~~~~~~~~iP~v~V~~~~g~~l~~~l~~g~~v~v~ 117 (118)
T cd04818 77 GAPITMGGDDPDITIPAVMISQADGDALKAALAAGGTVTVT 117 (118)
T ss_pred CcceeccCCCCCCEEeEEEecHHHHHHHHHHHhcCCcEEEe
Confidence 4344455544456899999999999999998874 345443
No 11
>cd04816 PA_SaNapH_like PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the peptidase M28 family. NapH is a terminal enzyme in the puromycin biosynthetic pathway; NapH hydrolyzes N-acetylpuromycin to the active antibiotic. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.69 E-value=1.1e-16 Score=139.41 Aligned_cols=109 Identities=28% Similarity=0.452 Sum_probs=87.2
Q ss_pred ccccCCCCCCCCceEEEEecCC--cCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCcc
Q 013394 37 EANFAPAIRGSGDCGVLYVAEP--LDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGV 114 (444)
Q Consensus 37 ~A~Fg~~~~~~~~~G~L~~~~p--~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~ 114 (444)
+..|++..+..+++|.|+..++ .++|++.+... .++++|||||+||+|+|.+|+++||++||+|+||||+.++..
T Consensus 5 ~~~~~~~~~~~gi~~~lv~~~~~~~~gC~~~~~~~---~~~~GkIvLv~rg~c~f~~K~~~A~~aGA~avIi~n~~~~~~ 81 (122)
T cd04816 5 SLSYSPSTPPGGVTAPLVPLDPERPAGCDASDYDG---LDVKGAIVLVDRGGCPFADKQKVAAARGAVAVIVVNNSDGGG 81 (122)
T ss_pred EEeccCCCCCCCcEEEEEEcCCCCccCCCccccCC---CCcCCeEEEEECCCCCHHHHHHHHHHCCCcEEEEEeCCCCcc
Confidence 4568888888899999988765 58999875432 356899999999999999999999999999999999877432
Q ss_pred eeeecCC-CCCceEEEEEEeccccchhhhhcCccc
Q 013394 115 LVAMAGN-SAGIKIHAVFVSKASGEKLKQYAGSTD 148 (444)
Q Consensus 115 ~~~~~g~-~~~i~Ip~v~Is~~~G~~L~~~l~~~~ 148 (444)
...+..+ .....||+++|++++|+.|+++++.+.
T Consensus 82 ~~~~~~~~~~~~~iP~~~Is~~~G~~l~~~l~~g~ 116 (122)
T cd04816 82 TAGTLGAPNIDLKVPVGVITKAAGAALRRRLGAGE 116 (122)
T ss_pred ccccccCCCCCCeeeEEEEcHHHHHHHHHHHcCCC
Confidence 2222222 246689999999999999999887653
No 12
>cd02130 PA_ScAPY_like PA_ScAPY_like: Protease-associated domain containing proteins like Saccharomyces cerevisiae aminopeptidase Y (ScAPY). This group contains various PA domain-containing proteins similar to the S. cerevisiae APY, including Trichophyton rubrum leucine aminopeptidase 1(LAP1). Proteins in this group belong to the peptidase M28 family. ScAPY hydrolyzes amino acid-4-methylcoumaryl-7-amides (MCAs). ScAPY more rapidly hydrolyzes dipeptidyl-MCAs. Hydrolysis of amino acid-MCAs or dipeptides is stimulated by Co2+ while the hydrolysis of dipeptidyl-MCAs, tripeptides, and longer peptides is inhibited by Co2+. ScAPY is vacuolar and is activated by proteolytic processing. LAP1 is a secreted leucine aminopeptidase. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stab
Probab=99.65 E-value=8.2e-16 Score=133.79 Aligned_cols=107 Identities=28% Similarity=0.406 Sum_probs=81.8
Q ss_pred eeccccccCCCCCCCCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCC
Q 013394 33 FDDIEANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD 112 (444)
Q Consensus 33 f~~~~A~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~ 112 (444)
|+..+..|.+. .+.+|.|+.. +.++|.+.+.. .++.++||||+||+|+|.+|+++|+++||++|||||+.+.
T Consensus 9 ~~~~~~~~~~~---~~~~g~lv~~-~~~gC~~~~~~----~~~~gkIvlv~rg~c~f~~K~~~A~~aGA~~vIv~n~~~~ 80 (122)
T cd02130 9 IPTTAFTYSPA---GEVTGPLVVV-PNLGCDAADYP----ASVAGNIALIERGECPFGDKSALAGAAGAAAAIIYNNVPA 80 (122)
T ss_pred EeeeecccCCC---CCcEEEEEEe-CCCCCCcccCC----cCCCCEEEEEECCCCCHHHHHHHHHHCCCcEEEEEECCCC
Confidence 44444334442 3468988886 46899986543 2468999999999999999999999999999999998743
Q ss_pred cceeeecCCCCCceEEEEEEeccccchhhhhcCcc
Q 013394 113 GVLVAMAGNSAGIKIHAVFVSKASGEKLKQYAGST 147 (444)
Q Consensus 113 ~~~~~~~g~~~~i~Ip~v~Is~~~G~~L~~~l~~~ 147 (444)
.....+.++.....||+++|++++|+.|++.++.+
T Consensus 81 ~~~~~~~~~~~~~~Ip~v~Is~~~G~~L~~~l~~g 115 (122)
T cd02130 81 GGLSGTLGEPSGPYVPTVGISQEDGKALVAALANG 115 (122)
T ss_pred cccccccCCCCCCEeeEEEecHHHHHHHHHHHhcC
Confidence 33333344445678999999999999999987665
No 13
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.58 E-value=2.5e-16 Score=151.58 Aligned_cols=52 Identities=40% Similarity=1.052 Sum_probs=47.6
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART 279 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~ 279 (444)
..-+|+||+++|..+|++++|||.|.||..|+++|+.-++..||+||.++++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3579999999999999999999999999999999999766669999998875
No 14
>cd04817 PA_VapT_like PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from the psychotroph Shewanella strain Ac10 and the Apa1 protease from the psychrotroph Pseudoalteromonas Sp. As-11. VapT is a sodium dodecyl sulfate (SDS) resistant extracellular alkaline serine protease showing high activity over a broad pH range and temperature. SapSh has a high level of protease activity at low temperatures. Apa1 is also cold-adapted. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.58 E-value=1.3e-14 Score=128.59 Aligned_cols=102 Identities=29% Similarity=0.361 Sum_probs=77.1
Q ss_pred ccCCCCCCCCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCC-----HHHHHHHHHHcCCeEEEEeccCCCc
Q 013394 39 NFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCS-----FEDKVRNAQKAGFEAAIVYDNEDDG 113 (444)
Q Consensus 39 ~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~Cs-----F~~Kv~~Aq~aGA~avII~n~~~~~ 113 (444)
.|........++|.|+.... .+|+-. ..+.++||+||+||+|+ |.+|+++|+++||+|||||||+++.
T Consensus 26 ~~~s~~~~g~~tg~lv~~g~-~g~d~~------~~d~~GkIaLI~RG~c~~~~~~f~~Kv~~A~~aGA~avIIyNn~~~~ 98 (139)
T cd04817 26 SYASMPVTGSATGSLYYCGT-SGGSYI------CGGMAGKICLIERGGNSKSVYPEIDKVKACQNAGAIAAIVYSNAALA 98 (139)
T ss_pred cccccccCCcceEEEEEccC-CCcccc------CCCcCccEEEEECCCCCCCcccHHHHHHHHHHCCCeEEEEEeCCCCC
Confidence 34444444567899888774 347321 12457999999999999 9999999999999999999998432
Q ss_pred -ceeeecCCCC-CceEEEEEEeccccchhhhhcCcc
Q 013394 114 -VLVAMAGNSA-GIKIHAVFVSKASGEKLKQYAGST 147 (444)
Q Consensus 114 -~~~~~~g~~~-~i~Ip~v~Is~~~G~~L~~~l~~~ 147 (444)
.+..+.++.. .+.||+|+|++++|+.|+..+++.
T Consensus 99 g~~~~~lg~~~~~~~IP~v~is~~dG~~L~~~l~~~ 134 (139)
T cd04817 99 GLQNPFLVDTNNDTTIPSVSVDRADGQALLAALGQS 134 (139)
T ss_pred CcccccccCCCCCceEeEEEeeHHHHHHHHHHhcCC
Confidence 2333445443 789999999999999999987653
No 15
>KOG3920 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.55 E-value=2.7e-15 Score=132.05 Aligned_cols=113 Identities=26% Similarity=0.339 Sum_probs=87.6
Q ss_pred eeeEeecccc-ccCCCCCCCCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEe
Q 013394 29 VTLSFDDIEA-NFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVY 107 (444)
Q Consensus 29 ~~~~f~~~~A-~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~ 107 (444)
..++|...+| .||...+..-..-.|+.++|..||+.+.+. -...+.|+|++||+|+|..|.++++++||.|+||-
T Consensus 43 l~Yty~~~pAkdfG~~F~~r~e~~~lV~adPp~aC~elrN~----~f~~d~vaL~eRGeCSFl~Ktl~~e~aGa~aiiit 118 (193)
T KOG3920|consen 43 LAYTYQMKPAKDFGVHFPDRFENLELVLADPPHACEELRNE----IFAPDSVALMERGECSFLVKTLNGEKAGATAIIIT 118 (193)
T ss_pred EEEEEEecchhhhccccchhhcCcceeecCChhHHHHHhhc----ccCCCcEEEEecCCceeeehhhhhhhcCceEEEEe
Confidence 4567777777 788877654334468999999999998653 23458899999999999999999999999999998
Q ss_pred ccCCCc----ceeeecCCC--CCceEEEEEEeccccchhhhhcC
Q 013394 108 DNEDDG----VLVAMAGNS--AGIKIHAVFVSKASGEKLKQYAG 145 (444)
Q Consensus 108 n~~~~~----~~~~~~g~~--~~i~Ip~v~Is~~~G~~L~~~l~ 145 (444)
|+..+. ..+.|..+. +..+||++|+-+.+|-.++.-++
T Consensus 119 d~~~~~~sf~~YveMI~D~sq~~AniPa~fllg~~Gy~ir~sL~ 162 (193)
T KOG3920|consen 119 DSQNYEYSFHQYVEMIPDESQDRANIPAVFLLGVTGYYIRVSLK 162 (193)
T ss_pred cCCCCchhHHHHHHhcCcccccccCCceEEEeccceEEEehhHH
Confidence 865432 144555443 46789999999999988766544
No 16
>PF02225 PA: PA domain; InterPro: IPR003137 The PA (Protease associated) domain is found as an insert domain in diverse proteases, which include the MEROPS peptidase families A22B, M28, and S8A []. The PA domain is also found in a plant vacuolar sorting receptor O22925 from SWISSPROT and members of the RZF family, e.g. O43567 from SWISSPROT.; PDB: 3EIF_A 1XF1_B 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A ....
Probab=99.52 E-value=5e-15 Score=123.58 Aligned_cols=96 Identities=33% Similarity=0.414 Sum_probs=67.2
Q ss_pred CceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCcceeeecCCCCCceE
Q 013394 48 GDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKI 127 (444)
Q Consensus 48 ~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~~~~~~g~~~~i~I 127 (444)
...|.|+.+.+...+........+..+.+++||||+||+|+|.+|+++||++||+|+||+|..+...............|
T Consensus 5 ~~~~~lV~~~~~~~~~~~~~~~~~~~~~~gkIvlv~rg~~~~~~k~~~a~~~GA~gvIi~~~~~~~~~~~~~~~~~~~~i 84 (101)
T PF02225_consen 5 TVTGPLVPAGNGIDEGDCCPSDYNGSDVKGKIVLVERGSCSFDDKVRNAQKAGAKGVIIYNPPPNNGSMIDSEDPDPIDI 84 (101)
T ss_dssp EEEEEEEEETTEEECCHHHHHHTSTSTCTTSEEEEESTSSCHHHHHHHHHHTTESEEEEE-TSCSCTTTTCEBTTTSTBS
T ss_pred CEEEEEEEecCCCCcccccccccCCccccceEEEEecCCCCHHHHHHHHHHcCCEEEEEEeCCccccCcccccCCCCcEE
Confidence 45778885544433332222223344678999999999999999999999999999999993222222222334456799
Q ss_pred EEEEEeccccchhhhh
Q 013394 128 HAVFVSKASGEKLKQY 143 (444)
Q Consensus 128 p~v~Is~~~G~~L~~~ 143 (444)
|+++|++++|+.|+++
T Consensus 85 P~v~I~~~~g~~L~~~ 100 (101)
T PF02225_consen 85 PVVFISYEDGEALLAY 100 (101)
T ss_dssp EEEEE-HHHHHHHHHH
T ss_pred EEEEeCHHHHhhhhcc
Confidence 9999999999999876
No 17
>cd02124 PA_PoS1_like PA_PoS1_like: Protease-associated (PA) domain PoS1-like. This group includes various PA domain-containing proteins similar to Pleurotus ostreatus (Po)S1. PoSl, the main extracellular protease in P. ostreatus is a subtilisin-like serine protease belonging to the peptidase S8 family. Ca2+ and Mn2+ both stimulate the protease activity of (Po)S1. Ca2+ protects PoS1 from autolysis. PoS1 is a monomeric glycoprotein, which may play a role in the regulation of laccases in lignin formation. (Po)S1 participates in the degradation of POXA1b, and in the activation of POXA3, (POXA1b and POXA3 are laccase isoenzymes), but its effect may be indirect. The significance of the PA domain to PoS1 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=99.50 E-value=5.9e-14 Score=123.35 Aligned_cols=89 Identities=27% Similarity=0.393 Sum_probs=67.7
Q ss_pred EEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCcceeeecCCCCCceEEEEE
Q 013394 52 VLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVF 131 (444)
Q Consensus 52 ~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~~~~~~g~~~~i~Ip~v~ 131 (444)
.+..+++.+||+++.. +..+++++||||+||+|+|.+|+++|+++||++|||||+.++.. .+.+... ..+++++
T Consensus 34 ~~~~~~~~~gC~~~~~---~~~~~~g~IaLv~rg~c~f~~K~~nA~~aGA~aviiyn~~~~~~--~~~~~~~-~~~~~~~ 107 (129)
T cd02124 34 SLDTSVADDACQPLPD---DTPDLSGYIVLVRRGTCTFATKAANAAAKGAKYVLIYNNGSGPT--DQVGSDA-DSIIAAV 107 (129)
T ss_pred ecccCCCcccCcCCCc---ccccccCeEEEEECCCCCHHHHHHHHHHcCCcEEEEEECCCCcc--cccCCCC-cceeeEE
Confidence 3445578899998743 22356899999999999999999999999999999999876532 2223333 3455666
Q ss_pred EeccccchhhhhcCcc
Q 013394 132 VSKASGEKLKQYAGST 147 (444)
Q Consensus 132 Is~~~G~~L~~~l~~~ 147 (444)
+ +++|+.|++.+..+
T Consensus 108 ~-~~~G~~l~~~l~~G 122 (129)
T cd02124 108 T-PEDGEAWIDALAAG 122 (129)
T ss_pred e-HHHHHHHHHHHhcC
Confidence 6 99999999887654
No 18
>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=99.48 E-value=1.6e-14 Score=103.16 Aligned_cols=44 Identities=48% Similarity=1.140 Sum_probs=39.6
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccc
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 274 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR 274 (444)
++|+||+++|..++.+..++|+|+||.+||.+|+++++ +||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~-~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNN-SCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSS-B-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCC-cCCccC
Confidence 47999999999999999999999999999999999965 599997
No 19
>KOG2442 consensus Uncharacterized conserved protein, contains PA domain [General function prediction only]
Probab=99.42 E-value=4.6e-13 Score=136.58 Aligned_cols=117 Identities=29% Similarity=0.495 Sum_probs=86.6
Q ss_pred eccccccCCCCCCCCceEEE---EecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccC
Q 013394 34 DDIEANFAPAIRGSGDCGVL---YVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNE 110 (444)
Q Consensus 34 ~~~~A~Fg~~~~~~~~~G~L---~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~ 110 (444)
....|.||...+...-...+ ..++|+|.|.+...+- .+++++|.||+|+|.+|+++||++||.|++|.|+.
T Consensus 56 a~~~~~~~~t~~~~~~~a~~~~~a~~~pld~cs~~~~kl------~~~~~~v~RGnC~Ft~Ka~~Aq~aGAsaLliin~~ 129 (541)
T KOG2442|consen 56 AGMLARFGITLPSKCKAADIPHLAQVDPLDSCSTLQSKL------SGKVALVFRGNCSFTEKAKLAQAAGASALLIINNK 129 (541)
T ss_pred hhhhhhcCCcCCCCccccccchhhhcCCccccCCCCccc------cceeEEEecccceeehhhhhhhhcCceEEEEEcCc
Confidence 44568888776654322222 3458999999886543 68999999999999999999999999999999986
Q ss_pred CCcceeeecCC---CCCceEEEEEEeccccchhhhh-cCcccceeeeeccc
Q 013394 111 DDGVLVAMAGN---SAGIKIHAVFVSKASGEKLKQY-AGSTDMEIWIIPSF 157 (444)
Q Consensus 111 ~~~~~~~~~g~---~~~i~Ip~v~Is~~~G~~L~~~-l~~~~v~v~I~P~~ 157 (444)
++ .+.+..++ ..++.||++||++++|+.+.+. ..+..+++.++.+.
T Consensus 130 ~d-~~~~~~~~~~~~~dv~IPv~mi~~~~~~~l~~~~~~~~~V~~~lYaPk 179 (541)
T KOG2442|consen 130 KD-LLFMPCGNKETSLDVTIPVAMISYSDGRDLNKSTRSNDNVELALYAPK 179 (541)
T ss_pred hh-hccCCCCCCCccccccceEEEEEhhhHHHHHhhhccCCeEEEEEECCC
Confidence 64 22222222 2478999999999999998863 34456777766443
No 20
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=3.4e-13 Score=133.16 Aligned_cols=76 Identities=26% Similarity=0.646 Sum_probs=57.0
Q ss_pred CCcHHHHhhcccceeeccccccCCCcccccccccccc-C---------ceeEEeccCCeecHhHHHHHHhcCCCCCCccc
Q 013394 205 GMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSV-G---------EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 274 (444)
Q Consensus 205 ~~~~~~~~~lp~~~~~~~~~~~~~~~~C~ICle~~~~-~---------~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR 274 (444)
+..+++.+.+|+.+..+. ..++..|.||+|++-. + .+.+.|||||+||..|++.|++++++ ||+||
T Consensus 266 r~~kdl~~~~~t~t~eql---~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQT-CPICr 341 (491)
T COG5243 266 RATKDLNAMYPTATEEQL---TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQT-CPICR 341 (491)
T ss_pred HHhhHHHhhcchhhhhhh---cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccC-CCccc
Confidence 345677777776554433 2346899999999533 3 24589999999999999999999887 99999
Q ss_pred cC-CcCCCCCC
Q 013394 275 RD-ARTSTGEP 284 (444)
Q Consensus 275 ~~-i~~~~~~~ 284 (444)
.+ +.++.+..
T Consensus 342 ~p~ifd~~~~~ 352 (491)
T COG5243 342 RPVIFDQSSPT 352 (491)
T ss_pred CccccccCCCC
Confidence 99 55655543
No 21
>cd00538 PA PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases including, hSPPL2a and 2b which catalyze the intramembrane proteolysis of tumor necrosis factor alpha, ii) various proteins containing a C3H2C3 RING finger including, Arabidopsis ReMembR-H2 protein and various E3 ubiquitin ligases such as human GRAIL (gene related to anergy in lymphocytes), iii) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), iv) various plant vacuolar sorting receptors such as Pisum sativum BP-80, v) g
Probab=99.31 E-value=3.9e-12 Score=110.07 Aligned_cols=92 Identities=40% Similarity=0.547 Sum_probs=70.8
Q ss_pred EecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCcc-eeeecCC-CCCceEEEEE
Q 013394 54 YVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGV-LVAMAGN-SAGIKIHAVF 131 (444)
Q Consensus 54 ~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~-~~~~~g~-~~~i~Ip~v~ 131 (444)
....+.++|++... .....++++||||++||+|+|.+|+++|+++||+|+||+|+.+... ...+.++ .....||+++
T Consensus 25 ~~~~~~~~C~~~~~-~~~~~~~~GkIvl~~~g~~~~~~k~~~a~~~GA~gvii~~~~~~~~~~~~~~~~~~~~~~iP~~~ 103 (126)
T cd00538 25 VVAGPLVGCGYGTT-DDSGADVKGKIVLVRRGGCSFSEKVKNAQKAGAKAVIIYNNGDDPGPQMGSVGLESTDPSIPTVG 103 (126)
T ss_pred ccccceEEEecCcc-cccCCCccceEEEEECCCcCHHHHHHHHHHCCCEEEEEEECCCCcccccccccCCCCCCcEeEEE
Confidence 45567889988752 1223456899999999999999999999999999999999876421 1112221 2456799999
Q ss_pred EeccccchhhhhcCc
Q 013394 132 VSKASGEKLKQYAGS 146 (444)
Q Consensus 132 Is~~~G~~L~~~l~~ 146 (444)
|+.++|+.|++++..
T Consensus 104 is~~~g~~l~~~~~~ 118 (126)
T cd00538 104 ISYADGEALLSLLEA 118 (126)
T ss_pred eCHHHHHHHHHHHhc
Confidence 999999999998764
No 22
>cd02133 PA_C5a_like PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from Bacillus subtilis, ii) a large molecular mass collagenolytic protease from Geobacillus collagenovorans MO-1, and iii) PrtS, a cell envelope protease from Streptococcus thermophilus CNRZ 385. Proteins in this group belong to the peptidase S8 family. C5a peptidase is a cell surface serine protease which specifically inactivates C5a [a chemotactic peptide, which attracts polymorphonuclear leukocytes (PMNs)], by cleaving it to release a 7-residue carboxy-terminal fragment which contains the PMN binding site. The significance of the PA domain to these proteins has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promotin
Probab=99.26 E-value=3.5e-11 Score=107.56 Aligned_cols=100 Identities=27% Similarity=0.262 Sum_probs=72.9
Q ss_pred cccCCCCCCCCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCcceee
Q 013394 38 ANFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGVLVA 117 (444)
Q Consensus 38 A~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~~~~ 117 (444)
..|+...+..+..+.|+... .|.+.+.. ..+++++|||++||+|+|.+|+++|+++||+|+||||+.++. ..
T Consensus 15 ~~~~~~~~~~~~~~~lv~~g---~g~~~d~~---~~dv~GkIvL~~rg~c~~~~K~~~a~~aGA~gvIi~n~~~~~--~~ 86 (143)
T cd02133 15 AFSGNPTDLLGKTYELVDAG---LGTPEDFE---GKDVKGKIALIQRGEITFVEKIANAKAAGAVGVIIYNNVDGL--IP 86 (143)
T ss_pred ccCCCcCCCCCcEEEEEEcc---CCchhccC---CCCccceEEEEECCCCCHHHHHHHHHHCCCeEEEEeecCCCc--cc
Confidence 34555455556788887753 22322221 235689999999999999999999999999999999987653 22
Q ss_pred ecCCCCCceEEEEEEeccccchhhhhcCc
Q 013394 118 MAGNSAGIKIHAVFVSKASGEKLKQYAGS 146 (444)
Q Consensus 118 ~~g~~~~i~Ip~v~Is~~~G~~L~~~l~~ 146 (444)
+... ....||+++|++++|+.|++++..
T Consensus 87 ~~~~-~~~~iP~v~Is~~dG~~L~~~l~~ 114 (143)
T cd02133 87 GTLG-EAVFIPVVFISKEDGEALKAALES 114 (143)
T ss_pred ccCC-CCCeEeEEEecHHHHHHHHHHHhC
Confidence 2111 135799999999999999998865
No 23
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.19 E-value=1.4e-11 Score=118.35 Aligned_cols=74 Identities=26% Similarity=0.543 Sum_probs=54.2
Q ss_pred cCCcHHHHhhcccceeecccc-ccCCCccccccccccccCc----ee-EEeccCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 204 HGMSRRLVKAMPSLIFTAVVE-DNCTSRTCAICLEDYSVGE----KL-RILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 204 ~~~~~~~~~~lp~~~~~~~~~-~~~~~~~C~ICle~~~~~~----~~-~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
++..+.+++.+|.+...-... +...+.+|+||+|.+..++ .+ ..++|+|.||..||.+|+..+. +||+||.++
T Consensus 148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~-tCPlCR~~~ 226 (238)
T PHA02929 148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN-TCPVCRTPF 226 (238)
T ss_pred cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC-CCCCCCCEe
Confidence 445778888899875432221 2234689999999987653 12 3446999999999999999855 599999977
Q ss_pred c
Q 013394 278 R 278 (444)
Q Consensus 278 ~ 278 (444)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 5
No 24
>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=99.18 E-value=1.9e-11 Score=96.87 Aligned_cols=45 Identities=36% Similarity=0.840 Sum_probs=35.4
Q ss_pred CccccccccccccC----------ceeEEeccCCeecHhHHHHHHhcCCCCCCccc
Q 013394 229 SRTCAICLEDYSVG----------EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 274 (444)
Q Consensus 229 ~~~C~ICle~~~~~----------~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR 274 (444)
++.|+||++.|... -.+...+|+|.||..||.+||+.++ +||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCCCC
Confidence 45699999999332 2455667999999999999999866 599997
No 25
>cd04819 PA_2 PA_2: Protease-associated (PA) domain subgroup 2. A subgroup of PA-domain containing proteins. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabidopsis ReMembR-H2 protein, iv) EDEM3 (ER-degradation-enhancing mannosidase-like 3 protein), v) various plant vacuola
Probab=99.09 E-value=5.4e-10 Score=97.97 Aligned_cols=96 Identities=19% Similarity=0.098 Sum_probs=70.3
Q ss_pred CCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCC--CHHHHHHHHHHcCCeEEEEeccCCCccee-eecCC--
Q 013394 47 SGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGC--SFEDKVRNAQKAGFEAAIVYDNEDDGVLV-AMAGN-- 121 (444)
Q Consensus 47 ~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~C--sF~~Kv~~Aq~aGA~avII~n~~~~~~~~-~~~g~-- 121 (444)
.+++|.|+.+.. + .+.+.. ..++++|||||+||.| +|.+|+++|+++||+|+||+|+.++.... ...+.
T Consensus 21 ~~~~~~lV~~g~--G-~~~d~~---~~~v~GkIvlv~~g~~~~~~~~k~~~A~~~GA~avi~~~~~~g~~~~~~~~~~~~ 94 (127)
T cd04819 21 GEAKGEPVDAGY--G-LPKDFD---GLDLEGKIAVVKRDDPDVDRKEKYAKAVAAGAAAFVVVNTVPGVLPATGDEGTED 94 (127)
T ss_pred CCeeEEEEEeCC--C-CHHHcC---CCCCCCeEEEEEcCCCchhHHHHHHHHHHCCCEEEEEEeCCCCcCcccccccccC
Confidence 346888887652 2 111111 2356899999999999 99999999999999999999876653221 11122
Q ss_pred CCCceEEEEEEeccccchhhhhcCccc
Q 013394 122 SAGIKIHAVFVSKASGEKLKQYAGSTD 148 (444)
Q Consensus 122 ~~~i~Ip~v~Is~~~G~~L~~~l~~~~ 148 (444)
.....||++.|+.+||+.|+++++.+.
T Consensus 95 ~~~~~IP~v~Is~edg~~L~~~l~~g~ 121 (127)
T cd04819 95 GPPSPIPAASVSGEDGLRLARVAERND 121 (127)
T ss_pred CCCCCCCEEEEeHHHHHHHHHHHhcCC
Confidence 234679999999999999999887643
No 26
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.97 E-value=5.6e-10 Score=103.25 Aligned_cols=55 Identities=31% Similarity=0.591 Sum_probs=44.3
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhc---------------CCCCCCccccCCcCCCCCCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS---------------WRTFCPVCKRDARTSTGEPP 285 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~---------------~~~~CP~CR~~i~~~~~~~~ 285 (444)
++.+|+||++.++++ .+++|+|.||..||.+|+.. .+..||+||.++......+.
T Consensus 17 ~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi 86 (193)
T PLN03208 17 GDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI 86 (193)
T ss_pred CccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence 468999999998665 67889999999999999853 13469999999987655544
No 27
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=5.1e-10 Score=108.25 Aligned_cols=50 Identities=32% Similarity=0.759 Sum_probs=43.6
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTG 282 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~ 282 (444)
...|.+|||....+ -.+||||+||+.||..|...+.. ||+||.+..+++.
T Consensus 239 ~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~e-CPlCR~~~~pskv 288 (293)
T KOG0317|consen 239 TRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAE-CPLCREKFQPSKV 288 (293)
T ss_pred CCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccC-CCcccccCCCcce
Confidence 58999999997766 78999999999999999998555 9999999887653
No 28
>cd04815 PA_M28_2 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies; relatively little is known a
Probab=98.94 E-value=1.3e-09 Score=96.40 Aligned_cols=104 Identities=17% Similarity=0.150 Sum_probs=75.5
Q ss_pred ccCCCCCCCCceEEEEecCCcCCCCCCCCCCcccCCCcceEEEEecCCC------CHHHH-------HHHHHHcCCeEEE
Q 013394 39 NFAPAIRGSGDCGVLYVAEPLDACSNLTSKVEKVSNMSSAFVLTIRGGC------SFEDK-------VRNAQKAGFEAAI 105 (444)
Q Consensus 39 ~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~~~~~~~~~~~ivLV~RG~C------sF~~K-------v~~Aq~aGA~avI 105 (444)
.|.+..++.+++|.++.....+ .++.. ...++++|||||.||.| +|.+| .++|+++||.|+|
T Consensus 7 ~~s~~t~~~gvta~vv~v~~~~---~~~~~--~~~~v~GKIvlv~~~~~~~~~~~~~~~k~~~r~~~~~~A~~~GA~avI 81 (134)
T cd04815 7 GGSVATPPEGITAEVVVVKSFD---ELKAA--PAGAVKGKIVFFNQPMVRTQTGSGYGPTVAYRRRGAVEAAKKGAVAVL 81 (134)
T ss_pred CCCCCCCCCCcEEEEEEECCHH---HHHhc--chhhcCCeEEEecCCccccCchhhcCchhhhhhHHHHHHHhCCCEEEE
Confidence 3556666677999998776322 11111 12356899999999999 99999 7999999999999
Q ss_pred EeccCCCc---ceeeecCC-CCCceEEEEEEeccccchhhhhcCcc
Q 013394 106 VYDNEDDG---VLVAMAGN-SAGIKIHAVFVSKASGEKLKQYAGST 147 (444)
Q Consensus 106 I~n~~~~~---~~~~~~g~-~~~i~Ip~v~Is~~~G~~L~~~l~~~ 147 (444)
|+|+.+.. ....+.+. .....||++.|+.++|+.|.+.++.+
T Consensus 82 v~s~~~~~~~~~~~G~~~~~~~~~~IP~v~is~ed~~~L~r~l~~g 127 (134)
T cd04815 82 IRSIGTDSHRSPHTGMMSYDDGVPKIPAAAISVEDADMLERLAARG 127 (134)
T ss_pred EEecCcccCCCCcCCccccCCCCCCCCEEEechhcHHHHHHHHhCC
Confidence 99865331 11222333 33467999999999999999888765
No 29
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=4.8e-10 Score=105.54 Aligned_cols=59 Identities=29% Similarity=0.514 Sum_probs=46.8
Q ss_pred cCCCccccccccccccCceeEEeccCCeecHhHHHHHHhcC--CCCCCccccCCcCCCCCCCCC
Q 013394 226 NCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW--RTFCPVCKRDARTSTGEPPAS 287 (444)
Q Consensus 226 ~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~--~~~CP~CR~~i~~~~~~~~~~ 287 (444)
+....+|.||||.-+++ +++.|||.||+.||.+||+.+ +..|||||..|...+-.|.-.
T Consensus 44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYG 104 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYG 104 (230)
T ss_pred CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeec
Confidence 34568999999985544 777799999999999999873 345999999998776665433
No 30
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.92 E-value=8.7e-10 Score=77.44 Aligned_cols=45 Identities=42% Similarity=1.082 Sum_probs=37.1
Q ss_pred cccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 231 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
+|+||++.+ .+.+...+|+|.||..|++.|++..+..||+||.++
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999998 334566669999999999999998555699998764
No 31
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=5.4e-09 Score=112.76 Aligned_cols=54 Identities=35% Similarity=0.811 Sum_probs=46.3
Q ss_pred CCccccccccccccCce--eEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCC
Q 013394 228 TSRTCAICLEDYSVGEK--LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTG 282 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~--~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~ 282 (444)
.+..|.||+|++..++. .++|||+|+||..|+..|+++.++ ||+||..+.....
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qt-CP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQT-CPTCRTVLYDYVL 345 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCc-CCcchhhhhcccc
Confidence 46899999999988765 789999999999999999999665 9999996655443
No 32
>cd02120 PA_subtilisin_like PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from Alnus glutinosa ag12, members of the tomato P69 family, and tomato LeSBT2. These proteins belong to the peptidase S8 family. Cucumisin from the juice of melon fruits is a thermostable serine peptidase, with a broad substrate specificity for oligopeptides and proteins. A. thaliana Ara12 is a thermostable, extracellular serine protease, found chiefly in silique tissue and stem tissue. Ara12 is stimulated by Ca2+ ions. A. glutinosa ag12 is expressed at high levels in the nodules, and at low levels in the shoot tips; it is implicated in both symbiotic and non-symbiotic processes in plant development. The tomato P69 protease family is comprised of various protein isoforms of approximately 69KDa. These isoforms accu
Probab=98.85 E-value=5.7e-09 Score=90.73 Aligned_cols=83 Identities=25% Similarity=0.295 Sum_probs=65.9
Q ss_pred CcCCCCCCCCCCcccCCCcceEEEEecCCC-CHHHHHHHHHHcCCeEEEEeccCCCcceeeecCCCCCceEEEEEEeccc
Q 013394 58 PLDACSNLTSKVEKVSNMSSAFVLTIRGGC-SFEDKVRNAQKAGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKAS 136 (444)
Q Consensus 58 p~~aC~~l~~~~~~~~~~~~~ivLV~RG~C-sF~~Kv~~Aq~aGA~avII~n~~~~~~~~~~~g~~~~i~Ip~v~Is~~~ 136 (444)
....|++..... .+.++||||++||.| +|.+|+++|+++||.|+|++++.++.. .+.. ....||+++|.+++
T Consensus 36 ~~~~C~~~~~~~---~~v~GkIVlc~~~~~~~~~~k~~~~~~~GA~gvI~~~~~~~~~--~~~~--~~~~iP~v~I~~~~ 108 (126)
T cd02120 36 DASLCLPGSLDP---SKVKGKIVLCDRGGNTSRVAKGDAVKAAGGAGMILANDPTDGL--DVVA--DAHVLPAVHVDYED 108 (126)
T ss_pred ccccCCCCCCCh---hhccccEEEEeCCCCccHHHHHHHHHHcCCcEEEEEecCCCCc--eecc--cccccceEEECHHH
Confidence 346898765433 345799999999999 999999999999999999998776532 1111 13579999999999
Q ss_pred cchhhhhcCcc
Q 013394 137 GEKLKQYAGST 147 (444)
Q Consensus 137 G~~L~~~l~~~ 147 (444)
|+.|++++...
T Consensus 109 g~~l~~y~~~~ 119 (126)
T cd02120 109 GTAILSYINST 119 (126)
T ss_pred HHHHHHHHHcC
Confidence 99999988654
No 33
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.82 E-value=2e-09 Score=78.80 Aligned_cols=46 Identities=30% Similarity=0.798 Sum_probs=37.9
Q ss_pred CccccccccccccCceeEEeccCCe-ecHhHHHHHHhcCCCCCCccccCCc
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDAR 278 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~~CP~CR~~i~ 278 (444)
+..|.||++.+.. +..+||+|. |+..|++.|+.... .||+||++|.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~-~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKK-KCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTS-BBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCC-CCCcCChhhc
Confidence 4789999998544 688999999 99999999999644 5999999875
No 34
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.82 E-value=3e-09 Score=73.83 Aligned_cols=39 Identities=36% Similarity=0.997 Sum_probs=32.9
Q ss_pred ccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCcc
Q 013394 232 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVC 273 (444)
Q Consensus 232 C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~C 273 (444)
|+||++.+.+ .+..++|||.|+..||.+|++. +..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 8999999776 4678999999999999999999 5569998
No 35
>cd02128 PA_TfR PA_TfR: Protease-associated domain containing proteins like transferrin receptor (TfR). This group contains various PA domain-containing proteins similar to human TfR1 and TfR2. TfR1 and TfR2 are type II membrane proteins, belonging to the peptidase M28 family. TfR1 is homodimeric, widely expressed, and a key player in the uptake of iron-loaded transferrin (Tf) into cells. The TfR1 homodimer binds two molecules of Tf and this complex is internalized. In addition to its role in iron uptake, TfR1 may participate in cell growth and proliferation. TfR2 also binds Tf but with a significantly lower affinity than does TfR1. TfR2 is expressed chiefly in hepatocytes, hematopoietic cells, and duodenal crypt cells; its expression overlaps with that of hereditary hemochromatosis protein (HFE). TfR2 is involved in iron homeostasis. HFE and TfR2 interact in cells. By one model for serum iron sensing, at low or basal iron concentrations, HFE and TFR1 form a complex at the plasma membra
Probab=98.80 E-value=8.6e-09 Score=95.41 Aligned_cols=108 Identities=22% Similarity=0.230 Sum_probs=71.5
Q ss_pred ccccCCCCCCCCceEEEEecCCcCCCCCCCCC--CcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCCcc
Q 013394 37 EANFAPAIRGSGDCGVLYVAEPLDACSNLTSK--VEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDDGV 114 (444)
Q Consensus 37 ~A~Fg~~~~~~~~~G~L~~~~p~~aC~~l~~~--~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~~~ 114 (444)
+..|.+..+...++|.|+.+. .| ...+.. ....-+++++||||+||+|+|.+|+++|+++||+|||||++..+..
T Consensus 17 ~~~f~~~s~~G~v~g~lVyvn--~G-~~~Df~~L~~~gv~v~GkIvLvr~G~~~~~~Kv~~A~~~GA~gvIiy~Dp~d~~ 93 (183)
T cd02128 17 PGGYVAYSAAGTVTGKLVYAN--YG-RKKDFEDLQSVGVSVNGSVVLVRAGKISFAEKVANAEKLGAVGVLIYPDPADFP 93 (183)
T ss_pred cccccCCCCCCceEEEEEEcC--CC-CHHHHHHHHhcCCCCCCeEEEEECCCCCHHHHHHHHHHCCCEEEEEecCHHHcC
Confidence 345665555566899998873 22 222111 1112356899999999999999999999999999999998742210
Q ss_pred e-------e----eecCC-----------------C--CCceEEEEEEeccccchhhhhcCcc
Q 013394 115 L-------V----AMAGN-----------------S--AGIKIHAVFVSKASGEKLKQYAGST 147 (444)
Q Consensus 115 ~-------~----~~~g~-----------------~--~~i~Ip~v~Is~~~G~~L~~~l~~~ 147 (444)
. . ...|+ . .--.||+.-|+..+++.|++.++..
T Consensus 94 ~~~~~~~~~g~~~~~~GDplTPG~ps~~~~~~~~~~~~~lP~IPs~PIS~~da~~lL~~l~G~ 156 (183)
T cd02128 94 IDPSETALFGHVHLGTGDPYTPGFPSFNHTQFPPSQSSGLPNIPAQTISAAAAAKLLSKMGGP 156 (183)
T ss_pred cccCcceeecceeccCCCcCCCCCccccccccCcccccCCCCCCEeccCHHHHHHHHHHcCCC
Confidence 0 0 00110 0 1235899999999998888876543
No 36
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.75 E-value=4.8e-09 Score=84.52 Aligned_cols=50 Identities=30% Similarity=0.822 Sum_probs=38.4
Q ss_pred Ccccccccccccc--------Cce--eEEeccCCeecHhHHHHHHhcC--CCCCCccccCCc
Q 013394 229 SRTCAICLEDYSV--------GEK--LRILPCRHKFHAFCVDSWLTSW--RTFCPVCKRDAR 278 (444)
Q Consensus 229 ~~~C~ICle~~~~--------~~~--~~~lpC~H~FH~~Ci~~Wl~~~--~~~CP~CR~~i~ 278 (444)
++.|.||+..|.. +|. +..-.|+|.||..||.+||.++ +..||+||++..
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 5789999998873 332 2333499999999999999863 456999998754
No 37
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.70 E-value=1e-08 Score=73.09 Aligned_cols=44 Identities=32% Similarity=0.815 Sum_probs=38.0
Q ss_pred cccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCcccc
Q 013394 231 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR 275 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~ 275 (444)
.|.||++.|...+..++++|+|+|+..|++.+. .....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence 499999999666788999999999999999998 33456999985
No 38
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=9.8e-09 Score=92.91 Aligned_cols=51 Identities=25% Similarity=0.597 Sum_probs=41.7
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
....|+|||+.+++... .-..|||+||..||+.-+...+. ||+||+.|...
T Consensus 130 ~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~~~~-CP~C~kkIt~k 180 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKNTNK-CPTCRKKITHK 180 (187)
T ss_pred cccCCCceecchhhccc-cccccchhHHHHHHHHHHHhCCC-CCCcccccchh
Confidence 35899999999877522 23679999999999999998776 99999887643
No 39
>PHA02926 zinc finger-like protein; Provisional
Probab=98.66 E-value=1.2e-08 Score=95.60 Aligned_cols=52 Identities=29% Similarity=0.758 Sum_probs=39.1
Q ss_pred CCccccccccccccC-----ceeEEe-ccCCeecHhHHHHHHhcCC-----CCCCccccCCcC
Q 013394 228 TSRTCAICLEDYSVG-----EKLRIL-PCRHKFHAFCVDSWLTSWR-----TFCPVCKRDART 279 (444)
Q Consensus 228 ~~~~C~ICle~~~~~-----~~~~~l-pC~H~FH~~Ci~~Wl~~~~-----~~CP~CR~~i~~ 279 (444)
.+.+|.||+|..-.+ ....+| +|+|.||..||+.|...++ ..||+||..+..
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 458999999986432 233455 4999999999999998632 349999987653
No 40
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.66 E-value=1.6e-08 Score=71.49 Aligned_cols=39 Identities=33% Similarity=0.784 Sum_probs=31.0
Q ss_pred ccccccccccCceeEEeccCCeecHhHHHHHHhcCCC---CCCcc
Q 013394 232 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRT---FCPVC 273 (444)
Q Consensus 232 C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~---~CP~C 273 (444)
|+||++.|+++ ..|+|||.|+..||..|.+..+. .||.|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999887 78999999999999999987533 49987
No 41
>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=98.65 E-value=1.4e-08 Score=70.95 Aligned_cols=40 Identities=43% Similarity=1.035 Sum_probs=34.4
Q ss_pred ccccccccccCceeEEeccCCeecHhHHHHHHh-cCCCCCCcc
Q 013394 232 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLT-SWRTFCPVC 273 (444)
Q Consensus 232 C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~-~~~~~CP~C 273 (444)
|+||++.+... .+.++|+|.||..||++|++ .....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998776 36899999999999999999 445569998
No 42
>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=98.61 E-value=2.7e-08 Score=67.33 Aligned_cols=39 Identities=44% Similarity=1.088 Sum_probs=33.1
Q ss_pred ccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCcc
Q 013394 232 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVC 273 (444)
Q Consensus 232 C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~C 273 (444)
|+||++. .+....++|+|.||..|++.|++..+..||+|
T Consensus 1 C~iC~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 8899988 34568899999999999999998545569987
No 43
>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=98.55 E-value=7.5e-08 Score=73.47 Aligned_cols=46 Identities=26% Similarity=0.392 Sum_probs=40.0
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART 279 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~ 279 (444)
..|+||++.|+++ .+++|||+|+..||.+|++.+ ..||+|+.++..
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~-~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSH-GTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHC-CCCCCCcCCCCh
Confidence 5799999999886 678999999999999999984 459999988754
No 44
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.39 E-value=1.9e-07 Score=73.45 Aligned_cols=50 Identities=26% Similarity=0.670 Sum_probs=36.6
Q ss_pred ccccccccccccCceeEEe--ccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 230 RTCAICLEDYSVGEKLRIL--PCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~l--pC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
+.|+-|...+..+++..+. -|+|.||..||.+||.++. .||+||++..-+
T Consensus 32 ~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~-~CPld~q~w~~~ 83 (88)
T COG5194 32 GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKG-VCPLDRQTWVLA 83 (88)
T ss_pred CcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCC-CCCCCCceeEEe
Confidence 4555555555566655443 2999999999999999944 599999976443
No 45
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.37 E-value=2.7e-07 Score=65.46 Aligned_cols=39 Identities=38% Similarity=0.780 Sum_probs=23.2
Q ss_pred ccccccccccCc-eeEEeccCCeecHhHHHHHHhcC---CCCCC
Q 013394 232 CAICLEDYSVGE-KLRILPCRHKFHAFCVDSWLTSW---RTFCP 271 (444)
Q Consensus 232 C~ICle~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~---~~~CP 271 (444)
|+||+| |...+ ...+|+|||+|+.+||++|+... ...||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 86644 55889999999999999999864 33476
No 46
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.35 E-value=2.4e-07 Score=95.31 Aligned_cols=49 Identities=31% Similarity=0.756 Sum_probs=41.8
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
....|.||++.|... .+++|+|.||..||..|+.... .||+||..+...
T Consensus 25 ~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~-~CP~Cr~~~~~~ 73 (397)
T TIGR00599 25 TSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQP-KCPLCRAEDQES 73 (397)
T ss_pred cccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCC-CCCCCCCccccc
Confidence 358999999999776 5789999999999999998854 599999987654
No 47
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=1.4e-07 Score=90.40 Aligned_cols=55 Identities=29% Similarity=0.725 Sum_probs=43.7
Q ss_pred CCCccccccccccccCc-------eeEEeccCCeecHhHHHHHHhc-CCCCCCccccCCcCCC
Q 013394 227 CTSRTCAICLEDYSVGE-------KLRILPCRHKFHAFCVDSWLTS-WRTFCPVCKRDARTST 281 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~-------~~~~lpC~H~FH~~Ci~~Wl~~-~~~~CP~CR~~i~~~~ 281 (444)
.++..|+||-..+.... +.-+|.|+|+||+.||+.|-.. ++.+||.||+.+.-+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 35689999998886544 6678999999999999999654 3445999998876543
No 48
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=6.7e-07 Score=91.94 Aligned_cols=52 Identities=27% Similarity=0.844 Sum_probs=40.6
Q ss_pred CCccccccccccccC---c-----------eeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcC
Q 013394 228 TSRTCAICLEDYSVG---E-----------KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART 279 (444)
Q Consensus 228 ~~~~C~ICle~~~~~---~-----------~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~ 279 (444)
...+|+||+.....- . .-..+||.|+||..|+.+|+...+-.||+||.++++
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 347899999876431 1 123569999999999999999766569999998864
No 49
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=2.9e-07 Score=88.34 Aligned_cols=51 Identities=29% Similarity=0.687 Sum_probs=43.0
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHH-HHhcCCCCCCccccCCcCCCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDS-WLTSWRTFCPVCKRDARTSTG 282 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~-Wl~~~~~~CP~CR~~i~~~~~ 282 (444)
+..|+||+|..... ..++|||+||..||-. |-.++-..||+||+.+.+.+.
T Consensus 215 d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 215 DYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 68999999986665 7889999999999999 877755569999998876543
No 50
>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=98.23 E-value=8.5e-07 Score=64.75 Aligned_cols=43 Identities=28% Similarity=0.762 Sum_probs=33.7
Q ss_pred cccccccccccCceeEEeccC-----CeecHhHHHHHHhcC-CCCCCccc
Q 013394 231 TCAICLEDYSVGEKLRILPCR-----HKFHAFCVDSWLTSW-RTFCPVCK 274 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lpC~-----H~FH~~Ci~~Wl~~~-~~~CP~CR 274 (444)
.|.||++ +..++...++||. |.+|..|+++|+... +..||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 4444555689985 889999999999764 44699995
No 51
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=3.8e-07 Score=71.22 Aligned_cols=50 Identities=32% Similarity=0.831 Sum_probs=36.9
Q ss_pred Ccccccccccccc--------CceeE-Eec-cCCeecHhHHHHHHhcC--CCCCCccccCCc
Q 013394 229 SRTCAICLEDYSV--------GEKLR-ILP-CRHKFHAFCVDSWLTSW--RTFCPVCKRDAR 278 (444)
Q Consensus 229 ~~~C~ICle~~~~--------~~~~~-~lp-C~H~FH~~Ci~~Wl~~~--~~~CP~CR~~i~ 278 (444)
+++|-||+-.|.. +|..- ++- |.|.||..||.+|+... +..||+||++..
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 4689999888864 33322 222 99999999999999753 455999998753
No 52
>cd02121 PA_GCPII_like PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to the peptidase M28 family. GCPII is also known N-acetylated-alpha-linked acidic dipeptidase (NAALDase1), folate hydrolase or prostate-specific membrane antigen (PSMA). GCPII is found in various human tissues including prostate, small intestine, and the central nervous system. In the brain, GCPII is known as NAALDase1, it functions as a NAALDase hydrolyzing the neuropeptide N-acetyl-L-aspartyl-L-glutamate (alpha-NAAG), to release free glutamate. In the small intestine, GCPII releases the terminal glutamate from poly-gamma-glutamated folates. GCPII (PSMA) is a useful cancer marker; its expression is markedly increased in prostate cancer and in tumor-associated neovasculature. GCPIII hydrolyzes alpha-NAAG with a lower
Probab=98.13 E-value=4.4e-06 Score=79.87 Aligned_cols=61 Identities=25% Similarity=0.192 Sum_probs=46.4
Q ss_pred CCceEEEEecCCcCCCCCCCCC--CcccCCCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccC
Q 013394 47 SGDCGVLYVAEPLDACSNLTSK--VEKVSNMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNE 110 (444)
Q Consensus 47 ~~~~G~L~~~~p~~aC~~l~~~--~~~~~~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~ 110 (444)
..++|.|+.+. .|...+.. ....-+++++|||+++|.|.+.+|+++|+++||+|||||++.
T Consensus 43 g~v~g~lVyvn---yG~~~D~~~L~~~gvdv~GKIvLvr~G~~~~~~Kv~~A~~~GA~gVIiy~Dp 105 (220)
T cd02121 43 GNVTAELVYAN---YGSPEDFEYLEDLGIDVKGKIVIARYGGIFRGLKVKNAQLAGAVGVIIYSDP 105 (220)
T ss_pred CCceEEEEEcC---CCcHHHHHHHhhcCCCCCCeEEEEECCCccHHHHHHHHHHcCCEEEEEEeCc
Confidence 44788888764 34332221 112346789999999999999999999999999999999864
No 53
>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=98.12 E-value=1.2e-06 Score=69.33 Aligned_cols=49 Identities=22% Similarity=0.320 Sum_probs=38.6
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
...|+||.+-|.++ .++||||.|...||+.||.++...||+|++++...
T Consensus 4 ~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 4 EFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred ccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 47899999999887 78999999999999999999666699999887654
No 54
>cd04822 PA_M28_1_3 PA_M28_1_3: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 3. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.12 E-value=9.7e-06 Score=73.12 Aligned_cols=63 Identities=17% Similarity=0.168 Sum_probs=49.3
Q ss_pred CCceEEEEecC---CcCCCCCCCCCCcccCCCcceEEEEecCC------------------CCHHHHHHHHHHcCCeEEE
Q 013394 47 SGDCGVLYVAE---PLDACSNLTSKVEKVSNMSSAFVLTIRGG------------------CSFEDKVRNAQKAGFEAAI 105 (444)
Q Consensus 47 ~~~~G~L~~~~---p~~aC~~l~~~~~~~~~~~~~ivLV~RG~------------------CsF~~Kv~~Aq~aGA~avI 105 (444)
..++|.||.+. ...+|...++.. -++++|||||.||+ |+|..|+++|+++||+|||
T Consensus 18 g~vtg~lVfvGyGi~~~~~~~~Dy~g---iDVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~aVI 94 (151)
T cd04822 18 GAVTAPVVFAGYGITAPELGYDDYAG---LDVKGKIVLVLRHEPQEDDANSRFNGPGLTRHAGLRYKATNARRHGAAAVI 94 (151)
T ss_pred CCceEeEEEecCCcCccccchhhccC---CCCCCeEEEEEcCCcccccccccccccccccccCHHHHHHHHHHCCCeEEE
Confidence 34788887764 345776554432 35679999999884 9999999999999999999
Q ss_pred EeccCCC
Q 013394 106 VYDNEDD 112 (444)
Q Consensus 106 I~n~~~~ 112 (444)
||++...
T Consensus 95 v~~d~~~ 101 (151)
T cd04822 95 VVNGPNS 101 (151)
T ss_pred EEeCCcc
Confidence 9997654
No 55
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.10 E-value=8.3e-07 Score=96.93 Aligned_cols=50 Identities=36% Similarity=0.909 Sum_probs=39.2
Q ss_pred CCCccccccccccccCceeEEec------cCCeecHhHHHHHHhc-CCCCCCccccCCc
Q 013394 227 CTSRTCAICLEDYSVGEKLRILP------CRHKFHAFCVDSWLTS-WRTFCPVCKRDAR 278 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~~~~~lp------C~H~FH~~Ci~~Wl~~-~~~~CP~CR~~i~ 278 (444)
.+..+|+||......-| |.|| |+|.||..|+.+|+.. .+.+||+||.+++
T Consensus 1467 sG~eECaICYsvL~~vd--r~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHh--ccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 34689999998876332 3343 8999999999999987 4567999998775
No 56
>cd04820 PA_M28_1_1 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=98.10 E-value=1.1e-05 Score=71.48 Aligned_cols=63 Identities=17% Similarity=0.140 Sum_probs=48.9
Q ss_pred CCceEEEEecC---CcCCCCCCCCCCcccCCCcceEEEEecCCCC------------HHHHHHHHHHcCCeEEEEeccCC
Q 013394 47 SGDCGVLYVAE---PLDACSNLTSKVEKVSNMSSAFVLTIRGGCS------------FEDKVRNAQKAGFEAAIVYDNED 111 (444)
Q Consensus 47 ~~~~G~L~~~~---p~~aC~~l~~~~~~~~~~~~~ivLV~RG~Cs------------F~~Kv~~Aq~aGA~avII~n~~~ 111 (444)
..++|.|+.+. ..++|.-.+.. .-+++||||||++|.|. +.+|+++|+++||+|||||++..
T Consensus 20 g~v~gelVfvGyG~~~~~~~~~Dy~---~iDVkGKIVlv~~g~p~~~~~~~~~~~~~~~~K~~~A~~~GA~aVIi~~d~~ 96 (137)
T cd04820 20 ASVEAPLVFVGYGLVAPELGHDDYA---GLDVKGKIVVVLSGGPAGIPSEEGAHAHSSNEKARYAAKAGAIGMITLTTPR 96 (137)
T ss_pred CCceEeEEEecCCcCccCcCHhhcc---CCCCCCeEEEEEcCCCCccccccccccccHHHHHHHHHHCCCeEEEEEeCCc
Confidence 45788887763 34567654432 23668999999999995 88999999999999999999755
Q ss_pred C
Q 013394 112 D 112 (444)
Q Consensus 112 ~ 112 (444)
.
T Consensus 97 ~ 97 (137)
T cd04820 97 S 97 (137)
T ss_pred c
Confidence 4
No 57
>cd04814 PA_M28_1 PA_M28_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subfamilies, relatively little is known a
Probab=98.08 E-value=1.1e-05 Score=72.00 Aligned_cols=62 Identities=11% Similarity=0.035 Sum_probs=47.9
Q ss_pred CceEEEEecC---CcCCCCCCCCCCcccCCCcceEEEEecCCC------------------CHHHHHHHHHHcCCeEEEE
Q 013394 48 GDCGVLYVAE---PLDACSNLTSKVEKVSNMSSAFVLTIRGGC------------------SFEDKVRNAQKAGFEAAIV 106 (444)
Q Consensus 48 ~~~G~L~~~~---p~~aC~~l~~~~~~~~~~~~~ivLV~RG~C------------------sF~~Kv~~Aq~aGA~avII 106 (444)
.+.|.||.+. ...+|.-.++.. -+++||||||.||+| +|..|+++|+++||+||||
T Consensus 19 ~~~aelVfvGyGi~a~~~~~dDYag---~DVkGKIVlv~~g~P~~~~~~~~~~~~~~~~~~~~~~K~~~A~~~GA~gvIi 95 (142)
T cd04814 19 IKDAPLVFVGYGIKAPELSWDDYAG---LDVKGKVVVVLRNDPQGEPGAGDFGGKAMTYYGRWTYKYEEAARHGAAGVLI 95 (142)
T ss_pred ccceeeEEecCCcCCCCCChhhcCC---CCCCCcEEEEEcCCCCcccccccccccccccccCHHHHHHHHHHCCCcEEEE
Confidence 3577776653 234666544432 356799999999999 7999999999999999999
Q ss_pred eccCCC
Q 013394 107 YDNEDD 112 (444)
Q Consensus 107 ~n~~~~ 112 (444)
+++.+.
T Consensus 96 i~~~~~ 101 (142)
T cd04814 96 VHELAP 101 (142)
T ss_pred EeCCCc
Confidence 998654
No 58
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.04 E-value=2.2e-06 Score=89.11 Aligned_cols=54 Identities=28% Similarity=0.507 Sum_probs=41.1
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcC----CCCCCccccCCcCCCCCCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW----RTFCPVCKRDARTSTGEPP 285 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~----~~~CP~CR~~i~~~~~~~~ 285 (444)
+..|+|||+....+ ..+.|||+||..||-+.+... -..||+||..|....-.+.
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv 243 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPV 243 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeee
Confidence 68999999987766 344499999999998876542 2249999999887544443
No 59
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.01 E-value=2.4e-06 Score=87.33 Aligned_cols=48 Identities=31% Similarity=0.794 Sum_probs=38.9
Q ss_pred CCccccccccccccCc-eeEEeccCCeecHhHHHHHHhcCCCCCCccccCCc
Q 013394 228 TSRTCAICLEDYSVGE-KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR 278 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~ 278 (444)
+-.+|+||||.|.... .++...|.|.||..|+.+|- ..+||+||.-..
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~---~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW---DSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhcc---cCcChhhhhhcC
Confidence 3579999999997753 45666799999999999994 446999998554
No 60
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.98 E-value=5.4e-06 Score=82.31 Aligned_cols=53 Identities=25% Similarity=0.478 Sum_probs=40.1
Q ss_pred Ccccccccccc-ccCc-eeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCC
Q 013394 229 SRTCAICLEDY-SVGE-KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST 281 (444)
Q Consensus 229 ~~~C~ICle~~-~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~ 281 (444)
+..|+||..+- -.++ ++.+-+|||.||..||+..+......||.|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 47899999963 3332 33334799999999999977665667999998887665
No 61
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=5.1e-06 Score=83.16 Aligned_cols=52 Identities=27% Similarity=0.651 Sum_probs=41.5
Q ss_pred CCCccccccccccccCceeEEeccCCe-ecHhHHHHHHhcCCCCCCccccCCcCCCC
Q 013394 227 CTSRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDARTSTG 282 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~ 282 (444)
.+..+|.||+.+-+ ...+|||.|. .|..|-+.---+++. ||+||++|.....
T Consensus 288 ~~gkeCVIClse~r---dt~vLPCRHLCLCs~Ca~~Lr~q~n~-CPICRqpi~~ll~ 340 (349)
T KOG4265|consen 288 ESGKECVICLSESR---DTVVLPCRHLCLCSGCAKSLRYQTNN-CPICRQPIEELLE 340 (349)
T ss_pred cCCCeeEEEecCCc---ceEEecchhhehhHhHHHHHHHhhcC-CCccccchHhhhe
Confidence 34689999998744 4689999999 999999887666554 9999999876443
No 62
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.85 E-value=3.5e-06 Score=66.22 Aligned_cols=50 Identities=28% Similarity=0.685 Sum_probs=23.6
Q ss_pred CccccccccccccCceeEEe-----ccCCeecHhHHHHHHhcC---C-------CCCCccccCCc
Q 013394 229 SRTCAICLEDYSVGEKLRIL-----PCRHKFHAFCVDSWLTSW---R-------TFCPVCKRDAR 278 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~l-----pC~H~FH~~Ci~~Wl~~~---~-------~~CP~CR~~i~ 278 (444)
+.+|.||.+.+..++++-.+ .|++.||..|+.+||... + ..||.|+.+|.
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 36899999987633322111 389999999999999741 1 13999998875
No 63
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.78 E-value=8.6e-06 Score=79.18 Aligned_cols=43 Identities=37% Similarity=0.799 Sum_probs=38.6
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccc
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 274 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR 274 (444)
+...|+||++.|... +++||+|.||..||..|+. ....||.||
T Consensus 12 ~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr 54 (386)
T KOG2177|consen 12 EELTCPICLEYFREP---VLLPCGHNFCRACLTRSWE-GPLSCPVCR 54 (386)
T ss_pred ccccChhhHHHhhcC---ccccccchHhHHHHHHhcC-CCcCCcccC
Confidence 357999999999998 8999999999999999988 455699999
No 64
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.73 E-value=1.1e-05 Score=79.69 Aligned_cols=48 Identities=31% Similarity=0.832 Sum_probs=42.3
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST 281 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~ 281 (444)
..|-||.|-|..+ .++||+|.||.-||+..|.. ++.||.|+.++.+..
T Consensus 24 LRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 24 LRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESD 71 (442)
T ss_pred HHHhHHHHHhcCc---eeccccchHHHHHHHHHhcc-CCCCCceecccchhh
Confidence 6899999999987 78899999999999999998 455999999876654
No 65
>cd02131 PA_hNAALADL2_like PA_hNAALADL2_like: Protease-associated domain containing proteins like human N-acetylated alpha-linked acidic dipeptidase-like 2 protein (hNAALADL2). This group contains various PA domain-containing proteins similar to hNAALADL2. The function of hNAALADL2 is unknown. This gene has been mapped to a chromosomal region associated with Cornelia de Lange syndrome. The significance of the PA domain to hNAALADL2 has not been ascertained. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate.
Probab=97.72 E-value=4.2e-05 Score=68.50 Aligned_cols=39 Identities=23% Similarity=0.360 Sum_probs=35.8
Q ss_pred CCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccCCC
Q 013394 74 NMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNEDD 112 (444)
Q Consensus 74 ~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~~~ 112 (444)
++++||||++-|...+..|+++||++||.|||||.|..+
T Consensus 38 ~v~GkIvi~RyG~~~RG~Kv~~A~~~GA~GviIYsDP~d 76 (153)
T cd02131 38 NVTNQIALLKLGQAPLLYKLSLLEEAGFGGVLLYVDPCD 76 (153)
T ss_pred CccceEEEEeccCcchHHHHHHHHHCCCeEEEEecChhh
Confidence 568999999999999999999999999999999987544
No 66
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.71 E-value=1.6e-05 Score=77.06 Aligned_cols=47 Identities=32% Similarity=0.706 Sum_probs=40.3
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART 279 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~ 279 (444)
...|-||-+-|..+ .+++|||.||.-||...|..+ ..||+||.+..+
T Consensus 25 ~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~q-p~CP~Cr~~~~e 71 (391)
T COG5432 25 MLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQ-PFCPVCREDPCE 71 (391)
T ss_pred HHHhhhhhheeecc---eecccccchhHHHHHHHhcCC-CCCccccccHHh
Confidence 36899999998887 788899999999999999984 559999986543
No 67
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=2e-05 Score=65.29 Aligned_cols=28 Identities=32% Similarity=0.948 Sum_probs=24.7
Q ss_pred cCCeecHhHHHHHHhcCCCCCCccccCCc
Q 013394 250 CRHKFHAFCVDSWLTSWRTFCPVCKRDAR 278 (444)
Q Consensus 250 C~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~ 278 (444)
|.|.||..||.+||++++. ||+|.++-.
T Consensus 81 CNHaFH~hCisrWlktr~v-CPLdn~eW~ 108 (114)
T KOG2930|consen 81 CNHAFHFHCISRWLKTRNV-CPLDNKEWV 108 (114)
T ss_pred cchHHHHHHHHHHHhhcCc-CCCcCccee
Confidence 9999999999999999665 999987643
No 68
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=1.6e-05 Score=77.81 Aligned_cols=53 Identities=23% Similarity=0.466 Sum_probs=43.8
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEP 284 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~~ 284 (444)
..+|+||+....-+ ..|+|+|.||.-||+.-....+.+|++||.+|...-...
T Consensus 7 ~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~ 59 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFE 59 (324)
T ss_pred CCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcchhcc
Confidence 47899999987665 778999999999999877776667999999997765443
No 69
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.60 E-value=2.4e-05 Score=76.30 Aligned_cols=55 Identities=25% Similarity=0.700 Sum_probs=44.7
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHh------------------c----CCCCCCccccCCcCCCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLT------------------S----WRTFCPVCKRDARTSTG 282 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~------------------~----~~~~CP~CR~~i~~~~~ 282 (444)
...+|+|||..|..++.+.+++|-|.||..|+-..|. . .+..||+||..|.....
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~ 190 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN 190 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence 3579999999999999999999999999999876543 1 12359999998865543
No 70
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.60 E-value=2.4e-05 Score=78.76 Aligned_cols=47 Identities=28% Similarity=0.769 Sum_probs=35.5
Q ss_pred ccccccccccccCceeEEec-cCCeecHhHHHHHHhcCC--CCCCccccC
Q 013394 230 RTCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWR--TFCPVCKRD 276 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~--~~CP~CR~~ 276 (444)
-.|.||.+-+-..+++.-.. |||+||..|+.+|++.-. ..||.||-.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik 54 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIK 54 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeec
Confidence 57999955554555666565 999999999999998632 259999833
No 71
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=7.2e-05 Score=75.83 Aligned_cols=51 Identities=29% Similarity=0.839 Sum_probs=38.8
Q ss_pred CCccccccccccccCc----eeEEec-cCCeecHhHHHHHHhcCC------CCCCccccCCc
Q 013394 228 TSRTCAICLEDYSVGE----KLRILP-CRHKFHAFCVDSWLTSWR------TFCPVCKRDAR 278 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~----~~~~lp-C~H~FH~~Ci~~Wl~~~~------~~CP~CR~~i~ 278 (444)
.+.+|.||+|...+.- ...+|| |.|.||..||+.|-...+ ..||.||....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 3589999999865542 235566 999999999999984433 45999998654
No 72
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=4.1e-05 Score=56.20 Aligned_cols=48 Identities=23% Similarity=0.528 Sum_probs=34.3
Q ss_pred CccccccccccccCceeEEeccCCe-ecHhHHHHHHhcCCCCCCccccCCcC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDART 279 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~~CP~CR~~i~~ 279 (444)
+++|.||+|.-.+. ....|||. .|.+|-.+-++..+..||+||++|.+
T Consensus 7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 48999999874442 34459999 78888655444345569999998754
No 73
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.27 E-value=5.7e-05 Score=75.40 Aligned_cols=51 Identities=25% Similarity=0.512 Sum_probs=41.3
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST 281 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~ 281 (444)
+..|.|||+-++.. +....|.|.||.+||..-+......||.||+.+....
T Consensus 43 ~v~c~icl~llk~t--mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 43 QVICPICLSLLKKT--MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR 93 (381)
T ss_pred hhccHHHHHHHHhh--cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence 57999999987664 2333499999999999999987777999999775444
No 74
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.25 E-value=6.3e-05 Score=81.34 Aligned_cols=48 Identities=27% Similarity=0.475 Sum_probs=41.7
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
...|++|+..+.++...-.-+|+|.||..||+.|-..-++ ||+||..+
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqT-CPiDR~EF 170 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQT-CPVDRGEF 170 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhccc-Cchhhhhh
Confidence 4689999999988876667779999999999999988776 99999854
No 75
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.25 E-value=7.1e-05 Score=57.14 Aligned_cols=47 Identities=28% Similarity=0.619 Sum_probs=24.7
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST 281 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~ 281 (444)
..|.+|.+-++++ +..-.|.|+|+..||..-+.. .||+|+.+...++
T Consensus 8 LrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--SS---B---SSS--B-TTTGGGGTTT---B-SSS--B-S-SS
T ss_pred cCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcCC---CCCCcCChHHHHH
Confidence 6799999998776 455569999999999886654 3999998876554
No 76
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.21 E-value=0.00021 Score=72.51 Aligned_cols=48 Identities=33% Similarity=0.930 Sum_probs=37.8
Q ss_pred CccccccccccccC--ceeEEeccCCeecHhHHHHHHhcC-CCCCCccccC
Q 013394 229 SRTCAICLEDYSVG--EKLRILPCRHKFHAFCVDSWLTSW-RTFCPVCKRD 276 (444)
Q Consensus 229 ~~~C~ICle~~~~~--~~~~~lpC~H~FH~~Ci~~Wl~~~-~~~CP~CR~~ 276 (444)
..+|+|||+.+... ..+..+.|+|.|-..||++||.+. ...||.|..+
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 47899999999764 355666699999999999999632 2359999653
No 77
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.90 E-value=0.0003 Score=71.11 Aligned_cols=50 Identities=28% Similarity=0.747 Sum_probs=39.7
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcC-CCCCCccccCCcCCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-RTFCPVCKRDARTST 281 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~-~~~CP~CR~~i~~~~ 281 (444)
-..|-||-|. ++.+++=||||..|..|+..|-... ...||.||.+|..-.
T Consensus 369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 3679999886 4557888999999999999998552 334999999875443
No 78
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.90 E-value=0.00055 Score=78.03 Aligned_cols=69 Identities=23% Similarity=0.475 Sum_probs=49.0
Q ss_pred HhhcccceeeccccccCCCccccccccccccCceeEEeccCCeecHhHHHHHHhcC-C--------CCCCccccCCcC
Q 013394 211 VKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-R--------TFCPVCKRDART 279 (444)
Q Consensus 211 ~~~lp~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~-~--------~~CP~CR~~i~~ 279 (444)
.+.||-+.-.+.......++.|.||..+--.....+.|.|+|+||..|.+.-|++. . ..||+|+.+|..
T Consensus 3468 E~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3468 EHCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hhcccccccChhhhhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 34566554333332333478999999876666678899999999999999877752 1 149999998754
No 79
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.00034 Score=62.71 Aligned_cols=28 Identities=39% Similarity=0.905 Sum_probs=26.7
Q ss_pred CccccccccccccCceeEEeccCCeecH
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHA 256 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~ 256 (444)
..+|.||||+++.+|++..|||-++||+
T Consensus 177 kGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 177 KGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred CCcEEEEhhhccCCCceeccceEEEeec
Confidence 5799999999999999999999999996
No 80
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00025 Score=77.37 Aligned_cols=48 Identities=23% Similarity=0.549 Sum_probs=39.1
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
..|++|-..+++ +.+..|+|+||..||..-+...+..||.|-..+...
T Consensus 644 LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 644 LKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN 691 (698)
T ss_pred eeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence 689999977655 355669999999999999988777799998766543
No 81
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.87 E-value=0.00053 Score=51.67 Aligned_cols=42 Identities=24% Similarity=0.498 Sum_probs=29.3
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhc-CCCCCCc
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS-WRTFCPV 272 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-~~~~CP~ 272 (444)
...|+|.+..|+++ ++-..|+|+|-++.|.+||.+ ....||+
T Consensus 11 ~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 57899999998765 677789999999999999943 3445998
No 82
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.85 E-value=0.00051 Score=69.42 Aligned_cols=47 Identities=34% Similarity=0.798 Sum_probs=39.4
Q ss_pred CccccccccccccC-ceeEEeccCCeecHhHHHHHHhcCC-CCCCcccc
Q 013394 229 SRTCAICLEDYSVG-EKLRILPCRHKFHAFCVDSWLTSWR-TFCPVCKR 275 (444)
Q Consensus 229 ~~~C~ICle~~~~~-~~~~~lpC~H~FH~~Ci~~Wl~~~~-~~CP~CR~ 275 (444)
+.-|-.|-|.+... +.+..|||.|+||..|+...|+++- .+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 46899999998665 5788999999999999999998742 34999984
No 83
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.67 E-value=0.0012 Score=68.44 Aligned_cols=49 Identities=27% Similarity=0.626 Sum_probs=41.5
Q ss_pred CCCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcC
Q 013394 227 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART 279 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~ 279 (444)
..+.+|.||..-+... ..+||||.||..||++-+.+ .+.||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQ-ETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhcc-CCCCccccccccc
Confidence 4578999998887776 67799999999999997775 5569999998875
No 84
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.49 E-value=0.0023 Score=60.42 Aligned_cols=54 Identities=24% Similarity=0.577 Sum_probs=43.0
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCC-------CCCCccccCCcCCCCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWR-------TFCPVCKRDARTSTGE 283 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~-------~~CP~CR~~i~~~~~~ 283 (444)
...|..|--.+..+|.+| |-|-|+||.+|++.|-..-. -.||.|-.+|++....
T Consensus 50 ~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nl 110 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINL 110 (299)
T ss_pred CCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccc
Confidence 467999998888888766 55999999999999976521 1399999999876543
No 85
>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=96.43 E-value=0.0012 Score=58.01 Aligned_cols=35 Identities=20% Similarity=0.484 Sum_probs=30.8
Q ss_pred CccccccccccccCceeEEeccC------CeecHhHHHHHH
Q 013394 229 SRTCAICLEDYSVGEKLRILPCR------HKFHAFCVDSWL 263 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~------H~FH~~Ci~~Wl 263 (444)
..+|+||++.....+.+..++|+ |+||..|+++|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 37899999999886678888885 899999999994
No 86
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.20 E-value=0.0024 Score=66.43 Aligned_cols=54 Identities=26% Similarity=0.604 Sum_probs=43.3
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEP 284 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~~ 284 (444)
.+..|++|...+.++- ....|+|.||..|+..|+..++. ||.|+..+......+
T Consensus 20 ~~l~C~~C~~vl~~p~--~~~~cgh~fC~~C~~~~~~~~~~-cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPV--QTTTCGHRFCAGCLLESLSNHQK-CPVCRQELTQAEELP 73 (391)
T ss_pred ccccCccccccccCCC--CCCCCCCcccccccchhhccCcC-CcccccccchhhccC
Confidence 4589999999987762 22579999999999999999554 999998876655444
No 87
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.97 E-value=0.0063 Score=62.24 Aligned_cols=48 Identities=29% Similarity=0.579 Sum_probs=39.3
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhcC-------CCCCCcccc
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-------RTFCPVCKR 275 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~-------~~~CP~CR~ 275 (444)
.-..|.||.++..-.+.+..|||+|+||+.|+...+..+ .-.||-|+-
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 458999999998877899999999999999999998642 234876654
No 88
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=95.83 E-value=0.006 Score=44.08 Aligned_cols=41 Identities=37% Similarity=0.853 Sum_probs=27.6
Q ss_pred ccccccccccCceeEEeccC--C---eecHhHHHHHHhc-CCCCCCcc
Q 013394 232 CAICLEDYSVGEKLRILPCR--H---KFHAFCVDSWLTS-WRTFCPVC 273 (444)
Q Consensus 232 C~ICle~~~~~~~~~~lpC~--H---~FH~~Ci~~Wl~~-~~~~CP~C 273 (444)
|-||+++-...+ ..+.||+ - ..|..|+++|+.. .+..|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 779999876655 4567864 2 6899999999985 34459887
No 89
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.78 E-value=0.0042 Score=44.95 Aligned_cols=45 Identities=24% Similarity=0.630 Sum_probs=22.6
Q ss_pred ccccccccccCceeEEec--cCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 232 CAICLEDYSVGEKLRILP--CRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 232 C~ICle~~~~~~~~~~lp--C~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
|++|.+++...+ ...+| |++..+..|...-++.....||-||++.
T Consensus 1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984433 34455 7899999998888875566799999863
No 90
>PHA02862 5L protein; Provisional
Probab=95.77 E-value=0.0057 Score=54.11 Aligned_cols=47 Identities=26% Similarity=0.536 Sum_probs=34.9
Q ss_pred CccccccccccccCceeEEeccCC-----eecHhHHHHHHhc-CCCCCCccccCCcC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRH-----KFHAFCVDSWLTS-WRTFCPVCKRDART 279 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H-----~FH~~Ci~~Wl~~-~~~~CP~CR~~i~~ 279 (444)
++.|-||+++-. ++ .-||++ .-|.+|+.+|+.. ++..|++||.+..-
T Consensus 2 ~diCWIC~~~~~--e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCD--ER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCC--CC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 368999999842 22 467754 5899999999975 34569999987643
No 91
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.69 E-value=0.0062 Score=61.46 Aligned_cols=45 Identities=27% Similarity=0.635 Sum_probs=33.0
Q ss_pred CCCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCc
Q 013394 227 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR 278 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~ 278 (444)
...+.|.||+++... ...+||||+-| |..--. |...||+||+.|.
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~--~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSK--HLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccc---eeeecCCcEEE--chHHHh--hCCCCchhHHHHH
Confidence 346899999998665 58899999965 544332 2345999998764
No 92
>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=95.66 E-value=0.0052 Score=51.49 Aligned_cols=32 Identities=25% Similarity=0.685 Sum_probs=27.7
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHH
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVD 260 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~ 260 (444)
++..|++|-..+.. ....+.||||+||..|++
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 35789999999877 578899999999999975
No 93
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.54 E-value=0.0098 Score=53.60 Aligned_cols=49 Identities=20% Similarity=0.602 Sum_probs=36.2
Q ss_pred CCccccccccccccCceeEEeccCC-----eecHhHHHHHHhcC-CCCCCccccCCcCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRH-----KFHAFCVDSWLTSW-RTFCPVCKRDARTS 280 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H-----~FH~~Ci~~Wl~~~-~~~CP~CR~~i~~~ 280 (444)
.+..|-||.++-. + ..-||.+ ..|.+|++.|+... ...|+.|+.+....
T Consensus 7 ~~~~CRIC~~~~~--~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 7 MDKCCWICKDEYD--V--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCeeEecCCCCC--C--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 4589999998843 2 2357654 46999999999864 45699999876544
No 94
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.42 E-value=0.0058 Score=64.11 Aligned_cols=55 Identities=27% Similarity=0.602 Sum_probs=41.2
Q ss_pred cCCCccccccccccccCceeEEeccCCeecHhHHHHHHhc----CCCCCCccccCCcCCCCC
Q 013394 226 NCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS----WRTFCPVCKRDARTSTGE 283 (444)
Q Consensus 226 ~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~----~~~~CP~CR~~i~~~~~~ 283 (444)
+.+..+|-+|-+.- +...+..|.|.||.-||..+... .+.+||+|...+.-+...
T Consensus 533 nk~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse 591 (791)
T KOG1002|consen 533 NKGEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSE 591 (791)
T ss_pred ccCceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccc
Confidence 44567999999863 33477789999999999887653 456799998877655333
No 95
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.30 E-value=0.018 Score=56.17 Aligned_cols=50 Identities=20% Similarity=0.484 Sum_probs=38.4
Q ss_pred CCCccccccccccccCceeEEeccCCeecHhHHHHHHhcC-CCCCCccccCCc
Q 013394 227 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW-RTFCPVCKRDAR 278 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~-~~~CP~CR~~i~ 278 (444)
..+.+|++|-+.-..+ ....+|+|+||..||..-+... ..+||.|-.++.
T Consensus 237 t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3468999999986666 4566799999999999876642 245999976655
No 96
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.17 E-value=0.0015 Score=66.09 Aligned_cols=52 Identities=25% Similarity=0.601 Sum_probs=44.8
Q ss_pred CccccccccccccC-ceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCC
Q 013394 229 SRTCAICLEDYSVG-EKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST 281 (444)
Q Consensus 229 ~~~C~ICle~~~~~-~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~ 281 (444)
...|+||.+.++.. +++..+-|+|.+|..||.+||..... ||.||+++....
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~k-l~~~~rel~~~~ 248 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRK-LPSCRRELPKNG 248 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHH-hHHHHhhhhhhh
Confidence 46899999999887 77888889999999999999998554 999999876543
No 97
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.07 E-value=0.016 Score=56.95 Aligned_cols=43 Identities=28% Similarity=0.556 Sum_probs=35.5
Q ss_pred ccccccccccccCceeEEec-cCCeecHhHHHHHHhcCCCCCCcccc
Q 013394 230 RTCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCKR 275 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~~CP~CR~ 275 (444)
..|+.|..-.... ..+| |+|.||.+||..-|......||.|.+
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 7899998877666 3446 89999999999998877777999955
No 98
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.89 E-value=0.032 Score=53.52 Aligned_cols=55 Identities=13% Similarity=0.218 Sum_probs=45.8
Q ss_pred CCccccccccccccCceeEEec-cCCeecHhHHHHHHhcCCCCCCccccCCcCCCCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE 283 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~ 283 (444)
..+.|+||.+.+.+...+.+|. |||+|+.+|+++.+.. ...||+|-+++.+....
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdrdiI 275 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDRDII 275 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCcccceE
Confidence 3589999999999998888775 9999999999998876 44599998887665443
No 99
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.79 E-value=0.0098 Score=55.19 Aligned_cols=44 Identities=27% Similarity=0.602 Sum_probs=37.0
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 276 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~ 276 (444)
...|-||-++|+.+ .+..|||.||..|...-.+... .|-+|-+.
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~-~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGD-ECGVCGKA 239 (259)
T ss_pred ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCC-cceecchh
Confidence 47899999999887 6778999999999888777644 49999664
No 100
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.77 E-value=0.017 Score=57.63 Aligned_cols=48 Identities=35% Similarity=0.795 Sum_probs=41.7
Q ss_pred ccccccccccccCc---eeEEeccCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 230 RTCAICLEDYSVGE---KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 230 ~~C~ICle~~~~~~---~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
..|-||-++|+..+ ..|+|.|||.|+..|+.+-+......||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 67999999998874 3478889999999999998888777799999875
No 101
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.70 E-value=0.011 Score=56.79 Aligned_cols=49 Identities=27% Similarity=0.602 Sum_probs=37.3
Q ss_pred cccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCC
Q 013394 231 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE 283 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~ 283 (444)
.|.-|..--. ++...++.|.|+||..|...-... .||+||+.+......
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~~~---~C~lCkk~ir~i~l~ 53 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASSPD---VCPLCKKSIRIIQLN 53 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccCCcc---ccccccceeeeeecc
Confidence 4777765444 888999999999999997764332 599999987655543
No 102
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.64 E-value=0.026 Score=56.55 Aligned_cols=62 Identities=23% Similarity=0.512 Sum_probs=43.4
Q ss_pred HhhcccceeeccccccCCCccccccccccccCceeEEeccCCeecHhHHHHH--HhcCCCCCCccccC
Q 013394 211 VKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSW--LTSWRTFCPVCKRD 276 (444)
Q Consensus 211 ~~~lp~~~~~~~~~~~~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~W--l~~~~~~CP~CR~~ 276 (444)
+..-|.++....++.+.+...|.||-+...- ..++||+|..|.-|--.- |...+ .||+||.+
T Consensus 43 lsaEPnlttsSaddtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K-~C~~CrTE 106 (493)
T COG5236 43 LSAEPNLTTSSADDTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQK-GCPLCRTE 106 (493)
T ss_pred cccCCccccccccccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhcc-CCCccccc
Confidence 3445655555555555567899999887544 589999999999996442 44434 49999985
No 103
>cd04821 PA_M28_1_2 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=94.31 E-value=0.12 Score=47.07 Aligned_cols=39 Identities=15% Similarity=0.266 Sum_probs=31.3
Q ss_pred CCCcceEEEEecCCCCH-------------------HHHHHHHHHcCCeEEEEeccCC
Q 013394 73 SNMSSAFVLTIRGGCSF-------------------EDKVRNAQKAGFEAAIVYDNED 111 (444)
Q Consensus 73 ~~~~~~ivLV~RG~CsF-------------------~~Kv~~Aq~aGA~avII~n~~~ 111 (444)
-|++||||+|.+|+=.| ..|.+.|+++||+|||+.++..
T Consensus 46 ~DVkGKiVvvl~~~P~~~~~~~~~f~~~~~~~~~~~~~K~~~A~~~GA~gvi~v~~~~ 103 (157)
T cd04821 46 LDVKGKTVVILVNDPGFATPDSGLFNGKAMTYYGRWTYKYEEAARQGAAGALIVHETE 103 (157)
T ss_pred CCcCCcEEEEEcCCCCcccccccccCcccccccccHHHHHHHHHHCCCeEEEEEeCCC
Confidence 46789999998776533 3599999999999999997643
No 104
>PHA03096 p28-like protein; Provisional
Probab=94.25 E-value=0.02 Score=56.95 Aligned_cols=46 Identities=33% Similarity=0.732 Sum_probs=33.5
Q ss_pred ccccccccccccC----ceeEEec-cCCeecHhHHHHHHhcCC--CCCCcccc
Q 013394 230 RTCAICLEDYSVG----EKLRILP-CRHKFHAFCVDSWLTSWR--TFCPVCKR 275 (444)
Q Consensus 230 ~~C~ICle~~~~~----~~~~~lp-C~H~FH~~Ci~~Wl~~~~--~~CP~CR~ 275 (444)
..|.||+|..... .....|+ |.|.||..||..|-.... ..||.||.
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 6899999987653 2445777 999999999999986532 22555543
No 105
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.87 E-value=0.022 Score=56.06 Aligned_cols=46 Identities=22% Similarity=0.461 Sum_probs=38.6
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCc
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR 278 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~ 278 (444)
.+.|-||.+.|..+ ++..|+|.||..|-..-++.... |.+|-+++.
T Consensus 241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~-c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEK-CYVCSQQTH 286 (313)
T ss_pred Cccccccccccccc---hhhcCCceeehhhhccccccCCc-ceecccccc
Confidence 47899999999887 77789999999999888877554 999977553
No 106
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=93.82 E-value=0.015 Score=57.99 Aligned_cols=49 Identities=24% Similarity=0.557 Sum_probs=39.0
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
..+|.+|-.-|-+.. .+..|-|.||+.||.+.|+.. .+||+|...|...
T Consensus 15 ~itC~LC~GYliDAT--TI~eCLHTFCkSCivk~l~~~-~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 15 HITCRLCGGYLIDAT--TITECLHTFCKSCIVKYLEES-KYCPTCDIVIHKT 63 (331)
T ss_pred ceehhhccceeecch--hHHHHHHHHHHHHHHHHHHHh-ccCCccceeccCc
Confidence 578999988877663 344699999999999999994 4599998766443
No 107
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.80 E-value=0.038 Score=41.06 Aligned_cols=46 Identities=26% Similarity=0.494 Sum_probs=33.4
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTST 281 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~ 281 (444)
..|..|... +.+-.++||+|+.+..|.+.|-- + -||.|-+++...+
T Consensus 8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~rY--n-gCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPGERY--N-GCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEcccc---ccccccccccceeeccccChhhc--c-CCCCCCCcccCCC
Confidence 456666654 33448899999999999887633 2 4999988876544
No 108
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.53 E-value=0.066 Score=53.87 Aligned_cols=49 Identities=22% Similarity=0.493 Sum_probs=39.6
Q ss_pred CCCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcC
Q 013394 227 CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDART 279 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~ 279 (444)
.+++.|+||.-.--. ....||+|.=|..||.+-|...+. |=.|+..+.+
T Consensus 420 sEd~lCpICyA~pi~---Avf~PC~H~SC~~CI~qHlmN~k~-CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPIN---AVFAPCSHRSCYGCITQHLMNCKR-CFFCKTTVID 468 (489)
T ss_pred cccccCcceecccch---hhccCCCCchHHHHHHHHHhcCCe-eeEecceeee
Confidence 457899999865333 367799999999999999998555 9999987764
No 109
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.47 E-value=0.093 Score=51.63 Aligned_cols=55 Identities=18% Similarity=0.314 Sum_probs=41.8
Q ss_pred CCCccccccccccccCceeEEe-ccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCC
Q 013394 227 CTSRTCAICLEDYSVGEKLRIL-PCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE 283 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~ 283 (444)
.....|+|+..+|........| ||||+|-..+|++-- ....||+|-.++...+..
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEEDII 166 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCCEE
Confidence 4468999999999666555544 799999999999973 233599998887755433
No 110
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=93.23 E-value=0.043 Score=60.79 Aligned_cols=49 Identities=29% Similarity=0.632 Sum_probs=35.9
Q ss_pred CCCccccccccccccCcee-EEeccCCeecHhHHHHHHhcC------CCCCCcccc
Q 013394 227 CTSRTCAICLEDYSVGEKL-RILPCRHKFHAFCVDSWLTSW------RTFCPVCKR 275 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~~~-~~lpC~H~FH~~Ci~~Wl~~~------~~~CP~CR~ 275 (444)
....+|.||+|.+...+.+ -.-.|-|+||..||..|-.+. ...||-|+.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 3468999999998766533 222378999999999997641 135999973
No 111
>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=93.19 E-value=0.071 Score=54.61 Aligned_cols=29 Identities=28% Similarity=0.776 Sum_probs=23.1
Q ss_pred cCCeecHhHHHHHHhcCC------------CCCCccccCCc
Q 013394 250 CRHKFHAFCVDSWLTSWR------------TFCPVCKRDAR 278 (444)
Q Consensus 250 C~H~FH~~Ci~~Wl~~~~------------~~CP~CR~~i~ 278 (444)
|.-.+|.+|+-+|+..++ ..||+||+.+.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 677899999999997543 24999999754
No 112
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.87 E-value=0.058 Score=53.98 Aligned_cols=52 Identities=23% Similarity=0.632 Sum_probs=37.1
Q ss_pred CccccccccccccCce-eEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 229 SRTCAICLEDYSVGEK-LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~-~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
++.|+.|+|++...|+ ..--|||...|.-|...--+.-+..||-||+...+.
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 3569999999988764 445568877777775554444456799999976544
No 113
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.77 E-value=0.03 Score=55.04 Aligned_cols=42 Identities=29% Similarity=0.661 Sum_probs=31.9
Q ss_pred CccccccccccccCceeEEeccCCe-ecHhHHHHHHhcCCCCCCccccCCc
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDAR 278 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~~CP~CR~~i~ 278 (444)
...|+||++. +.....|+|||. =|.+|-... + .||+||+.|.
T Consensus 300 ~~LC~ICmDa---P~DCvfLeCGHmVtCt~CGkrm----~-eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFLECGHMVTCTKCGKRM----N-ECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcC---CcceEEeecCcEEeehhhcccc----c-cCchHHHHHH
Confidence 5789999986 455789999998 577785432 2 4999998664
No 114
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.50 E-value=0.033 Score=61.67 Aligned_cols=42 Identities=21% Similarity=0.657 Sum_probs=32.4
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
..|..|--.+..+ ..-.-|+|.||..|++ .+...||-|+-+.
T Consensus 841 skCs~C~~~LdlP--~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLP--FVHFLCGHSYHQHCLE----DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccc--eeeeecccHHHHHhhc----cCcccCCccchhh
Confidence 6899998776665 4555699999999998 3345699998744
No 115
>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=92.45 E-value=0.066 Score=37.92 Aligned_cols=42 Identities=24% Similarity=0.634 Sum_probs=24.1
Q ss_pred ccccccccccCceeEEeccCCeecHhHHHHHHhcCCC-CCCcc
Q 013394 232 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRT-FCPVC 273 (444)
Q Consensus 232 C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~-~CP~C 273 (444)
|.+|.+-...|.....-.|+=.+|..|++.++...+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 6788888777744333348889999999999987553 49987
No 116
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.88 E-value=0.082 Score=48.42 Aligned_cols=49 Identities=27% Similarity=0.716 Sum_probs=34.1
Q ss_pred ccccccccccccC----ceeEEeccCCeecHhHHHHHHhc----CCC------CCCccccCCc
Q 013394 230 RTCAICLEDYSVG----EKLRILPCRHKFHAFCVDSWLTS----WRT------FCPVCKRDAR 278 (444)
Q Consensus 230 ~~C~ICle~~~~~----~~~~~lpC~H~FH~~Ci~~Wl~~----~~~------~CP~CR~~i~ 278 (444)
..|-||+.---.| ..+.-..|+.-||.-|+..||.. .+. .||.|-.+|.
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 6788987533222 23344569999999999999863 221 3999988764
No 117
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=91.45 E-value=0.31 Score=48.82 Aligned_cols=47 Identities=21% Similarity=0.431 Sum_probs=35.1
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
+...|+||+..-.++. ...--|-+||..||-..+.+++. ||+=-.++
T Consensus 299 ~~~~CpvClk~r~Npt--vl~vSGyVfCY~Ci~~Yv~~~~~-CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPT--VLEVSGYVFCYPCIFSYVVNYGH-CPVTGYPA 345 (357)
T ss_pred ccccChhHHhccCCCc--eEEecceEEeHHHHHHHHHhcCC-CCccCCcc
Confidence 3579999998865552 22225999999999999998766 99865543
No 118
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=90.93 E-value=0.098 Score=51.64 Aligned_cols=46 Identities=26% Similarity=0.639 Sum_probs=38.8
Q ss_pred CccccccccccccCc-eeEEeccCCeecHhHHHHHHhcCCCCCCcccc
Q 013394 229 SRTCAICLEDYSVGE-KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR 275 (444)
Q Consensus 229 ~~~C~ICle~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~ 275 (444)
...|+||.|.+.... .+..++|+|.-|..|.+.....+ -+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence 345999999887764 56789999999999999988887 66999987
No 119
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.60 E-value=0.12 Score=49.30 Aligned_cols=40 Identities=38% Similarity=0.953 Sum_probs=29.9
Q ss_pred cccccccccccCceeEEeccCCe-ecHhHHHHHHhcCCCCCCccccCCc
Q 013394 231 TCAICLEDYSVGEKLRILPCRHK-FHAFCVDSWLTSWRTFCPVCKRDAR 278 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lpC~H~-FH~~Ci~~Wl~~~~~~CP~CR~~i~ 278 (444)
.|-.|.+. +..+..+||.|. +|..|=+. + + .||+|+....
T Consensus 160 ~Cr~C~~~---~~~VlllPCrHl~lC~~C~~~-~---~-~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGER---EATVLLLPCRHLCLCGICDES-L---R-ICPICRSPKT 200 (207)
T ss_pred cceecCcC---CceEEeecccceEeccccccc-C---c-cCCCCcChhh
Confidence 38888775 556899999987 88899655 1 2 3999987654
No 120
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=90.45 E-value=0.11 Score=57.79 Aligned_cols=48 Identities=23% Similarity=0.584 Sum_probs=38.6
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCC-CCCCccccCCcCCC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWR-TFCPVCKRDARTST 281 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~-~~CP~CR~~i~~~~ 281 (444)
..|.||++ .+...+.+|+|.||..|+.+-++... ..||+||..+....
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 79999999 56678888999999999998876532 24999998776544
No 121
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.00 E-value=0.11 Score=51.61 Aligned_cols=43 Identities=30% Similarity=0.669 Sum_probs=27.3
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
..|.-|-... .-.-|.+||+|+||.+|-.. .. .+.||.|-..|
T Consensus 91 HfCd~Cd~PI--~IYGRmIPCkHvFCl~CAr~--~~-dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPI--AIYGRMIPCKHVFCLECARS--DS-DKICPLCDDRV 133 (389)
T ss_pred EeecccCCcc--eeeecccccchhhhhhhhhc--Cc-cccCcCcccHH
Confidence 3565564332 22237889999999999654 22 23499995543
No 122
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=88.95 E-value=0.26 Score=49.53 Aligned_cols=44 Identities=23% Similarity=0.526 Sum_probs=34.6
Q ss_pred CccccccccccccCceeEEecc--CCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPC--RHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC--~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
-.+|+||.+.+..+ ++.| ||+-|..|-.+- ...||.||.++...
T Consensus 48 lleCPvC~~~l~~P----i~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g~~ 93 (299)
T KOG3002|consen 48 LLDCPVCFNPLSPP----IFQCDNGHLACSSCRTKV----SNKCPTCRLPIGNI 93 (299)
T ss_pred hccCchhhccCccc----ceecCCCcEehhhhhhhh----cccCCccccccccH
Confidence 47899999998886 5668 799999997542 34499999988743
No 123
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.70 E-value=0.25 Score=55.39 Aligned_cols=35 Identities=23% Similarity=0.607 Sum_probs=28.1
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHH
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWL 263 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl 263 (444)
.++.|.+|...+-. +...+.||||.||.+||.+-.
T Consensus 816 p~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence 35899999877654 367889999999999998753
No 124
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=86.77 E-value=0.22 Score=57.81 Aligned_cols=49 Identities=29% Similarity=0.552 Sum_probs=38.5
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
...|.||++.+.... .+.-|+|.+|..|+..|+..+. .||.|+....+.
T Consensus 1153 ~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~~s-~~~~~ksi~~df 1201 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYASS-RCPICKSIKGDF 1201 (1394)
T ss_pred ccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHHhc-cCcchhhhhhhh
Confidence 468999999988431 4556999999999999999855 499998544433
No 125
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.97 E-value=0.29 Score=52.98 Aligned_cols=43 Identities=35% Similarity=0.695 Sum_probs=31.2
Q ss_pred ccccccccccccCc-eeEEeccCCeecHhHHHHHHhcCCCCCCccccC
Q 013394 230 RTCAICLEDYSVGE-KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRD 276 (444)
Q Consensus 230 ~~C~ICle~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~ 276 (444)
..|.||+..|.... ..+-|-|||..|..|++.-..+ +|| |+++
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~---scp-~~~D 55 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA---SCP-TKRD 55 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc---cCC-CCcc
Confidence 57999988887764 3344559999999999876543 488 6553
No 126
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=84.43 E-value=0.73 Score=45.54 Aligned_cols=48 Identities=31% Similarity=0.553 Sum_probs=35.6
Q ss_pred ccccccccc-ccCc-eeEEeccCCeecHhHHHHHHhcCCCCCCccccCCc
Q 013394 231 TCAICLEDY-SVGE-KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR 278 (444)
Q Consensus 231 ~C~ICle~~-~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~ 278 (444)
.|++|..+- ..++ .+.+=+|+|..|..|++.-+..+...||.|-..+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 588887543 3333 33333799999999999999998888999965443
No 127
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=84.21 E-value=25 Score=41.39 Aligned_cols=23 Identities=13% Similarity=0.336 Sum_probs=12.5
Q ss_pred CCHHHHHHHHHH-cCCeEEEEecc
Q 013394 87 CSFEDKVRNAQK-AGFEAAIVYDN 109 (444)
Q Consensus 87 CsF~~Kv~~Aq~-aGA~avII~n~ 109 (444)
-+..+|++.-++ .|-....|+++
T Consensus 1194 ltm~~ia~~i~~~f~~d~~~i~~d 1217 (1605)
T KOG0260|consen 1194 LTMEQIAEKINRGFGSDLACIFSD 1217 (1605)
T ss_pred ccHHHHHHHHHhhccCCCceeecc
Confidence 566666666553 34444445543
No 128
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.95 E-value=0.41 Score=46.41 Aligned_cols=52 Identities=23% Similarity=0.597 Sum_probs=36.0
Q ss_pred CCccccccccccccCcee-EEecc-----CCeecHhHHHHHHhcCC-------CCCCccccCCcC
Q 013394 228 TSRTCAICLEDYSVGEKL-RILPC-----RHKFHAFCVDSWLTSWR-------TFCPVCKRDART 279 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~-~~lpC-----~H~FH~~Ci~~Wl~~~~-------~~CP~CR~~i~~ 279 (444)
.+..|=||++.=++...- =+-|| .|..|..|+..|+.+++ ..||-|+.+...
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 357899999874443211 24566 37899999999997643 249999886543
No 129
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=83.87 E-value=1.1 Score=33.28 Aligned_cols=33 Identities=21% Similarity=0.716 Sum_probs=27.6
Q ss_pred CccccccccccccCceeEEec-cCCeecHhHHHH
Q 013394 229 SRTCAICLEDYSVGEKLRILP-CRHKFHAFCVDS 261 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lp-C~H~FH~~Ci~~ 261 (444)
...|.+|-+.|+.++.+.+-| |+=.||..|-+.
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 468999999999777777777 999999999544
No 130
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.51 E-value=1 Score=46.29 Aligned_cols=46 Identities=20% Similarity=0.293 Sum_probs=38.9
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCC--CCCCccc
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWR--TFCPVCK 274 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~--~~CP~CR 274 (444)
-..|+|=.+.=.+......|.|||+..++-+.+-.+.+. ..||.|=
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 368999888777777789999999999999999888766 5699993
No 131
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=81.41 E-value=0.8 Score=50.75 Aligned_cols=50 Identities=20% Similarity=0.243 Sum_probs=37.7
Q ss_pred CCccccccccccccC-ceeEEec---cCCeecHhHHHHHHhc-----CCCCCCccccCC
Q 013394 228 TSRTCAICLEDYSVG-EKLRILP---CRHKFHAFCVDSWLTS-----WRTFCPVCKRDA 277 (444)
Q Consensus 228 ~~~~C~ICle~~~~~-~~~~~lp---C~H~FH~~Ci~~Wl~~-----~~~~CP~CR~~i 277 (444)
....|.||.-++..+ |..-.+| |.|-||..||..|+.+ ....|+.|..-|
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 457889998888873 2345556 9999999999999875 344589987644
No 132
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=80.97 E-value=0.91 Score=50.12 Aligned_cols=25 Identities=28% Similarity=0.662 Sum_probs=21.1
Q ss_pred EeccCCeecHhHHHHHHhcCCCCCCc
Q 013394 247 ILPCRHKFHAFCVDSWLTSWRTFCPV 272 (444)
Q Consensus 247 ~lpC~H~FH~~Ci~~Wl~~~~~~CP~ 272 (444)
..-|+|+.|..|...|+..+.. ||.
T Consensus 1045 Cg~C~Hv~H~sc~~eWf~~gd~-Cps 1069 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRTGDV-CPS 1069 (1081)
T ss_pred hccccccccHHHHHHHHhcCCc-CCC
Confidence 4559999999999999998664 884
No 133
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=80.89 E-value=0.83 Score=45.55 Aligned_cols=52 Identities=27% Similarity=0.595 Sum_probs=37.9
Q ss_pred CccccccccccccCce-eEEeccC-----CeecHhHHHHHHhcC-CCCCCccccCCcCC
Q 013394 229 SRTCAICLEDYSVGEK-LRILPCR-----HKFHAFCVDSWLTSW-RTFCPVCKRDARTS 280 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~-~~~lpC~-----H~FH~~Ci~~Wl~~~-~~~CP~CR~~i~~~ 280 (444)
+..|-||.++...... ..+.||. +..|..|++.|+..+ +..|-+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4789999998655422 4677864 457999999999853 44599998766544
No 134
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=79.62 E-value=53 Score=38.83 Aligned_cols=14 Identities=21% Similarity=0.389 Sum_probs=8.0
Q ss_pred CccccccccccccC
Q 013394 229 SRTCAICLEDYSVG 242 (444)
Q Consensus 229 ~~~C~ICle~~~~~ 242 (444)
.+.|.=|-|....+
T Consensus 1391 kd~~rgvsEnImlg 1404 (1605)
T KOG0260|consen 1391 KDPCRGVSENIMLG 1404 (1605)
T ss_pred cCCCccceeeeeec
Confidence 35566666665554
No 135
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.61 E-value=1.1 Score=48.75 Aligned_cols=48 Identities=33% Similarity=0.833 Sum_probs=38.6
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE 283 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~ 283 (444)
..+.|.||++++ ..+..+|. |..|+.+|+..+ ..||+|+..+..+...
T Consensus 478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~-~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQ-EVCPLCHTYMKEDDFL 525 (543)
T ss_pred ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhc-cccCCCchhhhccccc
Confidence 358999999998 45778888 999999999984 4599998877655443
No 136
>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=79.16 E-value=1.1 Score=43.01 Aligned_cols=47 Identities=32% Similarity=0.714 Sum_probs=36.5
Q ss_pred Cccccccccccc-cCc-eeEEec-cCCeecHhHHHHHHhcCCCCCC--cccc
Q 013394 229 SRTCAICLEDYS-VGE-KLRILP-CRHKFHAFCVDSWLTSWRTFCP--VCKR 275 (444)
Q Consensus 229 ~~~C~ICle~~~-~~~-~~~~lp-C~H~FH~~Ci~~Wl~~~~~~CP--~CR~ 275 (444)
+..|+||..+-- .++ ++.+-| |-|..|..|++.-+..+...|| -|-+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 468999987643 334 344456 9999999999999999888899 7733
No 137
>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=78.33 E-value=1.9 Score=31.41 Aligned_cols=44 Identities=23% Similarity=0.505 Sum_probs=20.8
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhc----CCCCCCccccC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS----WRTFCPVCKRD 276 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~----~~~~CP~CR~~ 276 (444)
..|+|....+..+ +|-..|.|.-+.+ ++.||+. ..-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4688888877665 6777799973322 4456543 33459999763
No 138
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=76.91 E-value=1.6 Score=48.72 Aligned_cols=50 Identities=22% Similarity=0.632 Sum_probs=36.7
Q ss_pred CCccccccccccccCceeEEeccCC-----eecHhHHHHHHhcC-CCCCCccccCCc
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRH-----KFHAFCVDSWLTSW-RTFCPVCKRDAR 278 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H-----~FH~~Ci~~Wl~~~-~~~CP~CR~~i~ 278 (444)
++..|-||..+=..++. -.-||++ ..|.+|+-+|+.-. .+.|-+|+.++.
T Consensus 11 d~~~CRICr~e~~~d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 11 DKRSCRICRTEDIRDDP-LFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred cchhceeecCCCCCCCc-CcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 35899999988655544 3456754 37999999999853 445999998754
No 139
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.87 E-value=1.1 Score=46.68 Aligned_cols=38 Identities=29% Similarity=0.677 Sum_probs=29.2
Q ss_pred Cccccccc-cccccCceeEEeccCCeecHhHHHHHHhcC
Q 013394 229 SRTCAICL-EDYSVGEKLRILPCRHKFHAFCVDSWLTSW 266 (444)
Q Consensus 229 ~~~C~ICl-e~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~ 266 (444)
..+|.||. +.....+...+.-|+|.||.+|+.+-++.+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 57899999 544444555566699999999999988753
No 140
>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 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=74.85 E-value=2.9 Score=37.91 Aligned_cols=33 Identities=30% Similarity=0.628 Sum_probs=21.8
Q ss_pred CccccccccccccCceeEEecc------------C-CeecHhHHHHHHh
Q 013394 229 SRTCAICLEDYSVGEKLRILPC------------R-HKFHAFCVDSWLT 264 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC------------~-H~FH~~Ci~~Wl~ 264 (444)
+-.|+||+|---+. ..|-| + -.-|..|+++.-+
T Consensus 2 d~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 46899999974432 44444 2 1248899999765
No 142
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=74.21 E-value=1.1 Score=48.86 Aligned_cols=42 Identities=24% Similarity=0.631 Sum_probs=28.2
Q ss_pred Ccccccccc-----ccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccc
Q 013394 229 SRTCAICLE-----DYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 274 (444)
Q Consensus 229 ~~~C~ICle-----~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR 274 (444)
...|.+|.. .|......+...|+++||..|... .+..||.|-
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r----~s~~CPrC~ 557 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR----KSPCCPRCE 557 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc----cCCCCCchH
Confidence 467888832 233333456677999999999654 444599993
No 143
>KOG2195 consensus Transferrin receptor and related proteins containing the protease-associated (PA) domain [Posttranslational modification, protein turnover, chaperones; Inorganic ion transport and metabolism; General function prediction only]
Probab=72.41 E-value=5.8 Score=44.47 Aligned_cols=37 Identities=35% Similarity=0.504 Sum_probs=33.9
Q ss_pred CCcceEEEEecCCCCHHHHHHHHHHcCCeEEEEeccC
Q 013394 74 NMSSAFVLTIRGGCSFEDKVRNAQKAGFEAAIVYDNE 110 (444)
Q Consensus 74 ~~~~~ivLV~RG~CsF~~Kv~~Aq~aGA~avII~n~~ 110 (444)
+.+++|+|++=|.-.+.+|+++|+++||.|||+|.+.
T Consensus 182 ~~~g~i~l~r~~~i~~g~~~~na~~~~a~gviiy~d~ 218 (702)
T KOG2195|consen 182 NLSGKIVLARVGKIYRGKKVKNAEAAGADGVIIYTDP 218 (702)
T ss_pred cccCceEEEEccccchhhhHhhHHHhhcCcEEEeecc
Confidence 4679999999999999999999999999999999763
No 144
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=71.78 E-value=2 Score=44.65 Aligned_cols=34 Identities=29% Similarity=0.628 Sum_probs=28.5
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhc
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS 265 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 265 (444)
+..|+||..-|+++ ++|||+|..|..|-..-+.+
T Consensus 4 elkc~vc~~f~~ep---iil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 4 ELKCPVCGSFYREP---IILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccCceehhhccCc---eEeecccHHHHHHHHhhccc
Confidence 47899999998887 89999999999997765543
No 145
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=70.68 E-value=3.2 Score=36.57 Aligned_cols=51 Identities=25% Similarity=0.533 Sum_probs=33.2
Q ss_pred CccccccccccccCceeEEec-cCCeecHhHH-HHHHhc-CCCCCCccccCCcC
Q 013394 229 SRTCAICLEDYSVGEKLRILP-CRHKFHAFCV-DSWLTS-WRTFCPVCKRDART 279 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lp-C~H~FH~~Ci-~~Wl~~-~~~~CP~CR~~i~~ 279 (444)
-.+|.||.|.-.+..-+.-=. ||-..|..|- ..|-.. ....||+|+.....
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 489999999866652222111 8888888775 456432 34569999876643
No 146
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.06 E-value=2.2 Score=42.25 Aligned_cols=29 Identities=21% Similarity=0.605 Sum_probs=22.4
Q ss_pred cCCeecHhHHHHHHhc------------CCCCCCccccCCc
Q 013394 250 CRHKFHAFCVDSWLTS------------WRTFCPVCKRDAR 278 (444)
Q Consensus 250 C~H~FH~~Ci~~Wl~~------------~~~~CP~CR~~i~ 278 (444)
|.-.+|..|+.+|+.- ++..||+||+...
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 6777899999999863 2335999999754
No 147
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=65.23 E-value=1.7 Score=47.93 Aligned_cols=46 Identities=35% Similarity=0.793 Sum_probs=36.3
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCC--CCCCccccCCc
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWR--TFCPVCKRDAR 278 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~--~~CP~CR~~i~ 278 (444)
.+|.||++.+..+ ..+.|.|.|+..|+-.-|...+ ..||+|+..+.
T Consensus 22 lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 22 LECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred ccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 6899999998876 5677999999999887665533 35999986543
No 148
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=63.29 E-value=3.5 Score=39.08 Aligned_cols=41 Identities=29% Similarity=0.813 Sum_probs=33.6
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCcc
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVC 273 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~C 273 (444)
..|.+|.+-.-.+ +|.=.|+-.+|..|+...+++ ...||.|
T Consensus 182 k~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~-~~~cphc 222 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQR-RDICPHC 222 (235)
T ss_pred HHHhHhHHHhhee--eccCcccchhhhHHHHHHhcc-cCcCCch
Confidence 6899998875555 455568888999999999998 5669999
No 149
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=63.15 E-value=7.7 Score=39.14 Aligned_cols=67 Identities=24% Similarity=0.419 Sum_probs=45.0
Q ss_pred HHHHhhcccceeecccccc-CCCccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCcccc
Q 013394 208 RRLVKAMPSLIFTAVVEDN-CTSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR 275 (444)
Q Consensus 208 ~~~~~~lp~~~~~~~~~~~-~~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~ 275 (444)
+..-.-+|...|.+..... .....|-.|.++.......+.=.|+|.||.+|=.---++-+. ||-|..
T Consensus 308 RSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~-CpgCeh 375 (378)
T KOG2807|consen 308 RSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHN-CPGCEH 375 (378)
T ss_pred HHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhc-CCCcCC
Confidence 4444456666665544332 234669999888777777777779999999995444344343 999964
No 150
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=60.50 E-value=4 Score=38.60 Aligned_cols=41 Identities=32% Similarity=0.838 Sum_probs=29.0
Q ss_pred Cccccccccc-----cccCceeEEeccCCeecHhHHHHHHhcCCCCCCcccc
Q 013394 229 SRTCAICLED-----YSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKR 275 (444)
Q Consensus 229 ~~~C~ICle~-----~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~ 275 (444)
+..|.||-++ |......+.-.|+-+||..|..+ + .||-|.+
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~-~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----K-SCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----C-CCCCcHh
Confidence 5789999753 33334455556999999999762 3 3999954
No 151
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=57.44 E-value=8.3 Score=42.99 Aligned_cols=42 Identities=21% Similarity=0.352 Sum_probs=28.9
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCc
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPV 272 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~ 272 (444)
...|.+|-.....- .+-.=-|+|.-|..|+.+|+..... ||.
T Consensus 779 ~~~CtVC~~vi~G~-~~~c~~C~H~gH~sh~~sw~~~~s~-ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIRGV-DVWCQVCGHGGHDSHLKSWFFKASP-CAK 820 (839)
T ss_pred hcCceeecceeeee-EeecccccccccHHHHHHHHhcCCC-Ccc
Confidence 35788886553321 1122229999999999999998555 776
No 152
>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=57.08 E-value=6.7 Score=32.03 Aligned_cols=16 Identities=19% Similarity=0.249 Sum_probs=6.8
Q ss_pred HHHHHHHHhhhhcccc
Q 013394 173 LAMSAVLATCFFVRRH 188 (444)
Q Consensus 173 l~l~~vl~~~~~~~~~ 188 (444)
.+++++++++|++++.
T Consensus 41 ~~iFil~VilwfvCC~ 56 (94)
T PF05393_consen 41 CGIFILLVILWFVCCK 56 (94)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333344444444433
No 153
>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=57.02 E-value=4.2 Score=29.40 Aligned_cols=43 Identities=23% Similarity=0.561 Sum_probs=23.3
Q ss_pred cccccccccccCceeEEecc-CCeecHhHHHHHHhcCCCCCCccccCCcC
Q 013394 231 TCAICLEDYSVGEKLRILPC-RHKFHAFCVDSWLTSWRTFCPVCKRDART 279 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lpC-~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~ 279 (444)
.|--|+-+ .. -...| .|..+..|+..-|.... .||+|.++++.
T Consensus 4 nCKsCWf~--~k---~Li~C~dHYLCl~CLt~ml~~s~-~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCWFA--NK---GLIKCSDHYLCLNCLTLMLSRSD-RCPICGKPLPT 47 (50)
T ss_dssp ---SS-S----S---SEEE-SS-EEEHHHHHHT-SSSS-EETTTTEE---
T ss_pred cChhhhhc--CC---CeeeecchhHHHHHHHHHhcccc-CCCcccCcCcc
Confidence 45566643 22 13448 49999999999888744 59999988764
No 154
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=56.65 E-value=5.7 Score=39.04 Aligned_cols=47 Identities=21% Similarity=0.414 Sum_probs=34.0
Q ss_pred ccccccccccccCceeEEec----cCCeecHhHHHHHHh-cCC-------CCCCccccC
Q 013394 230 RTCAICLEDYSVGEKLRILP----CRHKFHAFCVDSWLT-SWR-------TFCPVCKRD 276 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lp----C~H~FH~~Ci~~Wl~-~~~-------~~CP~CR~~ 276 (444)
.+|-+|.+++.+.+..+..- |.-++|..|+..-+. .+. ..||.|++-
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 68999999996655554432 888999999998433 221 249999874
No 155
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=56.02 E-value=11 Score=36.68 Aligned_cols=54 Identities=13% Similarity=0.164 Sum_probs=39.7
Q ss_pred CccccccccccccCceeEEe-ccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCCCC
Q 013394 229 SRTCAICLEDYSVGEKLRIL-PCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEPP 285 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~l-pC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~~~ 285 (444)
...|+|-.-+|....+...| +|||+|-..-+.+.- ...|++|.......+-.+.
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~~dvIvl 165 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQEDDVIVL 165 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcccccCeEee
Confidence 57899998888776655444 599999998887753 3459999887766554433
No 156
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.95 E-value=5.6 Score=44.47 Aligned_cols=43 Identities=19% Similarity=0.456 Sum_probs=32.5
Q ss_pred CccccccccccccC----ceeEEeccCCeecHhHHHHHHhcCCCCCCcc
Q 013394 229 SRTCAICLEDYSVG----EKLRILPCRHKFHAFCVDSWLTSWRTFCPVC 273 (444)
Q Consensus 229 ~~~C~ICle~~~~~----~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~C 273 (444)
+..|.-|.+..-.. +.+.++-|+|+||+.|+..-..+.+ |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~--~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA--CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc--cChh
Confidence 46899998876432 4678889999999999988776643 6555
No 157
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.47 E-value=8.6 Score=38.07 Aligned_cols=37 Identities=22% Similarity=0.372 Sum_probs=28.5
Q ss_pred CccccccccccccCceeEEec--cCCeecHhHHHHHHhcC
Q 013394 229 SRTCAICLEDYSVGEKLRILP--CRHKFHAFCVDSWLTSW 266 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lp--C~H~FH~~Ci~~Wl~~~ 266 (444)
...|.+|.|.+++..-|. -| =.|.||..|-++-++++
T Consensus 268 pLcCTLC~ERLEDTHFVQ-CPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFVQ-CPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCceee-cCCCcccceecccCHHHHHhh
Confidence 478999999988764333 22 27999999999998864
No 158
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=48.73 E-value=20 Score=30.82 Aligned_cols=45 Identities=24% Similarity=0.417 Sum_probs=33.0
Q ss_pred CccccccccccccCc-----------eeEEeccCCeecHhHHHHHHhcCCCCCCccc
Q 013394 229 SRTCAICLEDYSVGE-----------KLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 274 (444)
Q Consensus 229 ~~~C~ICle~~~~~~-----------~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR 274 (444)
...|--|+..|.... +.+.-.|++.|+.+|=.-|-+.-+. ||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~-CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHC-CPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccC-CcCCC
Confidence 357999999886531 1234459999999997777776555 99995
No 159
>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=48.50 E-value=7.5 Score=27.77 Aligned_cols=45 Identities=22% Similarity=0.569 Sum_probs=29.8
Q ss_pred cccccccccccCceeEEeccCCeecHhHHHHHHhc-----CCCCCCcccc
Q 013394 231 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS-----WRTFCPVCKR 275 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~-----~~~~CP~CR~ 275 (444)
.|.||.+....++.+.--.|+-.||..|+..=... ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 38899985444444444458999999998754331 1345888863
No 160
>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=47.44 E-value=20 Score=23.32 Aligned_cols=37 Identities=24% Similarity=0.457 Sum_probs=24.4
Q ss_pred cccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 231 TCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
.|..|.+.+...+.... .=+..||..|+ .|..|+..+
T Consensus 1 ~C~~C~~~i~~~~~~~~-~~~~~~H~~Cf---------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLR-ALGKVWHPECF---------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEE-eCCccccccCC---------CCcccCCcC
Confidence 37788887766533322 23678998883 388887765
No 161
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.58 E-value=8.7 Score=40.79 Aligned_cols=36 Identities=31% Similarity=0.659 Sum_probs=30.8
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhc
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS 265 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 265 (444)
...+|-||.+.+.. .+..+.|+|.|+..|....+.+
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred ccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 35799999998766 5677889999999999998876
No 162
>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=45.47 E-value=17 Score=31.64 Aligned_cols=12 Identities=17% Similarity=0.241 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHH
Q 013394 165 MAISFISLLAMS 176 (444)
Q Consensus 165 ~~IsfI~ll~l~ 176 (444)
..|+|.++.+++
T Consensus 67 ~~Ii~gv~aGvI 78 (122)
T PF01102_consen 67 IGIIFGVMAGVI 78 (122)
T ss_dssp HHHHHHHHHHHH
T ss_pred eehhHHHHHHHH
Confidence 334444444433
No 163
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=45.40 E-value=11 Score=25.55 Aligned_cols=25 Identities=32% Similarity=0.818 Sum_probs=16.3
Q ss_pred cccccccccccCce--------eEEeccCCeec
Q 013394 231 TCAICLEDYSVGEK--------LRILPCRHKFH 255 (444)
Q Consensus 231 ~C~ICle~~~~~~~--------~~~lpC~H~FH 255 (444)
+|+=|...|..+|+ ++.-.|+|+|+
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 57778887776543 34444788875
No 164
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=45.09 E-value=23 Score=28.39 Aligned_cols=57 Identities=23% Similarity=0.507 Sum_probs=23.9
Q ss_pred CCccccccccccccCc--ee--EEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCCC
Q 013394 228 TSRTCAICLEDYSVGE--KL--RILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEP 284 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~--~~--~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~~ 284 (444)
....|.||-++....+ ++ ...-|+--.+..|.+-=.+..+..||-|+......++.|
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kgsp 68 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKGSP 68 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccCCC
Confidence 3578999999875432 22 233477778999998777776667999998877666554
No 165
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=43.25 E-value=5.5 Score=39.86 Aligned_cols=37 Identities=32% Similarity=0.640 Sum_probs=31.4
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcC
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW 266 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~ 266 (444)
..|.+|+++|..+.......|.-+||..|+..|+...
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred eecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 4899999999876666777777799999999998874
No 166
>PLN02189 cellulose synthase
Probab=42.30 E-value=27 Score=40.69 Aligned_cols=56 Identities=21% Similarity=0.488 Sum_probs=39.2
Q ss_pred Ccccccccccccc---CceeEEe-ccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCCC
Q 013394 229 SRTCAICLEDYSV---GEKLRIL-PCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEP 284 (444)
Q Consensus 229 ~~~C~ICle~~~~---~~~~~~l-pC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~~ 284 (444)
...|.||-|+... ++..+.- .|+--.|..|.+-=-+..+..||.||......++.+
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~kgs~ 93 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLKGSP 93 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCC
Confidence 4689999999753 3333222 277778999997655666667999999877555444
No 167
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=42.15 E-value=14 Score=27.15 Aligned_cols=42 Identities=24% Similarity=0.581 Sum_probs=18.6
Q ss_pred ccccccccccCc-------eeEEeccCCeecHhHHHHHHhcCCCCCCccc
Q 013394 232 CAICLEDYSVGE-------KLRILPCRHKFHAFCVDSWLTSWRTFCPVCK 274 (444)
Q Consensus 232 C~ICle~~~~~~-------~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR 274 (444)
|-=|+..|..+. ..+.-.|++.|+.+|=.---++-+. ||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~-CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHN-CPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-S-SSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccC-CcCCC
Confidence 445666665542 2222238999999993222223333 99983
No 168
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=41.59 E-value=2.2e+02 Score=32.01 Aligned_cols=62 Identities=27% Similarity=0.564 Sum_probs=36.8
Q ss_pred CCcHHHHhhcccceeeccccccCCCccccccccccccCc--eeEEec-----cCCeecHhHHHHH--Hh-------cCCC
Q 013394 205 GMSRRLVKAMPSLIFTAVVEDNCTSRTCAICLEDYSVGE--KLRILP-----CRHKFHAFCVDSW--LT-------SWRT 268 (444)
Q Consensus 205 ~~~~~~~~~lp~~~~~~~~~~~~~~~~C~ICle~~~~~~--~~~~lp-----C~H~FH~~Ci~~W--l~-------~~~~ 268 (444)
-|..-++..+|.-+|+ .+|=||.|+=++.+ .-.+|. |+-.||..|-..- |- .+..
T Consensus 102 TMEPIiLq~VP~dRfn---------KtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVK 172 (900)
T KOG0956|consen 102 TMEPIILQDVPHDRFN---------KTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVK 172 (900)
T ss_pred cccceeeccCchhhhc---------ceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccce
Confidence 3444455555544433 68999988744332 112333 6778999998754 11 1234
Q ss_pred CCCcccc
Q 013394 269 FCPVCKR 275 (444)
Q Consensus 269 ~CP~CR~ 275 (444)
+|..|+.
T Consensus 173 YCGYCk~ 179 (900)
T KOG0956|consen 173 YCGYCKY 179 (900)
T ss_pred echhHHH
Confidence 6999976
No 169
>PF15050 SCIMP: SCIMP protein
Probab=38.75 E-value=40 Score=29.25 Aligned_cols=11 Identities=36% Similarity=0.800 Sum_probs=5.4
Q ss_pred chhhHHHHHHH
Q 013394 161 AWSIMAISFIS 171 (444)
Q Consensus 161 ~~~i~~IsfI~ 171 (444)
.|.|+++.+|+
T Consensus 8 FWiiLAVaII~ 18 (133)
T PF15050_consen 8 FWIILAVAIIL 18 (133)
T ss_pred hHHHHHHHHHH
Confidence 35555555333
No 170
>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=37.80 E-value=28 Score=31.94 Aligned_cols=23 Identities=35% Similarity=0.602 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHhhhhcccccccc
Q 013394 170 ISLLAMSAVLATCFFVRRHRIRR 192 (444)
Q Consensus 170 I~ll~l~~vl~~~~~~~~~r~rr 192 (444)
++++++.+++++||.+|..|.|+
T Consensus 99 ~Vl~g~s~l~i~yfvir~~R~r~ 121 (163)
T PF06679_consen 99 YVLVGLSALAILYFVIRTFRLRR 121 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Confidence 34444445555555555555554
No 171
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=37.44 E-value=24 Score=35.61 Aligned_cols=44 Identities=18% Similarity=0.285 Sum_probs=34.3
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcC--CCCCCcc
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW--RTFCPVC 273 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~--~~~CP~C 273 (444)
..|++=-|.-.+......|.|||+.-++-++..-+.+ ...||.|
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 6899876666666667888999999999998876653 2349999
No 172
>PF13605 DUF4141: Domain of unknown function (DUF4141)
Probab=36.98 E-value=40 Score=25.22 Aligned_cols=28 Identities=18% Similarity=0.176 Sum_probs=21.2
Q ss_pred ChhHHHHHHHHHHHhcccceEEEEEeCc
Q 013394 1 MNLSVVYLLCVLLICRLASANVVLIGNN 28 (444)
Q Consensus 1 m~~~~lll~~l~~~~~~~~a~v~~~~~~ 28 (444)
||.++++++.+++++..+.|+.++.++.
T Consensus 1 kk~i~~~~~~~~~~~~~a~AQWvV~DP~ 28 (55)
T PF13605_consen 1 KKKILMLCVACLLLAGPARAQWVVTDPG 28 (55)
T ss_pred CcchHHHHHHHHhcCCcceeEEEEeCch
Confidence 4666666777777788899999998753
No 173
>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=36.95 E-value=19 Score=27.46 Aligned_cols=35 Identities=17% Similarity=0.433 Sum_probs=17.9
Q ss_pred CccccccccccccCce-eEEeccCCeecHhHHHHHH
Q 013394 229 SRTCAICLEDYSVGEK-LRILPCRHKFHAFCVDSWL 263 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~-~~~lpC~H~FH~~Ci~~Wl 263 (444)
...|.+|...|..-.+ --.--||++|+..|.....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4789999999976432 2222389999999976554
No 174
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.21 E-value=6.2 Score=39.24 Aligned_cols=48 Identities=27% Similarity=0.541 Sum_probs=39.1
Q ss_pred CccccccccccccCc---eeEEec--------cCCeecHhHHHHHHhcCCCCCCccccC
Q 013394 229 SRTCAICLEDYSVGE---KLRILP--------CRHKFHAFCVDSWLTSWRTFCPVCKRD 276 (444)
Q Consensus 229 ~~~C~ICle~~~~~~---~~~~lp--------C~H~FH~~Ci~~Wl~~~~~~CP~CR~~ 276 (444)
...|.||...|...+ ..+++. |+|..+..|++.-+.+....||.||..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 468999999998432 446777 999999999999988766679999874
No 175
>COG4882 Predicted aminopeptidase, Iap family [General function prediction only]
Probab=35.85 E-value=1.6e+02 Score=30.72 Aligned_cols=66 Identities=18% Similarity=0.159 Sum_probs=44.1
Q ss_pred CCcceEEEEecCCCCHHHHH--HHHHHcCCeEEEEeccCCCcceeeecCC------CCCceEEEEEEeccccchhh
Q 013394 74 NMSSAFVLTIRGGCSFEDKV--RNAQKAGFEAAIVYDNEDDGVLVAMAGN------SAGIKIHAVFVSKASGEKLK 141 (444)
Q Consensus 74 ~~~~~ivLV~RG~CsF~~Kv--~~Aq~aGA~avII~n~~~~~~~~~~~g~------~~~i~Ip~v~Is~~~G~~L~ 141 (444)
|..|.+++-+|.+--.+-|. ..|.++||.|+|+-.+++.. ++. .|+ .....||++.+...++...+
T Consensus 87 D~~Gr~~Va~~pq~vdd~k~~~i~Aae~ga~a~~f~~~~~rr-iV~-~Gd~gy~~~s~PtPIPva~v~en~~~y~~ 160 (486)
T COG4882 87 DAGGRVVVARAPQVVDDLKAAAILAAEAGAEALLFESRDPRR-IVT-GGDWGYSVSSSPTPIPVAVVPENYSRYAE 160 (486)
T ss_pred CCCCeEEeeeccccHHHHHHHHHHHHHcCCeEEEEecCCcee-EEe-cccccccCCCCCCCcceEEeccCcchhhc
Confidence 34577887777655544443 45778999999988765543 222 222 24567999999888887765
No 176
>cd03029 GRX_hybridPRX5 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins. PRX-GRX hybrid proteins from Haemophilus influenza and Neisseria meningitis exhibit GSH-dependent peroxidase activity. The flow of reducing equivalents in the catalytic cycle of the hybrid protein goes from NADPH - GSH reductase - GSH - GRX domain of hybrid - PRX domain of hybrid - peroxide substrate.
Probab=35.81 E-value=42 Score=25.42 Aligned_cols=57 Identities=16% Similarity=0.273 Sum_probs=33.2
Q ss_pred eEEEEecCCCCHHHHHHHHHHc-CCeEEEEeccCCCcceeeecCCCCCceEEEEEEecc
Q 013394 78 AFVLTIRGGCSFEDKVRNAQKA-GFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSKA 135 (444)
Q Consensus 78 ~ivLV~RG~CsF~~Kv~~Aq~a-GA~avII~n~~~~~~~~~~~g~~~~i~Ip~v~Is~~ 135 (444)
+|.|.-+.+|.+=.|++.+.+. |.... ..|.+.+.....+........+|.++|...
T Consensus 2 ~v~lys~~~Cp~C~~ak~~L~~~~i~~~-~~~v~~~~~~~~~~~~~g~~~vP~ifi~g~ 59 (72)
T cd03029 2 SVSLFTKPGCPFCARAKAALQENGISYE-EIPLGKDITGRSLRAVTGAMTVPQVFIDGE 59 (72)
T ss_pred eEEEEECCCCHHHHHHHHHHHHcCCCcE-EEECCCChhHHHHHHHhCCCCcCeEEECCE
Confidence 5788889999999999998764 55443 333322211111111112347899888643
No 177
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.37 E-value=18 Score=37.75 Aligned_cols=44 Identities=27% Similarity=0.583 Sum_probs=30.1
Q ss_pred CccccccccccccCceeEEec--cCCeecHhHHHHHHhcCCCCCCcc
Q 013394 229 SRTCAICLEDYSVGEKLRILP--CRHKFHAFCVDSWLTSWRTFCPVC 273 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lp--C~H~FH~~Ci~~Wl~~~~~~CP~C 273 (444)
-..|+.|.-.++..+..-.+. |+|.|+..|...|...... |..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~-~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGE-CYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCcc-ccCc
Confidence 367888877665544332222 8999999999999886443 6444
No 178
>PLN02436 cellulose synthase A
Probab=34.71 E-value=42 Score=39.32 Aligned_cols=56 Identities=25% Similarity=0.516 Sum_probs=38.7
Q ss_pred Ccccccccccccc---CceeE-EeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCCC
Q 013394 229 SRTCAICLEDYSV---GEKLR-ILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEP 284 (444)
Q Consensus 229 ~~~C~ICle~~~~---~~~~~-~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~~ 284 (444)
...|.||-|+... +|... +=.|+--.|..|.+-=-+..+..||.||......++.+
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~kgs~ 95 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIKGSP 95 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhccCCC
Confidence 4689999999633 34222 22377779999997656666667999998876555444
No 179
>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=34.58 E-value=26 Score=22.40 Aligned_cols=29 Identities=24% Similarity=0.479 Sum_probs=11.1
Q ss_pred cccccccccccCceeEEeccCCeecHhHH
Q 013394 231 TCAICLEDYSVGEKLRILPCRHKFHAFCV 259 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lpC~H~FH~~Ci 259 (444)
.|.+|.+....+-.-+-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 58888887665344566678899999985
No 180
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=34.58 E-value=42 Score=33.89 Aligned_cols=53 Identities=23% Similarity=0.457 Sum_probs=34.5
Q ss_pred CCcccccccccccc---------------Cc-eeEEeccCCeecHhHHHHHHhcC--------CCCCCccccCCcCC
Q 013394 228 TSRTCAICLEDYSV---------------GE-KLRILPCRHKFHAFCVDSWLTSW--------RTFCPVCKRDARTS 280 (444)
Q Consensus 228 ~~~~C~ICle~~~~---------------~~-~~~~lpC~H~FH~~Ci~~Wl~~~--------~~~CP~CR~~i~~~ 280 (444)
.+.+|++|+..=.. +- .-.--||||+--++-..-|-+.. +..||.|-..+...
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 36899999975110 00 11245799998888888897641 23499997766543
No 181
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=34.48 E-value=23 Score=38.59 Aligned_cols=35 Identities=23% Similarity=0.538 Sum_probs=24.5
Q ss_pred CCcccccccccccc-----------CceeEEeccCCeecHhHHHHHH
Q 013394 228 TSRTCAICLEDYSV-----------GEKLRILPCRHKFHAFCVDSWL 263 (444)
Q Consensus 228 ~~~~C~ICle~~~~-----------~~~~~~lpC~H~FH~~Ci~~Wl 263 (444)
....|+||.|.|+. .+.+.+- =|-+||..|+..--
T Consensus 512 ~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 512 RQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEKR 557 (579)
T ss_pred cccCCcccccccceeecchhhheeecceeeec-cCceeeccccchHH
Confidence 45789999999975 1222222 57899999987643
No 182
>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=34.03 E-value=17 Score=22.87 Aligned_cols=22 Identities=27% Similarity=0.661 Sum_probs=10.6
Q ss_pred cccccccccccCceeEEec-cCCee
Q 013394 231 TCAICLEDYSVGEKLRILP-CRHKF 254 (444)
Q Consensus 231 ~C~ICle~~~~~~~~~~lp-C~H~F 254 (444)
.|+-|..+.... .+.=| |||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 456665554332 23334 66655
No 183
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=32.56 E-value=17 Score=36.57 Aligned_cols=45 Identities=24% Similarity=0.585 Sum_probs=29.2
Q ss_pred CCCccccccccccccCce-----------eEEeccCCe--ecHhHHHHHHhcC-----CCCCCccccC
Q 013394 227 CTSRTCAICLEDYSVGEK-----------LRILPCRHK--FHAFCVDSWLTSW-----RTFCPVCKRD 276 (444)
Q Consensus 227 ~~~~~C~ICle~~~~~~~-----------~~~lpC~H~--FH~~Ci~~Wl~~~-----~~~CP~CR~~ 276 (444)
..-.+|++=|..+..+.+ -.-|.|||+ +| .|=.+. ...||+||..
T Consensus 288 A~RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~H-----~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 288 AARPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGYH-----NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred ccCCCCCcccceeecccccccccccccCCeEEEecccccccc-----ccccccccCcccCcCCeeeee
Confidence 345789998877655432 246779998 66 564432 2349999863
No 184
>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=32.32 E-value=36 Score=24.58 Aligned_cols=39 Identities=23% Similarity=0.423 Sum_probs=24.9
Q ss_pred ccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 232 CAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 232 C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
|.-|.+.+...+.+ +..-+..||..|+ .|-.|++++...
T Consensus 1 C~~C~~~I~~~~~~-~~~~~~~~H~~Cf---------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIV-IKAMGKFWHPECF---------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEE-EEETTEEEETTTS---------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEE-EEeCCcEEEcccc---------ccCCCCCccCCC
Confidence 66677777655432 2246778888882 388888777544
No 185
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.85 E-value=28 Score=33.99 Aligned_cols=34 Identities=15% Similarity=0.201 Sum_probs=28.2
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhc
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS 265 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 265 (444)
-+.|..||..+..+ .+.|=||+|+.+||-+.+..
T Consensus 43 FdcCsLtLqPc~dP---vit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 43 FDCCSLTLQPCRDP---VITPDGYLFDREAILEYILA 76 (303)
T ss_pred cceeeeecccccCC---ccCCCCeeeeHHHHHHHHHH
Confidence 36899999988776 66777999999999988754
No 186
>PF15102 TMEM154: TMEM154 protein family
Probab=31.58 E-value=25 Score=31.55 Aligned_cols=10 Identities=30% Similarity=0.624 Sum_probs=6.9
Q ss_pred HhHHHHHHhc
Q 013394 256 AFCVDSWLTS 265 (444)
Q Consensus 256 ~~Ci~~Wl~~ 265 (444)
-.=+|+|...
T Consensus 127 meeldkwm~s 136 (146)
T PF15102_consen 127 MEELDKWMNS 136 (146)
T ss_pred HHHHHhHHHh
Confidence 3458888875
No 187
>PF13956 Ibs_toxin: Toxin Ibs, type I toxin-antitoxin system
Probab=31.07 E-value=29 Score=19.99 Aligned_cols=13 Identities=46% Similarity=0.869 Sum_probs=5.7
Q ss_pred ChhHHHHHHHHHHH
Q 013394 1 MNLSVVYLLCVLLI 14 (444)
Q Consensus 1 m~~~~lll~~l~~~ 14 (444)
|+.+++ +++|+++
T Consensus 2 Mk~vII-lvvLLli 14 (19)
T PF13956_consen 2 MKLVII-LVVLLLI 14 (19)
T ss_pred ceehHH-HHHHHhc
Confidence 444444 4444443
No 188
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=30.38 E-value=17 Score=37.77 Aligned_cols=66 Identities=18% Similarity=0.317 Sum_probs=6.5
Q ss_pred HHHHhhcccceeec--cccccCCCccccccccccccCc-----------eeEEeccCCeecHhHHHHHHhcC-----CCC
Q 013394 208 RRLVKAMPSLIFTA--VVEDNCTSRTCAICLEDYSVGE-----------KLRILPCRHKFHAFCVDSWLTSW-----RTF 269 (444)
Q Consensus 208 ~~~~~~lp~~~~~~--~~~~~~~~~~C~ICle~~~~~~-----------~~~~lpC~H~FH~~Ci~~Wl~~~-----~~~ 269 (444)
.+-+...|+...-. .++-+....+|+|=|..+..+. .-.-|.|||++- ...|-... ...
T Consensus 254 a~gL~~~Pt~~~Le~~~~~lNa~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG---~h~Wg~~~~~~~~~r~ 330 (416)
T PF04710_consen 254 AEGLAHSPTKKHLEALRQELNAGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHG---YHNWGQDSDRDPRSRT 330 (416)
T ss_dssp HHHHHHS-CCHHHHHHCHHSS-----------------------------------------------------------
T ss_pred hhhhhcCCcHHHHHHHHHHHhhcCCCCCcCCCccccccccccccccccCceeeccccceee---eccccccccccccccc
Confidence 34455555543211 1222334578888776654432 123456999865 33675421 234
Q ss_pred CCccccC
Q 013394 270 CPVCKRD 276 (444)
Q Consensus 270 CP~CR~~ 276 (444)
||+||..
T Consensus 331 CPlCr~~ 337 (416)
T PF04710_consen 331 CPLCRQV 337 (416)
T ss_dssp -------
T ss_pred CCCcccc
Confidence 9999874
No 189
>TIGR02190 GlrX-dom Glutaredoxin-family domain. This C-terminal domain with homology to glutaredoxin is fused to an N-terminal peroxiredoxin-like domain.
Probab=29.13 E-value=51 Score=25.69 Aligned_cols=58 Identities=17% Similarity=0.326 Sum_probs=34.7
Q ss_pred cceEEEEecCCCCHHHHHHHHHH-cCCeEEEEeccCCCcceeeecCCCCCceEEEEEEec
Q 013394 76 SSAFVLTIRGGCSFEDKVRNAQK-AGFEAAIVYDNEDDGVLVAMAGNSAGIKIHAVFVSK 134 (444)
Q Consensus 76 ~~~ivLV~RG~CsF~~Kv~~Aq~-aGA~avII~n~~~~~~~~~~~g~~~~i~Ip~v~Is~ 134 (444)
+++|.|.-+-+|.+=.|++..-+ .|..... .|-+.+.....+........+|++++..
T Consensus 7 ~~~V~ly~~~~Cp~C~~ak~~L~~~gi~y~~-idi~~~~~~~~~~~~~g~~~vP~i~i~g 65 (79)
T TIGR02190 7 PESVVVFTKPGCPFCAKAKATLKEKGYDFEE-IPLGNDARGRSLRAVTGATTVPQVFIGG 65 (79)
T ss_pred CCCEEEEECCCCHhHHHHHHHHHHcCCCcEE-EECCCChHHHHHHHHHCCCCcCeEEECC
Confidence 57799999999999999998875 4655444 3322221111111111235789988754
No 190
>PF15050 SCIMP: SCIMP protein
Probab=28.37 E-value=49 Score=28.70 Aligned_cols=18 Identities=22% Similarity=0.458 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHhhhh
Q 013394 167 ISFISLLAMSAVLATCFF 184 (444)
Q Consensus 167 IsfI~ll~l~~vl~~~~~ 184 (444)
|+-+.++++.++++++++
T Consensus 11 iLAVaII~vS~~lglIly 28 (133)
T PF15050_consen 11 ILAVAIILVSVVLGLILY 28 (133)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444444444444433
No 191
>PF08194 DIM: DIM protein; InterPro: IPR013172 Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila []. This entry includes DIMs 1 to 4 and DIM23.
Probab=28.03 E-value=57 Score=22.28 Aligned_cols=10 Identities=30% Similarity=0.574 Sum_probs=6.1
Q ss_pred ccceEEEEEe
Q 013394 17 LASANVVLIG 26 (444)
Q Consensus 17 ~~~a~v~~~~ 26 (444)
+..++|++.+
T Consensus 21 ~~pG~ViING 30 (36)
T PF08194_consen 21 ATPGNVIING 30 (36)
T ss_pred CCCCeEEECc
Confidence 3467777654
No 192
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.61 E-value=73 Score=32.04 Aligned_cols=49 Identities=24% Similarity=0.573 Sum_probs=38.6
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCC
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTS 280 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~ 280 (444)
.+.|-||...+...++. =-|.|.|+..|...|....+. ||.||..+.+.
T Consensus 105 ~~~~~~~~g~l~vpt~~--qg~w~qf~~~~p~~~~~~~~~-~~d~~~~~~pv 153 (324)
T KOG0824|consen 105 HDICYICYGKLTVPTRI--QGCWHQFCYVCPKSNFAMGND-CPDCRGKISPV 153 (324)
T ss_pred ccceeeeeeeEEecccc--cCceeeeeecCCchhhhhhhc-cchhhcCcCce
Confidence 47899999888766422 239999999999999998766 99998865443
No 193
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.40 E-value=50 Score=27.48 Aligned_cols=35 Identities=17% Similarity=0.328 Sum_probs=29.5
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhc
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTS 265 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~ 265 (444)
..|.||-+....|++..-.+ +-..|.+|+..=...
T Consensus 7 wkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~~ 41 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKRK 41 (103)
T ss_pred eeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHhc
Confidence 68999999999999988888 777899998775443
No 194
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=27.21 E-value=35 Score=23.09 Aligned_cols=25 Identities=36% Similarity=0.780 Sum_probs=16.3
Q ss_pred cccccccccccCc--------eeEEeccCCeec
Q 013394 231 TCAICLEDYSVGE--------KLRILPCRHKFH 255 (444)
Q Consensus 231 ~C~ICle~~~~~~--------~~~~lpC~H~FH 255 (444)
+|+-|...|..++ +++.-.|+|+|.
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 5888888876654 334444788875
No 195
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=26.88 E-value=43 Score=25.44 Aligned_cols=19 Identities=32% Similarity=1.041 Sum_probs=12.7
Q ss_pred CCCCCccccCCcCCCCCCC
Q 013394 267 RTFCPVCKRDARTSTGEPP 285 (444)
Q Consensus 267 ~~~CP~CR~~i~~~~~~~~ 285 (444)
+..||+|+..+.....+++
T Consensus 2 k~~CPlCkt~~n~gsk~~p 20 (61)
T PF05715_consen 2 KSLCPLCKTTLNVGSKDPP 20 (61)
T ss_pred CccCCcccchhhcCCCCCC
Confidence 3459999988765554444
No 196
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=26.62 E-value=22 Score=36.19 Aligned_cols=47 Identities=23% Similarity=0.542 Sum_probs=25.6
Q ss_pred CccccccccccccCceeEEec---cCCee--------cHhHHHHHH----hcCCCCCCccccC
Q 013394 229 SRTCAICLEDYSVGEKLRILP---CRHKF--------HAFCVDSWL----TSWRTFCPVCKRD 276 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lp---C~H~F--------H~~Ci~~Wl----~~~~~~CP~CR~~ 276 (444)
+..|++|-+..+-=. -..|. |+-.| |..|++.-- +..+.+||.||-.
T Consensus 15 ~ElCPVCGDkVSGYH-YGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 15 GELCPVCGDKVSGYH-YGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred ccccccccCccccce-eeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 578999987754322 23444 55545 233543321 1124469999863
No 197
>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=26.57 E-value=38 Score=26.24 Aligned_cols=12 Identities=25% Similarity=0.836 Sum_probs=8.9
Q ss_pred ecHhHHHHHHhc
Q 013394 254 FHAFCVDSWLTS 265 (444)
Q Consensus 254 FH~~Ci~~Wl~~ 265 (444)
||..|+.+|+..
T Consensus 12 FCRNCLskWy~~ 23 (68)
T PF06844_consen 12 FCRNCLSKWYRE 23 (68)
T ss_dssp --HHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 999999999864
No 198
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=26.52 E-value=43 Score=33.74 Aligned_cols=22 Identities=18% Similarity=0.434 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHhhhhcccc
Q 013394 167 ISFISLLAMSAVLATCFFVRRH 188 (444)
Q Consensus 167 IsfI~ll~l~~vl~~~~~~~~~ 188 (444)
.+++.++++++|+++++++.|+
T Consensus 260 aSiiaIliIVLIMvIIYLILRY 281 (299)
T PF02009_consen 260 ASIIAILIIVLIMVIIYLILRY 281 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444443
No 199
>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=26.24 E-value=28 Score=25.47 Aligned_cols=37 Identities=35% Similarity=0.749 Sum_probs=20.4
Q ss_pred CccccccccccccCceeEEeccCCeecHhHHHHHHh-cCCCCCCcccc
Q 013394 229 SRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLT-SWRTFCPVCKR 275 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~-~~~~~CP~CR~ 275 (444)
...|+.|-++|...+ | +.| |.+.-.. .+...||+|..
T Consensus 2 ~f~CP~C~~~~~~~~----L-~~H-----~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGKGFSESS----L-VEH-----CEDEHRSESKNVVCPICSS 39 (54)
T ss_pred CcCCCCCCCccCHHH----H-HHH-----HHhHCcCCCCCccCCCchh
Confidence 478999998665431 1 233 2222221 12345999965
No 200
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=26.13 E-value=70 Score=25.69 Aligned_cols=59 Identities=20% Similarity=0.346 Sum_probs=33.5
Q ss_pred cceEEEEecC-----CCCHHHHHHHHHH-cCCeEEEEeccCCCccee-eecCCCCCceEEEEEEecc
Q 013394 76 SSAFVLTIRG-----GCSFEDKVRNAQK-AGFEAAIVYDNEDDGVLV-AMAGNSAGIKIHAVFVSKA 135 (444)
Q Consensus 76 ~~~ivLV~RG-----~CsF~~Kv~~Aq~-aGA~avII~n~~~~~~~~-~~~g~~~~i~Ip~v~Is~~ 135 (444)
.++|++...| .|.|-.|++..-+ .|...- .+|..++.... .+.......++|.+||...
T Consensus 7 ~~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~-~idv~~~~~~~~~l~~~~g~~tvP~vfi~g~ 72 (90)
T cd03028 7 ENPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFG-TFDILEDEEVRQGLKEYSNWPTFPQLYVNGE 72 (90)
T ss_pred cCCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeE-EEEcCCCHHHHHHHHHHhCCCCCCEEEECCE
Confidence 3678887765 8999999888764 565433 34433221111 1111112346899998754
No 201
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=26.03 E-value=90 Score=26.13 Aligned_cols=34 Identities=29% Similarity=0.529 Sum_probs=20.0
Q ss_pred ccccccchhhHHHHHHHHHHHHHHHHhhhhcccc
Q 013394 155 PSFENSAWSIMAISFISLLAMSAVLATCFFVRRH 188 (444)
Q Consensus 155 P~~~~s~~~i~~IsfI~ll~l~~vl~~~~~~~~~ 188 (444)
|.-....|.|++|.++.+++...+++..+|+.|+
T Consensus 11 PsGsL~PWeIfLItLasVvvavGl~aGLfFcvR~ 44 (106)
T PF14654_consen 11 PSGSLKPWEIFLITLASVVVAVGLFAGLFFCVRN 44 (106)
T ss_pred cCCCccchHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4444456888888777666655555544444443
No 202
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=25.92 E-value=62 Score=27.07 Aligned_cols=10 Identities=30% Similarity=0.650 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 013394 165 MAISFISLLA 174 (444)
Q Consensus 165 ~~IsfI~ll~ 174 (444)
.+++|+++++
T Consensus 67 ~lls~v~IlV 76 (101)
T PF06024_consen 67 SLLSFVCILV 76 (101)
T ss_pred HHHHHHHHHH
Confidence 3444444333
No 203
>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=25.65 E-value=19 Score=26.38 Aligned_cols=11 Identities=36% Similarity=0.996 Sum_probs=4.9
Q ss_pred CCCccccCCcC
Q 013394 269 FCPVCKRDART 279 (444)
Q Consensus 269 ~CP~CR~~i~~ 279 (444)
.||+|.+++.+
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 58888877653
No 204
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=25.63 E-value=84 Score=31.99 Aligned_cols=46 Identities=28% Similarity=0.751 Sum_probs=30.7
Q ss_pred ccccccccccccCceeEEec--cCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 230 RTCAICLEDYSVGEKLRILP--CRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lp--C~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
..|+||-+.....+ .-.+| |+|..|..|...-... ...||.||.+.
T Consensus 250 ~s~p~~~~~~~~~d-~~~lP~~~~~~~~l~~~~t~~~~-~~~~~~~rk~~ 297 (327)
T KOG2068|consen 250 PSCPICYEDLDLTD-SNFLPCPCGFRLCLFCHKTISDG-DGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCcccccc-cccccccccccchhhhhhccccc-CCCCCccCCcc
Confidence 78999999874433 23455 6666666666555544 55699999544
No 205
>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=25.31 E-value=8.2 Score=30.30 Aligned_cols=40 Identities=23% Similarity=0.580 Sum_probs=19.5
Q ss_pred ccccccccccccCceeEEeccCCeecHhHHHHHHhcCCCCCCccccCCc
Q 013394 230 RTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDAR 278 (444)
Q Consensus 230 ~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~ 278 (444)
..|+.|..++.... +|.++..|-..... ...||-|.+++.
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~~~~--~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKDYKK--EAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--EEEE--EEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC-------CEEECcccccccee--cccCCCcccHHH
Confidence 46888887765432 56666667554322 345899877664
No 206
>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=25.19 E-value=43 Score=22.00 Aligned_cols=7 Identities=57% Similarity=1.540 Sum_probs=5.6
Q ss_pred CCCcccc
Q 013394 269 FCPVCKR 275 (444)
Q Consensus 269 ~CP~CR~ 275 (444)
.||+|..
T Consensus 19 ~CP~Cg~ 25 (33)
T cd00350 19 VCPVCGA 25 (33)
T ss_pred cCcCCCC
Confidence 5999965
No 207
>PLN02248 cellulose synthase-like protein
Probab=24.79 E-value=1.2e+02 Score=36.02 Aligned_cols=51 Identities=25% Similarity=0.479 Sum_probs=33.4
Q ss_pred CCccccc--ccccccc-CceeEEec--cCCeecHhHHHHHHhcCCCCCCccccCCcC
Q 013394 228 TSRTCAI--CLEDYSV-GEKLRILP--CRHKFHAFCVDSWLTSWRTFCPVCKRDART 279 (444)
Q Consensus 228 ~~~~C~I--Cle~~~~-~~~~~~lp--C~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~ 279 (444)
....|.+ |-..-.. +....++| |++..|.+|...-++.. ..||-||.+...
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 178 (1135)
T PLN02248 123 KGSSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDAVKSG-GICPGCKEPYKV 178 (1135)
T ss_pred CCCcccccCcccccccccccccCCcccccchhHHhHhhhhhhcC-CCCCCCcccccc
Confidence 3466766 4333221 12234667 67778999999988884 459999988744
No 208
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=24.30 E-value=2.2e+02 Score=32.61 Aligned_cols=21 Identities=24% Similarity=0.136 Sum_probs=15.1
Q ss_pred CceEEEEEEeccccchhhhhc
Q 013394 124 GIKIHAVFVSKASGEKLKQYA 144 (444)
Q Consensus 124 ~i~Ip~v~Is~~~G~~L~~~l 144 (444)
+-.||+-....+.|..+++-+
T Consensus 206 gd~IPAW~FD~ktG~Wv~~G~ 226 (807)
T PF10577_consen 206 GDSIPAWRFDEKTGAWVKSGL 226 (807)
T ss_pred CCeeeeeEecCCcceeEecce
Confidence 557888888888887766533
No 209
>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=24.07 E-value=48 Score=24.01 Aligned_cols=35 Identities=14% Similarity=0.437 Sum_probs=24.9
Q ss_pred ccccccccccccCc-eeEEeccCCeecHhHHHHHHh
Q 013394 230 RTCAICLEDYSVGE-KLRILPCRHKFHAFCVDSWLT 264 (444)
Q Consensus 230 ~~C~ICle~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~ 264 (444)
..|.+|-..|..-. +...-.||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 57999998887643 223334999999999776543
No 210
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=23.54 E-value=85 Score=36.85 Aligned_cols=56 Identities=20% Similarity=0.472 Sum_probs=38.8
Q ss_pred CCcccccccccccc---Cce-eEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCC
Q 013394 228 TSRTCAICLEDYSV---GEK-LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE 283 (444)
Q Consensus 228 ~~~~C~ICle~~~~---~~~-~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~ 283 (444)
....|.||-|+... ||. +.+-.|+--.|..|.+-=.+..+..||.|+......++.
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~~~~~ 73 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKRHKGC 73 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhcCC
Confidence 45789999998754 332 233337777999999765666666799999877654443
No 211
>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=23.09 E-value=16 Score=36.35 Aligned_cols=45 Identities=24% Similarity=0.437 Sum_probs=19.2
Q ss_pred CccccccccccccCceeEEe---ccCCeecHhHHHHHHhcCCCCCCcccc
Q 013394 229 SRTCAICLEDYSVGEKLRIL---PCRHKFHAFCVDSWLTSWRTFCPVCKR 275 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~l---pC~H~FH~~Ci~~Wl~~~~~~CP~CR~ 275 (444)
...|+||-..-.... ++.- -=.|.+|.-|=..|-.. +..||.|-.
T Consensus 172 ~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~-R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFV-RIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEE-EE------EEEEEETTT--EEE---TTS-TTT--
T ss_pred CCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeec-CCCCcCCCC
Confidence 479999987643321 1111 02456777888888666 445999944
No 212
>KOG0193 consensus Serine/threonine protein kinase RAF [Signal transduction mechanisms]
Probab=22.94 E-value=1.4e+02 Score=33.13 Aligned_cols=23 Identities=35% Similarity=0.652 Sum_probs=15.5
Q ss_pred ccccccccCceeEEeccCCeecHhH
Q 013394 234 ICLEDYSVGEKLRILPCRHKFHAFC 258 (444)
Q Consensus 234 ICle~~~~~~~~~~lpC~H~FH~~C 258 (444)
.|..-+..+ .++-.|+-.||..|
T Consensus 195 ~~~~~l~~g--frC~~C~~KfHq~C 217 (678)
T KOG0193|consen 195 CCNKFLFTG--FRCQTCGYKFHQSC 217 (678)
T ss_pred hcchhhhcc--cccCCCCCcccccc
Confidence 344444444 45667999999999
No 213
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=21.98 E-value=51 Score=27.41 Aligned_cols=10 Identities=30% Similarity=0.421 Sum_probs=4.5
Q ss_pred HHHHHhcccc
Q 013394 10 CVLLICRLAS 19 (444)
Q Consensus 10 ~l~~~~~~~~ 19 (444)
+|||++..++
T Consensus 15 ~lLlisSeva 24 (95)
T PF07172_consen 15 ALLLISSEVA 24 (95)
T ss_pred HHHHHHhhhh
Confidence 4455544333
No 214
>PRK00523 hypothetical protein; Provisional
Probab=21.96 E-value=92 Score=24.63 Aligned_cols=21 Identities=14% Similarity=0.156 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHhhhhcc
Q 013394 166 AISFISLLAMSAVLATCFFVR 186 (444)
Q Consensus 166 ~IsfI~ll~l~~vl~~~~~~~ 186 (444)
+|.++++.+++.+++.+|+.+
T Consensus 7 ~I~l~i~~li~G~~~Gffiar 27 (72)
T PRK00523 7 ALGLGIPLLIVGGIIGYFVSK 27 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333334444433
No 215
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=21.81 E-value=91 Score=36.74 Aligned_cols=56 Identities=21% Similarity=0.439 Sum_probs=37.6
Q ss_pred CccccccccccccC---ce-eEEeccCCeecHhHHHHHHhcCCCCCCccccCCcCCCCCC
Q 013394 229 SRTCAICLEDYSVG---EK-LRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGEP 284 (444)
Q Consensus 229 ~~~C~ICle~~~~~---~~-~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~~ 284 (444)
...|.||-|+.... |. +.+-.|+--.|..|.+-=-+..+..||.||......++.|
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~kgsp 76 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRHKGSP 76 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhcCCC
Confidence 46899999987543 32 2333377779999986544555566999998776554443
No 216
>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 PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=21.57 E-value=1.1e+02 Score=26.78 Aligned_cols=17 Identities=12% Similarity=0.636 Sum_probs=10.9
Q ss_pred eeeeccccccchhhHHH
Q 013394 151 IWIIPSFENSAWSIMAI 167 (444)
Q Consensus 151 v~I~P~~~~s~~~i~~I 167 (444)
+|.+..-+...|.+-++
T Consensus 24 lW~fR~ED~tpWNysiL 40 (125)
T PF15048_consen 24 LWFFRVEDATPWNYSIL 40 (125)
T ss_pred HHheecCCCCCcchHHH
Confidence 57776667777765443
No 218
>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=21.42 E-value=56 Score=27.99 Aligned_cols=47 Identities=21% Similarity=0.458 Sum_probs=29.0
Q ss_pred CCcccccccccccc--CceeEEeccCCeecHhHHHHHHh-cCCCCCCcccc
Q 013394 228 TSRTCAICLEDYSV--GEKLRILPCRHKFHAFCVDSWLT-SWRTFCPVCKR 275 (444)
Q Consensus 228 ~~~~C~ICle~~~~--~~~~~~lpC~H~FH~~Ci~~Wl~-~~~~~CP~CR~ 275 (444)
++..|.+|...|.. +.......|+|.+|..|-.. .. ...-.|-+|.+
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 45799999998744 33566667999999999544 11 11113777754
No 219
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=21.37 E-value=55 Score=24.74 Aligned_cols=6 Identities=0% Similarity=0.268 Sum_probs=2.4
Q ss_pred ceeeee
Q 013394 149 MEIWII 154 (444)
Q Consensus 149 v~v~I~ 154 (444)
+.+.+.
T Consensus 7 V~v~~~ 12 (68)
T PF06305_consen 7 VTVNFL 12 (68)
T ss_pred EEEEEE
Confidence 334433
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=21.05 E-value=46 Score=30.21 Aligned_cols=48 Identities=29% Similarity=0.505 Sum_probs=32.8
Q ss_pred ccccccccccCceeEEec-cCCeecHhHHHHHHhcCCCCCCccccCCcCCCCC
Q 013394 232 CAICLEDYSVGEKLRILP-CRHKFHAFCVDSWLTSWRTFCPVCKRDARTSTGE 283 (444)
Q Consensus 232 C~ICle~~~~~~~~~~lp-C~H~FH~~Ci~~Wl~~~~~~CP~CR~~i~~~~~~ 283 (444)
=.||+..-...+....-| =.+.||.+|=.+-... ||.|..+|...-..
T Consensus 7 aqiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~~----Cp~C~~~IrG~y~v 55 (158)
T PF10083_consen 7 AQICLNGHVITDSYDKNPELREKFCSKCGAKTITS----CPNCSTPIRGDYHV 55 (158)
T ss_pred HHHccCccccccccccCchHHHHHHHHhhHHHHHH----CcCCCCCCCCceec
Confidence 357776655544444443 3567999999888776 99999988765433
No 221
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=21.03 E-value=49 Score=36.62 Aligned_cols=47 Identities=32% Similarity=0.759 Sum_probs=28.4
Q ss_pred CccccccccccccCceeEEec---cCCeecHhHHHHHHhcC----CCCCCccccC
Q 013394 229 SRTCAICLEDYSVGEKLRILP---CRHKFHAFCVDSWLTSW----RTFCPVCKRD 276 (444)
Q Consensus 229 ~~~C~ICle~~~~~~~~~~lp---C~H~FH~~Ci~~Wl~~~----~~~CP~CR~~ 276 (444)
...|.+|-. +..+..-+.+- |+-.||..|+..|+... -..||-||.-
T Consensus 18 ~~mc~l~~s-~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvC 71 (694)
T KOG4443|consen 18 CLMCPLCGS-SGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVC 71 (694)
T ss_pred hhhhhhhcc-ccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceee
Confidence 356677643 22222222333 78889999999998742 2348877663
No 222
>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=20.96 E-value=1.1e+02 Score=23.03 Aligned_cols=45 Identities=24% Similarity=0.541 Sum_probs=28.3
Q ss_pred ccccccccccccCc-eeEEeccCCeecHhHHHHHHhcCCCCCCccccCC
Q 013394 230 RTCAICLEDYSVGE-KLRILPCRHKFHAFCVDSWLTSWRTFCPVCKRDA 277 (444)
Q Consensus 230 ~~C~ICle~~~~~~-~~~~lpC~H~FH~~Ci~~Wl~~~~~~CP~CR~~i 277 (444)
..|-.|-.++..+. +.++-.=...|+.+|.+.-|.. .||.|--.+
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~---~CPNCgGel 51 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNG---VCPNCGGEL 51 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcC---cCcCCCCcc
Confidence 35666777765543 2222111346999999998743 499996544
No 223
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=20.31 E-value=32 Score=41.83 Aligned_cols=50 Identities=26% Similarity=0.602 Sum_probs=38.2
Q ss_pred CCccccccccccccCceeEEeccCCeecHhHHHHHHhcC---CCCCCccccCC
Q 013394 228 TSRTCAICLEDYSVGEKLRILPCRHKFHAFCVDSWLTSW---RTFCPVCKRDA 277 (444)
Q Consensus 228 ~~~~C~ICle~~~~~~~~~~lpC~H~FH~~Ci~~Wl~~~---~~~CP~CR~~i 277 (444)
....|.||+......+.+...-|.-.||..|+++-+..- ...||-||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 457899999987776555555577889999999988752 34699997754
Done!