Query 025541
Match_columns 251
No_of_seqs 242 out of 2145
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 06:53:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025541.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025541hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.8 9.1E-19 2E-23 154.7 11.0 76 78-154 205-282 (348)
2 COG5243 HRD1 HRD ubiquitin lig 99.6 1.7E-15 3.6E-20 132.9 9.3 72 80-153 267-348 (491)
3 PF13639 zf-RING_2: Ring finge 99.6 7.3E-16 1.6E-20 97.7 2.1 44 102-146 1-44 (44)
4 PF12678 zf-rbx1: RING-H2 zinc 99.4 3.2E-13 6.9E-18 94.9 3.6 48 98-146 16-73 (73)
5 PHA02929 N1R/p28-like protein; 99.4 4.1E-13 8.8E-18 114.1 4.8 76 76-151 146-228 (238)
6 COG5540 RING-finger-containing 99.3 1.3E-12 2.7E-17 112.2 3.7 52 100-152 322-374 (374)
7 KOG0317 Predicted E3 ubiquitin 99.1 9.5E-11 2.1E-15 100.4 5.0 50 100-153 238-287 (293)
8 PF12861 zf-Apc11: Anaphase-pr 99.1 6.2E-11 1.4E-15 84.3 2.8 51 101-151 21-83 (85)
9 KOG0802 E3 ubiquitin ligase [P 99.1 6.2E-11 1.3E-15 113.1 3.6 53 98-151 288-342 (543)
10 cd00162 RING RING-finger (Real 99.0 1.7E-10 3.8E-15 72.2 3.5 44 103-149 1-45 (45)
11 PF13923 zf-C3HC4_2: Zinc fing 99.0 1.5E-10 3.2E-15 71.3 2.9 39 104-145 1-39 (39)
12 PF13920 zf-C3HC4_3: Zinc fing 99.0 1.5E-10 3.4E-15 75.1 3.1 46 101-150 2-48 (50)
13 PLN03208 E3 ubiquitin-protein 99.0 2.5E-10 5.5E-15 93.5 4.1 49 100-152 17-81 (193)
14 KOG0320 Predicted E3 ubiquitin 99.0 2.5E-10 5.3E-15 91.4 2.9 51 99-151 129-179 (187)
15 PHA02926 zinc finger-like prot 99.0 3.4E-10 7.5E-15 93.8 3.2 52 100-151 169-231 (242)
16 KOG0823 Predicted E3 ubiquitin 98.9 4.9E-10 1.1E-14 93.5 3.2 52 98-153 44-98 (230)
17 COG5194 APC11 Component of SCF 98.9 6.4E-10 1.4E-14 77.1 2.3 51 102-152 21-83 (88)
18 PF14634 zf-RING_5: zinc-RING 98.9 1.9E-09 4E-14 68.1 3.2 44 103-147 1-44 (44)
19 PF00097 zf-C3HC4: Zinc finger 98.8 1.7E-09 3.6E-14 67.2 2.4 39 104-145 1-41 (41)
20 PF15227 zf-C3HC4_4: zinc fing 98.8 4.5E-09 9.8E-14 65.6 2.6 38 104-145 1-42 (42)
21 smart00184 RING Ring finger. E 98.8 6.2E-09 1.3E-13 62.8 3.0 38 104-145 1-39 (39)
22 smart00504 Ubox Modified RING 98.8 1E-08 2.2E-13 69.5 4.4 46 102-151 2-47 (63)
23 KOG1493 Anaphase-promoting com 98.7 3.3E-09 7.1E-14 73.0 0.4 51 100-150 19-81 (84)
24 KOG2930 SCF ubiquitin ligase, 98.6 1.1E-08 2.4E-13 74.5 1.9 53 99-151 44-109 (114)
25 COG5574 PEX10 RING-finger-cont 98.6 1.9E-08 4.2E-13 85.4 2.3 51 99-153 213-265 (271)
26 TIGR00599 rad18 DNA repair pro 98.6 3.7E-08 8.1E-13 89.7 4.3 49 100-152 25-73 (397)
27 KOG0828 Predicted E3 ubiquitin 98.6 5.9E-08 1.3E-12 88.6 5.5 50 101-151 571-635 (636)
28 KOG1734 Predicted RING-contain 98.5 1.6E-08 3.4E-13 86.0 0.2 54 99-153 222-284 (328)
29 PF13445 zf-RING_UBOX: RING-ty 98.5 1.3E-07 2.9E-12 59.1 2.8 38 104-143 1-43 (43)
30 KOG2164 Predicted E3 ubiquitin 98.4 1.2E-07 2.6E-12 87.3 2.4 49 101-153 186-239 (513)
31 smart00744 RINGv The RING-vari 98.4 3E-07 6.4E-12 59.3 2.9 42 103-146 1-49 (49)
32 TIGR00570 cdk7 CDK-activating 98.3 6.8E-07 1.5E-11 78.5 4.4 53 101-154 3-58 (309)
33 KOG0287 Postreplication repair 98.2 4.5E-07 9.7E-12 79.5 1.9 52 102-157 24-75 (442)
34 PF11793 FANCL_C: FANCL C-term 98.2 2.5E-07 5.4E-12 64.3 0.1 50 101-150 2-66 (70)
35 COG5432 RAD18 RING-finger-cont 98.2 8.1E-07 1.7E-11 76.4 2.4 47 102-152 26-72 (391)
36 PF04564 U-box: U-box domain; 98.2 1.3E-06 2.7E-11 61.3 2.6 49 101-153 4-53 (73)
37 COG5219 Uncharacterized conser 98.1 9.3E-07 2E-11 86.3 1.7 52 99-150 1467-1523(1525)
38 KOG2177 Predicted E3 ubiquitin 98.0 1.7E-06 3.7E-11 75.2 1.8 44 100-147 12-55 (386)
39 KOG0804 Cytoplasmic Zn-finger 98.0 2.4E-06 5.2E-11 77.6 1.2 48 100-150 174-222 (493)
40 KOG0827 Predicted E3 ubiquitin 98.0 3.2E-06 7E-11 75.4 1.8 48 102-149 5-55 (465)
41 KOG0311 Predicted E3 ubiquitin 97.9 2.3E-06 5E-11 75.6 -0.7 56 98-156 40-96 (381)
42 KOG1039 Predicted E3 ubiquitin 97.8 7.8E-06 1.7E-10 73.3 2.3 54 99-152 159-223 (344)
43 PF14835 zf-RING_6: zf-RING of 97.8 5.1E-06 1.1E-10 55.9 0.4 48 102-154 8-55 (65)
44 KOG0978 E3 ubiquitin ligase in 97.7 9.6E-06 2.1E-10 78.2 1.0 48 102-153 644-692 (698)
45 KOG0825 PHD Zn-finger protein 97.7 7E-06 1.5E-10 78.9 -0.0 52 101-153 123-174 (1134)
46 KOG3970 Predicted E3 ubiquitin 97.7 0.00015 3.2E-09 60.6 7.5 76 101-178 50-133 (299)
47 KOG1645 RING-finger-containing 97.7 2.2E-05 4.8E-10 70.6 2.8 49 101-149 4-55 (463)
48 KOG4265 Predicted E3 ubiquitin 97.7 2.5E-05 5.4E-10 69.4 2.8 48 100-151 289-337 (349)
49 KOG4172 Predicted E3 ubiquitin 97.7 1.3E-05 2.8E-10 51.8 0.6 46 101-150 7-54 (62)
50 KOG0824 Predicted E3 ubiquitin 97.6 2.6E-05 5.7E-10 67.7 1.9 48 101-152 7-55 (324)
51 KOG4445 Uncharacterized conser 97.4 4.8E-05 1E-09 65.9 1.3 53 99-152 113-188 (368)
52 KOG2879 Predicted E3 ubiquitin 97.3 0.00043 9.3E-09 59.5 5.3 51 97-150 235-287 (298)
53 PF11789 zf-Nse: Zinc-finger o 97.3 9.7E-05 2.1E-09 49.1 0.8 42 100-144 10-53 (57)
54 KOG1941 Acetylcholine receptor 97.2 0.0001 2.2E-09 66.1 0.8 46 101-147 365-413 (518)
55 KOG1785 Tyrosine kinase negati 97.2 0.00013 2.8E-09 65.6 1.2 47 103-153 371-419 (563)
56 KOG0297 TNF receptor-associate 97.2 0.00021 4.5E-09 65.8 2.4 54 100-156 20-73 (391)
57 KOG4159 Predicted E3 ubiquitin 97.1 0.00025 5.5E-09 64.9 2.2 49 99-151 82-130 (398)
58 KOG1428 Inhibitor of type V ad 97.1 0.00033 7.2E-09 71.6 2.9 65 85-150 3468-3544(3738)
59 PF05883 Baculo_RING: Baculovi 97.0 0.00028 6.1E-09 54.6 1.0 36 101-137 26-67 (134)
60 KOG0826 Predicted E3 ubiquitin 96.9 0.002 4.4E-08 56.7 5.7 48 99-149 298-345 (357)
61 PF12906 RINGv: RING-variant d 96.9 0.00082 1.8E-08 42.8 2.3 40 104-145 1-47 (47)
62 KOG0801 Predicted E3 ubiquitin 96.9 0.00035 7.6E-09 55.5 0.7 40 89-129 164-204 (205)
63 KOG2660 Locus-specific chromos 96.8 0.00026 5.6E-09 62.4 -0.5 50 101-153 15-64 (331)
64 PHA02862 5L protein; Provision 96.7 0.0012 2.5E-08 51.6 2.6 47 101-152 2-55 (156)
65 KOG3039 Uncharacterized conser 96.7 0.0016 3.5E-08 55.2 3.4 54 100-153 220-273 (303)
66 COG5222 Uncharacterized conser 96.7 0.0043 9.4E-08 54.1 6.0 50 101-153 274-325 (427)
67 PHA02825 LAP/PHD finger-like p 96.6 0.0023 5E-08 50.9 3.3 50 98-152 5-61 (162)
68 KOG1002 Nucleotide excision re 96.5 0.0011 2.3E-08 61.8 1.6 50 99-152 534-588 (791)
69 PF14570 zf-RING_4: RING/Ubox 96.5 0.002 4.3E-08 41.0 2.4 45 104-149 1-47 (48)
70 PF10367 Vps39_2: Vacuolar sor 96.5 0.00092 2E-08 49.8 1.0 32 100-133 77-108 (109)
71 KOG1814 Predicted E3 ubiquitin 96.4 0.0014 3E-08 59.4 1.6 37 100-137 183-219 (445)
72 KOG4692 Predicted E3 ubiquitin 96.3 0.0027 5.9E-08 56.5 2.7 50 98-151 419-468 (489)
73 KOG1952 Transcription factor N 96.3 0.0016 3.4E-08 63.9 1.1 50 98-147 188-244 (950)
74 COG5152 Uncharacterized conser 96.2 0.0026 5.7E-08 52.2 1.9 47 101-151 196-242 (259)
75 PHA03096 p28-like protein; Pro 96.1 0.003 6.4E-08 55.6 1.8 48 102-149 179-236 (284)
76 PF04641 Rtf2: Rtf2 RING-finge 96.0 0.0064 1.4E-07 52.9 3.7 56 98-154 110-165 (260)
77 COG5175 MOT2 Transcriptional r 95.9 0.0057 1.2E-07 54.2 2.6 57 100-156 13-70 (480)
78 COG5236 Uncharacterized conser 95.8 0.0093 2E-07 53.0 3.6 53 94-150 54-108 (493)
79 KOG2114 Vacuolar assembly/sort 95.7 0.0042 9.1E-08 61.0 1.1 42 102-149 841-882 (933)
80 KOG1813 Predicted E3 ubiquitin 95.6 0.0059 1.3E-07 53.2 1.7 47 101-151 241-287 (313)
81 KOG4739 Uncharacterized protei 95.4 0.0064 1.4E-07 51.6 1.2 44 103-150 5-48 (233)
82 KOG4275 Predicted E3 ubiquitin 95.3 0.0032 6.9E-08 54.7 -1.0 43 101-151 300-343 (350)
83 PF08746 zf-RING-like: RING-li 95.3 0.01 2.2E-07 37.0 1.4 41 104-145 1-43 (43)
84 KOG3268 Predicted E3 ubiquitin 95.0 0.016 3.5E-07 46.9 2.2 30 122-151 189-229 (234)
85 PF10272 Tmpp129: Putative tra 94.9 0.016 3.5E-07 52.5 2.3 29 123-151 311-352 (358)
86 KOG1571 Predicted E3 ubiquitin 94.9 0.014 2.9E-07 52.3 1.7 44 101-151 305-348 (355)
87 KOG0827 Predicted E3 ubiquitin 94.8 0.002 4.3E-08 58.0 -3.6 51 101-152 196-247 (465)
88 PF14447 Prok-RING_4: Prokaryo 94.8 0.019 4.1E-07 37.5 1.8 46 102-153 8-53 (55)
89 KOG2932 E3 ubiquitin ligase in 94.5 0.016 3.5E-07 50.9 1.2 43 103-150 92-134 (389)
90 KOG4185 Predicted E3 ubiquitin 94.3 0.029 6.2E-07 49.6 2.3 47 102-149 4-54 (296)
91 PF14446 Prok-RING_1: Prokaryo 94.1 0.065 1.4E-06 35.0 3.1 35 100-134 4-38 (54)
92 KOG2034 Vacuolar sorting prote 93.5 0.033 7.2E-07 55.2 1.4 36 100-137 816-851 (911)
93 KOG1001 Helicase-like transcri 93.5 0.029 6.3E-07 55.1 0.9 47 102-153 455-503 (674)
94 KOG1940 Zn-finger protein [Gen 93.4 0.046 1E-06 47.7 2.0 45 102-147 159-204 (276)
95 KOG0309 Conserved WD40 repeat- 93.2 0.049 1.1E-06 53.1 2.0 40 103-144 1030-1069(1081)
96 KOG3161 Predicted E3 ubiquitin 93.2 0.028 6.1E-07 53.8 0.3 43 102-147 12-54 (861)
97 KOG0298 DEAD box-containing he 92.9 0.034 7.3E-07 57.1 0.4 45 101-148 1153-1197(1394)
98 PF03854 zf-P11: P-11 zinc fin 92.6 0.06 1.3E-06 34.0 1.1 29 123-151 18-47 (50)
99 PF07800 DUF1644: Protein of u 92.3 0.16 3.5E-06 40.5 3.4 37 101-137 2-47 (162)
100 KOG2817 Predicted E3 ubiquitin 91.8 0.13 2.7E-06 46.9 2.6 45 100-145 333-380 (394)
101 KOG3899 Uncharacterized conser 91.0 0.12 2.5E-06 45.2 1.5 29 123-151 325-366 (381)
102 COG5220 TFB3 Cdk activating ki 90.6 0.08 1.7E-06 44.9 0.2 49 100-148 9-62 (314)
103 KOG3002 Zn finger protein [Gen 90.1 0.19 4.2E-06 44.6 2.1 43 100-150 47-91 (299)
104 COG5183 SSM4 Protein involved 89.6 0.24 5.1E-06 49.0 2.4 52 100-153 11-69 (1175)
105 KOG3800 Predicted E3 ubiquitin 89.3 0.41 8.9E-06 41.8 3.4 52 103-154 2-55 (300)
106 PF01102 Glycophorin_A: Glycop 89.1 0.67 1.5E-05 35.6 4.2 19 35-53 74-92 (122)
107 KOG3113 Uncharacterized conser 88.3 0.5 1.1E-05 40.6 3.2 58 100-159 110-167 (293)
108 PF05290 Baculo_IE-1: Baculovi 88.3 0.45 9.7E-06 36.9 2.7 54 100-153 79-135 (140)
109 KOG1609 Protein involved in mR 88.1 0.31 6.6E-06 43.1 2.0 52 101-153 78-137 (323)
110 KOG0802 E3 ubiquitin ligase [P 87.8 0.29 6.2E-06 47.2 1.7 49 99-155 477-525 (543)
111 KOG3053 Uncharacterized conser 86.4 0.34 7.3E-06 41.7 1.2 52 98-150 17-82 (293)
112 KOG0269 WD40 repeat-containing 85.9 0.68 1.5E-05 45.5 3.1 41 102-144 780-820 (839)
113 KOG1812 Predicted E3 ubiquitin 85.3 0.29 6.4E-06 45.0 0.4 38 100-138 145-183 (384)
114 PF02891 zf-MIZ: MIZ/SP-RING z 84.0 0.96 2.1E-05 29.0 2.2 42 103-148 4-50 (50)
115 PF11023 DUF2614: Protein of u 83.8 6.4 0.00014 29.7 6.8 22 134-155 80-101 (114)
116 KOG0825 PHD Zn-finger protein 82.6 0.72 1.6E-05 45.6 1.7 52 100-151 95-155 (1134)
117 KOG1829 Uncharacterized conser 82.2 0.46 1E-05 45.7 0.3 42 100-145 510-556 (580)
118 KOG1815 Predicted E3 ubiquitin 81.5 1.8 3.9E-05 40.7 3.9 37 99-138 68-104 (444)
119 KOG1100 Predicted E3 ubiquitin 79.8 0.94 2E-05 38.1 1.3 40 104-151 161-201 (207)
120 PF06906 DUF1272: Protein of u 78.7 2.5 5.3E-05 27.7 2.7 45 103-151 7-53 (57)
121 KOG4367 Predicted Zn-finger pr 78.3 3.2 7E-05 38.5 4.3 34 100-137 3-36 (699)
122 PF14569 zf-UDP: Zinc-binding 78.0 3.3 7.1E-05 29.1 3.3 53 100-152 8-64 (80)
123 PF13901 DUF4206: Domain of un 77.6 1.6 3.4E-05 36.6 2.0 41 100-146 151-196 (202)
124 KOG3005 GIY-YIG type nuclease 77.5 1.4 3.1E-05 38.1 1.7 49 101-149 182-242 (276)
125 KOG3842 Adaptor protein Pellin 77.3 2.8 6.1E-05 37.3 3.5 54 99-153 339-417 (429)
126 KOG4362 Transcriptional regula 77.1 0.69 1.5E-05 45.2 -0.3 46 102-151 22-70 (684)
127 PLN02436 cellulose synthase A 76.9 5.4 0.00012 41.2 5.8 53 100-152 35-91 (1094)
128 PF10571 UPF0547: Uncharacteri 76.5 1.4 3E-05 24.3 0.9 23 103-127 2-24 (26)
129 PF12273 RCR: Chitin synthesis 76.4 2 4.4E-05 33.2 2.2 15 38-52 10-24 (130)
130 KOG4718 Non-SMC (structural ma 76.3 1.3 2.8E-05 37.1 1.1 43 102-147 182-224 (235)
131 PF05568 ASFV_J13L: African sw 76.1 5 0.00011 31.6 4.3 15 7-21 15-29 (189)
132 PF02009 Rifin_STEVOR: Rifin/s 75.2 5 0.00011 35.7 4.6 25 29-53 259-283 (299)
133 PF07975 C1_4: TFIIH C1-like d 74.6 2.5 5.4E-05 27.3 1.9 43 104-146 2-50 (51)
134 KOG2066 Vacuolar assembly/sort 73.0 1.4 3E-05 43.7 0.6 44 100-145 783-830 (846)
135 KOG2068 MOT2 transcription fac 72.5 3.4 7.4E-05 36.9 2.9 49 102-151 250-299 (327)
136 PF01102 Glycophorin_A: Glycop 72.3 7.7 0.00017 29.8 4.4 38 16-53 58-95 (122)
137 KOG1812 Predicted E3 ubiquitin 72.1 1.7 3.7E-05 40.1 0.9 43 102-145 307-351 (384)
138 COG5109 Uncharacterized conser 71.5 2.6 5.7E-05 37.4 1.9 45 100-145 335-382 (396)
139 PF02060 ISK_Channel: Slow vol 70.9 9.8 0.00021 29.3 4.6 28 26-53 44-71 (129)
140 TIGR01478 STEVOR variant surfa 70.9 6 0.00013 34.7 3.9 20 37-56 271-290 (295)
141 PTZ00370 STEVOR; Provisional 69.7 6.5 0.00014 34.6 3.9 20 37-56 267-286 (296)
142 PLN02638 cellulose synthase A 68.9 14 0.00031 38.3 6.7 52 100-151 16-71 (1079)
143 PLN02189 cellulose synthase 68.8 5.6 0.00012 41.0 3.8 52 100-151 33-88 (1040)
144 PF01708 Gemini_mov: Geminivir 67.8 10 0.00022 27.3 4.0 23 2-24 16-39 (91)
145 PF02439 Adeno_E3_CR2: Adenovi 67.7 13 0.00028 22.3 3.8 14 37-50 17-30 (38)
146 PF01363 FYVE: FYVE zinc finge 67.4 3.5 7.5E-05 27.9 1.5 36 101-136 9-44 (69)
147 smart00249 PHD PHD zinc finger 67.4 3.4 7.4E-05 24.8 1.3 30 104-134 2-31 (47)
148 PF15176 LRR19-TM: Leucine-ric 67.1 9.9 0.00021 28.1 3.8 38 26-63 17-54 (102)
149 PF13719 zinc_ribbon_5: zinc-r 66.8 4 8.7E-05 24.3 1.5 26 103-128 4-36 (37)
150 PF12877 DUF3827: Domain of un 66.7 4.8 0.0001 39.2 2.7 37 22-58 267-303 (684)
151 PF06844 DUF1244: Protein of u 66.1 3.5 7.5E-05 28.0 1.2 12 126-137 11-22 (68)
152 PF15102 TMEM154: TMEM154 prot 66.0 1.7 3.6E-05 34.4 -0.4 9 130-138 128-136 (146)
153 KOG0824 Predicted E3 ubiquitin 65.3 2.5 5.4E-05 37.3 0.5 50 98-150 102-151 (324)
154 PF06024 DUF912: Nucleopolyhed 64.6 2 4.3E-05 31.8 -0.2 17 31-47 68-84 (101)
155 PHA02902 putative IMV membrane 64.5 19 0.00041 24.3 4.4 12 77-88 51-62 (70)
156 PHA03164 hypothetical protein; 63.9 9.3 0.0002 26.6 3.0 42 8-49 37-81 (88)
157 KOG3579 Predicted E3 ubiquitin 63.3 4.9 0.00011 35.2 1.9 39 101-139 268-306 (352)
158 PF04710 Pellino: Pellino; In 62.0 2.6 5.6E-05 38.6 0.0 51 100-151 327-402 (416)
159 smart00132 LIM Zinc-binding do 61.2 7 0.00015 22.5 1.9 37 103-149 1-37 (39)
160 PF00628 PHD: PHD-finger; Int 60.8 5 0.00011 25.2 1.2 43 103-146 1-49 (51)
161 PF13717 zinc_ribbon_4: zinc-r 60.5 6.7 0.00015 23.2 1.6 26 103-128 4-36 (36)
162 PF12606 RELT: Tumour necrosis 60.0 11 0.00025 24.1 2.7 23 29-51 4-26 (50)
163 PLN02400 cellulose synthase 59.8 8.3 0.00018 40.0 3.1 52 100-151 35-90 (1085)
164 PF11044 TMEMspv1-c74-12: Plec 58.8 28 0.00061 21.7 4.1 24 24-47 3-26 (49)
165 PF00412 LIM: LIM domain; Int 58.5 6.9 0.00015 25.1 1.6 39 104-152 1-39 (58)
166 TIGR00622 ssl1 transcription f 58.0 13 0.00028 28.1 3.1 46 101-146 55-110 (112)
167 PTZ00046 rifin; Provisional 56.9 20 0.00042 32.7 4.7 28 26-53 315-342 (358)
168 PF04710 Pellino: Pellino; In 55.7 3.8 8.3E-05 37.6 0.0 45 101-149 277-338 (416)
169 TIGR01477 RIFIN variant surfac 55.3 22 0.00047 32.4 4.7 28 26-53 310-337 (353)
170 PF00558 Vpu: Vpu protein; In 55.1 22 0.00048 25.2 3.8 20 30-49 12-31 (81)
171 cd00065 FYVE FYVE domain; Zinc 54.8 9.2 0.0002 24.5 1.7 36 102-137 3-38 (57)
172 PRK02935 hypothetical protein; 54.4 70 0.0015 23.9 6.4 20 136-155 83-102 (110)
173 PF07191 zinc-ribbons_6: zinc- 53.2 4.9 0.00011 27.7 0.2 40 102-150 2-41 (70)
174 KOG3039 Uncharacterized conser 52.7 10 0.00022 32.7 2.0 33 102-138 44-76 (303)
175 PF04277 OAD_gamma: Oxaloaceta 52.7 30 0.00064 23.9 4.2 24 27-50 7-30 (79)
176 KOG2979 Protein involved in DN 52.5 8.4 0.00018 33.3 1.6 42 101-145 176-219 (262)
177 PF05393 Hum_adeno_E3A: Human 51.7 31 0.00067 24.8 4.0 16 37-52 43-58 (94)
178 PF01299 Lamp: Lysosome-associ 51.5 11 0.00023 33.5 2.2 27 28-54 273-299 (306)
179 COG3813 Uncharacterized protei 51.1 12 0.00027 25.8 1.9 45 104-152 8-54 (84)
180 PF14147 Spore_YhaL: Sporulati 50.9 19 0.00041 23.2 2.6 18 24-41 2-19 (52)
181 smart00064 FYVE Protein presen 50.0 14 0.0003 24.7 2.1 36 102-137 11-46 (68)
182 PHA02650 hypothetical protein; 49.7 39 0.00084 23.8 4.2 25 23-47 48-72 (81)
183 KOG2807 RNA polymerase II tran 49.7 18 0.00039 32.4 3.2 47 100-147 329-375 (378)
184 PF15018 InaF-motif: TRP-inter 49.4 19 0.00042 21.7 2.3 28 23-50 6-33 (38)
185 TIGR01195 oadG_fam sodium pump 47.7 40 0.00088 23.8 4.2 27 26-52 9-35 (82)
186 PF07423 DUF1510: Protein of u 46.9 16 0.00035 31.0 2.4 9 24-32 14-22 (217)
187 cd00350 rubredoxin_like Rubred 46.6 12 0.00026 21.6 1.1 19 123-147 7-25 (33)
188 KOG3653 Transforming growth fa 46.1 43 0.00094 31.8 5.2 13 127-139 289-302 (534)
189 PF04216 FdhE: Protein involve 45.9 3.3 7.1E-05 36.5 -2.0 46 101-147 172-219 (290)
190 smart00647 IBR In Between Ring 45.8 7.3 0.00016 25.4 0.1 20 116-135 39-58 (64)
191 PF10497 zf-4CXXC_R1: Zinc-fin 44.9 28 0.00061 25.9 3.2 24 124-147 37-69 (105)
192 PF11395 DUF2873: Protein of u 44.0 59 0.0013 19.4 3.8 7 26-32 8-14 (43)
193 PF15106 TMEM156: TMEM156 prot 43.6 34 0.00074 28.8 3.7 9 32-40 180-188 (226)
194 PF15145 DUF4577: Domain of un 43.5 36 0.00079 25.6 3.5 12 40-51 76-87 (128)
195 KOG1245 Chromatin remodeling c 43.5 31 0.00067 37.3 4.3 48 101-149 1108-1159(1404)
196 COG4736 CcoQ Cbb3-type cytochr 43.2 87 0.0019 20.9 5.0 23 28-50 9-31 (60)
197 PHA03105 EEV glycoprotein; Pro 42.9 8.4 0.00018 30.8 0.1 27 27-53 4-30 (188)
198 PF11446 DUF2897: Protein of u 42.7 31 0.00067 22.6 2.7 16 23-38 4-19 (55)
199 PF07649 C1_3: C1-like domain; 42.4 19 0.00041 20.1 1.5 29 103-132 2-30 (30)
200 PF02318 FYVE_2: FYVE-type zin 42.1 16 0.00034 27.7 1.5 48 99-147 52-102 (118)
201 PF06716 DUF1201: Protein of u 42.1 84 0.0018 19.8 4.4 10 41-50 24-33 (54)
202 COG4768 Uncharacterized protei 41.8 47 0.001 25.9 4.0 28 25-52 2-29 (139)
203 PF07406 NICE-3: NICE-3 protei 41.7 21 0.00046 29.5 2.3 11 126-136 123-133 (186)
204 PRK05886 yajC preprotein trans 41.5 38 0.00083 25.5 3.4 6 44-49 17-22 (109)
205 PF07204 Orthoreo_P10: Orthore 41.4 27 0.00059 25.4 2.5 17 25-41 41-57 (98)
206 PF06143 Baculo_11_kDa: Baculo 41.0 58 0.0013 23.3 4.1 20 28-47 36-55 (84)
207 KOG3726 Uncharacterized conser 40.6 27 0.00059 34.4 3.1 41 101-145 654-695 (717)
208 KOG1729 FYVE finger containing 40.1 5.7 0.00012 35.1 -1.4 36 102-138 215-250 (288)
209 COG3492 Uncharacterized protei 39.9 14 0.00031 26.7 0.9 12 126-137 42-53 (104)
210 KOG2231 Predicted E3 ubiquitin 39.8 20 0.00044 35.3 2.2 45 103-151 2-53 (669)
211 COG1862 YajC Preprotein transl 39.7 35 0.00076 25.1 2.9 9 42-50 20-28 (97)
212 PRK12495 hypothetical protein; 38.9 1.4E+02 0.0031 25.3 6.8 12 141-152 60-71 (226)
213 PF11027 DUF2615: Protein of u 38.9 51 0.0011 24.5 3.7 10 2-11 30-39 (103)
214 PRK12495 hypothetical protein; 38.0 1.8E+02 0.0039 24.7 7.2 13 100-112 41-53 (226)
215 PF04478 Mid2: Mid2 like cell 38.0 2.9 6.2E-05 33.3 -3.2 30 24-53 50-79 (154)
216 PF12191 stn_TNFRSF12A: Tumour 37.6 13 0.00028 28.6 0.4 24 22-45 75-98 (129)
217 PRK02919 oxaloacetate decarbox 37.3 69 0.0015 22.8 4.0 25 28-52 14-38 (82)
218 PF11694 DUF3290: Protein of u 37.3 59 0.0013 25.8 4.1 18 42-59 32-49 (149)
219 PF10083 DUF2321: Uncharacteri 37.0 17 0.00036 29.1 0.9 45 105-152 8-52 (158)
220 PF05510 Sarcoglycan_2: Sarcog 37.0 50 0.0011 30.5 4.1 43 9-51 268-311 (386)
221 PRK04778 septation ring format 36.7 41 0.0009 32.6 3.8 20 32-51 7-26 (569)
222 PF09125 COX2-transmemb: Cytoc 36.7 73 0.0016 19.0 3.3 11 31-41 20-30 (38)
223 PF06305 DUF1049: Protein of u 36.3 48 0.001 22.0 3.1 16 30-45 24-39 (68)
224 PLN02915 cellulose synthase A 36.2 41 0.00088 35.0 3.7 52 100-151 14-69 (1044)
225 PHA02909 hypothetical protein; 35.6 99 0.0022 20.3 4.2 18 28-45 39-56 (72)
226 PRK06531 yajC preprotein trans 35.6 35 0.00076 25.8 2.4 6 127-132 74-79 (113)
227 PF09943 DUF2175: Uncharacteri 34.8 31 0.00068 25.5 2.0 34 102-137 3-36 (101)
228 PF14311 DUF4379: Domain of un 34.2 26 0.00057 22.5 1.4 23 122-145 33-55 (55)
229 PF06750 DiS_P_DiS: Bacterial 33.9 39 0.00084 24.5 2.4 38 101-151 33-70 (92)
230 PLN02195 cellulose synthase A 33.9 47 0.001 34.3 3.7 50 101-150 6-59 (977)
231 PF14991 MLANA: Protein melan- 33.9 6.8 0.00015 29.5 -1.6 31 31-61 28-58 (118)
232 PF04423 Rad50_zn_hook: Rad50 33.8 13 0.00029 23.8 -0.0 13 140-152 21-33 (54)
233 PF15106 TMEM156: TMEM156 prot 33.7 67 0.0014 27.1 4.0 25 34-58 185-209 (226)
234 PF09723 Zn-ribbon_8: Zinc rib 33.0 11 0.00024 23.0 -0.5 25 122-147 10-34 (42)
235 PF14584 DUF4446: Protein of u 32.9 68 0.0015 25.5 3.9 13 100-112 96-108 (151)
236 PF01708 Gemini_mov: Geminivir 32.7 31 0.00068 24.9 1.7 37 16-52 26-62 (91)
237 PRK11088 rrmA 23S rRNA methylt 32.2 29 0.00062 30.1 1.7 25 102-127 3-27 (272)
238 PF12575 DUF3753: Protein of u 32.1 88 0.0019 21.7 3.7 22 22-43 46-67 (72)
239 PRK03814 oxaloacetate decarbox 31.9 99 0.0021 22.1 4.2 21 27-47 14-34 (85)
240 KOG1025 Epidermal growth facto 31.6 78 0.0017 32.5 4.7 21 31-51 635-655 (1177)
241 PRK05978 hypothetical protein; 31.5 36 0.00077 27.1 2.0 25 124-153 42-66 (148)
242 PF07282 OrfB_Zn_ribbon: Putat 31.2 92 0.002 20.7 3.8 33 100-132 27-61 (69)
243 PF11346 DUF3149: Protein of u 31.1 1.3E+02 0.0028 18.5 4.0 11 41-51 26-36 (42)
244 PF15012 DUF4519: Domain of un 31.0 13 0.00028 24.4 -0.5 16 24-39 30-45 (56)
245 PF05454 DAG1: Dystroglycan (D 30.8 16 0.00036 32.3 0.0 17 37-53 158-174 (290)
246 PF06143 Baculo_11_kDa: Baculo 30.5 1.5E+02 0.0031 21.3 4.7 26 25-50 36-61 (84)
247 TIGR00739 yajC preprotein tran 30.4 56 0.0012 23.2 2.7 10 41-50 13-22 (84)
248 PF06679 DUF1180: Protein of u 30.2 77 0.0017 25.6 3.7 6 28-33 98-103 (163)
249 PHA03030 hypothetical protein; 30.1 27 0.00059 25.8 1.0 7 41-47 15-21 (122)
250 COG3630 OadG Na+-transporting 29.8 1E+02 0.0022 22.1 3.8 21 27-47 13-33 (84)
251 KOG2071 mRNA cleavage and poly 29.7 43 0.00094 32.4 2.6 36 99-135 511-556 (579)
252 TIGR01562 FdhE formate dehydro 29.7 14 0.0003 33.0 -0.7 46 101-147 184-232 (305)
253 KOG4185 Predicted E3 ubiquitin 29.5 10 0.00023 33.3 -1.5 48 101-148 207-265 (296)
254 KOG1815 Predicted E3 ubiquitin 29.4 17 0.00037 34.1 -0.1 36 103-138 228-267 (444)
255 KOG1356 Putative transcription 29.3 21 0.00045 36.0 0.4 35 100-136 228-262 (889)
256 PF13268 DUF4059: Protein of u 29.3 1.8E+02 0.0038 20.1 4.8 30 24-53 5-34 (72)
257 PF00558 Vpu: Vpu protein; In 29.1 76 0.0016 22.5 3.1 8 44-51 29-36 (81)
258 PF03229 Alpha_GJ: Alphavirus 28.6 76 0.0017 24.1 3.2 33 29-61 87-119 (126)
259 PF14169 YdjO: Cold-inducible 28.4 33 0.00071 22.8 1.1 15 139-153 39-53 (59)
260 PHA03099 epidermal growth fact 28.0 97 0.0021 24.0 3.7 23 25-47 100-122 (139)
261 PF10883 DUF2681: Protein of u 27.7 1.1E+02 0.0024 22.0 3.8 7 44-50 20-26 (87)
262 COG3771 Predicted membrane pro 27.5 1.5E+02 0.0033 21.3 4.4 26 25-50 44-69 (97)
263 PHA02844 putative transmembran 26.9 73 0.0016 22.2 2.6 14 31-44 55-68 (75)
264 KOG4577 Transcription factor L 26.9 18 0.00038 31.9 -0.5 31 101-133 92-122 (383)
265 KOG3842 Adaptor protein Pellin 26.9 30 0.00064 31.0 0.9 44 101-148 290-350 (429)
266 PF02699 YajC: Preprotein tran 26.5 90 0.002 21.9 3.2 9 42-50 13-21 (82)
267 COG5353 Uncharacterized protei 26.4 54 0.0012 26.1 2.1 20 28-47 8-27 (161)
268 PF14654 Epiglycanin_C: Mucin, 26.3 1.2E+02 0.0025 22.4 3.7 30 21-50 14-43 (106)
269 KOG3799 Rab3 effector RIM1 and 26.3 16 0.00035 28.5 -0.7 22 99-128 63-85 (169)
270 TIGR00686 phnA alkylphosphonat 26.2 37 0.00081 25.4 1.2 11 103-113 4-14 (109)
271 PF13771 zf-HC5HC2H: PHD-like 26.0 40 0.00088 23.7 1.4 33 101-134 36-68 (90)
272 PHA02681 ORF089 virion membran 25.7 2E+02 0.0044 20.5 4.7 18 74-91 46-63 (92)
273 COG2991 Uncharacterized protei 25.3 71 0.0015 22.1 2.3 21 28-48 4-24 (77)
274 PF13832 zf-HC5HC2H_2: PHD-zin 25.3 47 0.001 24.4 1.7 34 101-135 55-88 (110)
275 KOG2041 WD40 repeat protein [G 24.7 42 0.00091 33.6 1.5 27 120-150 1159-1185(1189)
276 PF05715 zf-piccolo: Piccolo Z 24.6 55 0.0012 21.8 1.6 14 139-152 2-15 (61)
277 KOG1538 Uncharacterized conser 24.6 41 0.00089 33.4 1.4 33 118-150 1045-1077(1081)
278 PRK03564 formate dehydrogenase 24.5 28 0.0006 31.2 0.3 47 100-147 186-234 (309)
279 PF06637 PV-1: PV-1 protein (P 24.2 1.1E+02 0.0024 28.2 4.0 23 28-50 27-49 (442)
280 PF15179 Myc_target_1: Myc tar 24.1 1.4E+02 0.0031 24.6 4.3 18 29-46 28-45 (197)
281 COG4847 Uncharacterized protei 24.0 77 0.0017 23.2 2.4 36 101-138 6-41 (103)
282 PF14979 TMEM52: Transmembrane 23.8 1.5E+02 0.0032 23.5 4.2 14 22-35 17-30 (154)
283 PF05434 Tmemb_9: TMEM9; Inte 23.7 70 0.0015 25.4 2.4 24 26-49 59-82 (149)
284 COG5627 MMS21 DNA repair prote 23.7 36 0.00079 29.1 0.8 41 101-144 189-231 (275)
285 PF10669 Phage_Gp23: Protein g 23.6 2.1E+02 0.0046 21.0 4.6 14 34-47 17-30 (121)
286 PF00130 C1_1: Phorbol esters/ 23.2 61 0.0013 20.3 1.7 33 101-134 11-45 (53)
287 PHA03255 BDLF3; Provisional 22.9 1.3E+02 0.0029 24.5 3.8 20 14-33 174-193 (234)
288 PF04689 S1FA: DNA binding pro 22.9 79 0.0017 21.4 2.1 23 28-50 16-38 (69)
289 smart00531 TFIIE Transcription 22.3 82 0.0018 24.7 2.6 15 139-153 123-137 (147)
290 PF09451 ATG27: Autophagy-rela 22.1 85 0.0018 27.3 2.9 7 2-8 164-171 (268)
291 PF15339 Afaf: Acrosome format 21.8 1.8E+02 0.0039 23.8 4.4 20 21-40 129-148 (200)
292 PHA03048 IMV membrane protein; 21.7 1.2E+02 0.0025 22.0 2.9 21 7-27 25-45 (93)
293 PF06422 PDR_CDR: CDR ABC tran 21.7 1.2E+02 0.0026 22.3 3.2 30 21-50 45-74 (103)
294 PF06937 EURL: EURL protein; 21.4 75 0.0016 27.8 2.3 43 102-144 31-75 (285)
295 PF05502 Dynactin_p62: Dynacti 21.3 47 0.001 31.7 1.1 14 101-114 26-39 (483)
296 PRK10220 hypothetical protein; 21.2 66 0.0014 24.2 1.7 11 103-113 5-15 (111)
297 PF06676 DUF1178: Protein of u 21.1 26 0.00055 27.9 -0.5 24 123-151 10-44 (148)
298 PF15122 TMEM206: TMEM206 prot 20.9 2.5E+02 0.0054 24.4 5.2 14 116-130 69-82 (298)
299 PF10661 EssA: WXG100 protein 20.7 1.4E+02 0.003 23.6 3.5 25 23-47 116-140 (145)
300 KOG4443 Putative transcription 20.6 54 0.0012 32.3 1.4 26 122-147 40-70 (694)
301 KOG2462 C2H2-type Zn-finger pr 20.3 36 0.00079 29.8 0.2 50 101-151 161-227 (279)
302 PF06295 DUF1043: Protein of u 20.3 1E+02 0.0023 23.6 2.7 12 27-38 3-14 (128)
303 PHA02655 hypothetical protein; 20.1 52 0.0011 22.7 0.9 21 20-40 58-78 (94)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.78 E-value=9.1e-19 Score=154.73 Aligned_cols=76 Identities=36% Similarity=0.816 Sum_probs=65.3
Q ss_pred cCCCHHHHhhCCceeeccCCCCCc-ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCC-CCccccCcccCCCC
Q 025541 78 LGLKKELREMLPIVIYKESFSIRD-TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHT-TCPLCRLSLLAPAK 154 (251)
Q Consensus 78 ~~~~~~~~~~lp~~~~~~~~~~~~-~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~-~CP~Cr~~~~~~~~ 154 (251)
.++.+++++++|...+........ +.|+||+|+|..++++++|| |+|.||..||++||.... .||+||+++.....
T Consensus 205 ~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 205 NRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred hhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 357899999999999887655433 59999999999999999999 999999999999999875 49999998876544
No 2
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.62 E-value=1.7e-15 Score=132.90 Aligned_cols=72 Identities=28% Similarity=0.833 Sum_probs=56.8
Q ss_pred CCHHHHhhCCceeeccCCCCCccccccccccc-ccC---------CceeEcCCCCCcccHhhHHHHHhcCCCCccccCcc
Q 025541 80 LKKELREMLPIVIYKESFSIRDTQCSVCLADY-QAE---------DKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSL 149 (251)
Q Consensus 80 ~~~~~~~~lp~~~~~~~~~~~~~~C~IC~~~~-~~~---------~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 149 (251)
..|++.+.+|.+..++ ...+|..|.|||+++ ..+ .+.+.+| |||+||.+|++.|++++++||+||.++
T Consensus 267 ~~kdl~~~~~t~t~eq-l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 267 ATKDLNAMYPTATEEQ-LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred HhhHHHhhcchhhhhh-hcCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence 4567777777766444 466788999999995 333 2557888 999999999999999999999999996
Q ss_pred cCCC
Q 025541 150 LAPA 153 (251)
Q Consensus 150 ~~~~ 153 (251)
....
T Consensus 345 ifd~ 348 (491)
T COG5243 345 IFDQ 348 (491)
T ss_pred cccc
Confidence 5443
No 3
>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=99.57 E-value=7.3e-16 Score=97.73 Aligned_cols=44 Identities=41% Similarity=1.282 Sum_probs=40.2
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCcccc
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCR 146 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr 146 (251)
++|+||+++|..++.+..++ |||+||.+||..|+..+.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 36999999999888999998 999999999999999999999997
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.38 E-value=3.2e-13 Score=94.86 Aligned_cols=48 Identities=42% Similarity=1.039 Sum_probs=36.9
Q ss_pred CCCcccccccccccccC----------CceeEcCCCCCcccHhhHHHHHhcCCCCcccc
Q 025541 98 SIRDTQCSVCLADYQAE----------DKLQQIPACGHAFHMDCIDHWLTTHTTCPLCR 146 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~----------~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr 146 (251)
+..++.|+||++.|... -.+...+ |||.||..||.+||..+.+||+||
T Consensus 16 ~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 16 DIADDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCcCCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 33456699999999332 2344444 999999999999999999999997
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.37 E-value=4.1e-13 Score=114.13 Aligned_cols=76 Identities=24% Similarity=0.643 Sum_probs=57.7
Q ss_pred hhcCCCHHHHhhCCceeeccC---CCCCcccccccccccccCCc----eeEcCCCCCcccHhhHHHHHhcCCCCccccCc
Q 025541 76 AELGLKKELREMLPIVIYKES---FSIRDTQCSVCLADYQAEDK----LQQIPACGHAFHMDCIDHWLTTHTTCPLCRLS 148 (251)
Q Consensus 76 ~~~~~~~~~~~~lp~~~~~~~---~~~~~~~C~IC~~~~~~~~~----~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 148 (251)
...+..+..++.+|.+..+-. ....+.+|+||++.+..+.. +.+++.|+|.||..||.+|+..+.+||+||..
T Consensus 146 ~k~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~ 225 (238)
T PHA02929 146 KKGKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTP 225 (238)
T ss_pred HhcchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCE
Confidence 345568888999998764422 22346889999999865431 23444599999999999999999999999998
Q ss_pred ccC
Q 025541 149 LLA 151 (251)
Q Consensus 149 ~~~ 151 (251)
+..
T Consensus 226 ~~~ 228 (238)
T PHA02929 226 FIS 228 (238)
T ss_pred eeE
Confidence 753
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=1.3e-12 Score=112.22 Aligned_cols=52 Identities=35% Similarity=1.124 Sum_probs=47.6
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHh-cCCCCccccCcccCC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT-THTTCPLCRLSLLAP 152 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~~ 152 (251)
.+.+|+|||+.|..+++++++| |.|.||..|+.+|+. .+..||+||..++++
T Consensus 322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 4578999999999999999999 999999999999998 678899999998763
No 7
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=9.5e-11 Score=100.42 Aligned_cols=50 Identities=34% Similarity=0.875 Sum_probs=42.8
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPA 153 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 153 (251)
....|.|||+....+ ..+| |||+||..||..|+..+..||+||..+.+.+
T Consensus 238 a~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 457899999998654 4566 9999999999999999999999999887643
No 8
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.08 E-value=6.2e-11 Score=84.30 Aligned_cols=51 Identities=35% Similarity=0.805 Sum_probs=39.4
Q ss_pred cccccccccccccC--------C-ceeEcCCCCCcccHhhHHHHHhc---CCCCccccCcccC
Q 025541 101 DTQCSVCLADYQAE--------D-KLQQIPACGHAFHMDCIDHWLTT---HTTCPLCRLSLLA 151 (251)
Q Consensus 101 ~~~C~IC~~~~~~~--------~-~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 151 (251)
++.|.||+..|... + -..++..|+|.||..||.+||.. +..||+||+.+..
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 77899999998632 1 12234469999999999999985 4689999998743
No 9
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.08 E-value=6.2e-11 Score=113.10 Aligned_cols=53 Identities=34% Similarity=0.968 Sum_probs=45.4
Q ss_pred CCCcccccccccccccCCc--eeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 98 SIRDTQCSVCLADYQAEDK--LQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~~~--~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
...+..|+||++.+..+.. .++++ |+|+||..|++.|++++++||+||..+..
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYD 342 (543)
T ss_pred hhcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence 3457889999999987644 67787 99999999999999999999999995543
No 10
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.05 E-value=1.7e-10 Score=72.23 Aligned_cols=44 Identities=43% Similarity=1.262 Sum_probs=36.4
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhHHHHHhc-CCCCccccCcc
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT-HTTCPLCRLSL 149 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~ 149 (251)
+|+||++.+. ..+...+ |||.||..|+..|+.. ...||+||..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999983 3455555 9999999999999997 77899998764
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.04 E-value=1.5e-10 Score=71.30 Aligned_cols=39 Identities=36% Similarity=1.129 Sum_probs=32.7
Q ss_pred ccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccc
Q 025541 104 CSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLC 145 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~C 145 (251)
|+||++.+.. .+..++ |||.||..||.+|+..+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999998876 445676 99999999999999998999998
No 12
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.04 E-value=1.5e-10 Score=75.15 Aligned_cols=46 Identities=30% Similarity=0.936 Sum_probs=38.6
Q ss_pred cccccccccccccCCceeEcCCCCCc-ccHhhHHHHHhcCCCCccccCccc
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHA-FHMDCIDHWLTTHTTCPLCRLSLL 150 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~ 150 (251)
+..|.||++... .+..+| |||. ||..|+..|+.....||+||+++.
T Consensus 2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 467999999865 466777 9999 999999999999999999999874
No 13
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.01 E-value=2.5e-10 Score=93.47 Aligned_cols=49 Identities=29% Similarity=0.784 Sum_probs=39.8
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhc----------------CCCCccccCcccCC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT----------------HTTCPLCRLSLLAP 152 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~----------------~~~CP~Cr~~~~~~ 152 (251)
++.+|+||++.+..+ .+++ |||.||+.||.+|+.. ...||+||..+...
T Consensus 17 ~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 17 GDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 467899999998654 4565 9999999999999852 34799999998653
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=2.5e-10 Score=91.42 Aligned_cols=51 Identities=27% Similarity=0.651 Sum_probs=42.2
Q ss_pred CCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 99 IRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
..-+.|+|||+.+..... +..+|||+||..||+..+.....||+|++.|..
T Consensus 129 ~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred ccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 345789999999987543 323699999999999999999999999987654
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=98.96 E-value=3.4e-10 Score=93.80 Aligned_cols=52 Identities=25% Similarity=0.789 Sum_probs=39.6
Q ss_pred CcccccccccccccC-----CceeEcCCCCCcccHhhHHHHHhcC------CCCccccCcccC
Q 025541 100 RDTQCSVCLADYQAE-----DKLQQIPACGHAFHMDCIDHWLTTH------TTCPLCRLSLLA 151 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~-----~~~~~~~~C~H~fh~~Ci~~wl~~~------~~CP~Cr~~~~~ 151 (251)
.+.+|+|||+.+..+ ....+++.|+|.||..||+.|...+ .+||+||..+..
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 467899999986432 1234565799999999999999753 459999997653
No 16
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.94 E-value=4.9e-10 Score=93.46 Aligned_cols=52 Identities=27% Similarity=0.651 Sum_probs=41.8
Q ss_pred CCCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhc---CCCCccccCcccCCC
Q 025541 98 SIRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT---HTTCPLCRLSLLAPA 153 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~~~ 153 (251)
.....+|.|||+..+.+ +++. |||+||+.||.+||.. .+.||+||..+....
T Consensus 44 ~~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 45678999999987764 4444 9999999999999985 456999999886544
No 17
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.91 E-value=6.4e-10 Score=77.14 Aligned_cols=51 Identities=33% Similarity=0.679 Sum_probs=38.8
Q ss_pred cccccccccccc-----------CC-ceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCC
Q 025541 102 TQCSVCLADYQA-----------ED-KLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAP 152 (251)
Q Consensus 102 ~~C~IC~~~~~~-----------~~-~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 152 (251)
+.|+||+..|.. ++ -+.....|.|.||..||.+||..+..||++|+.+...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 568888776632 22 2333445999999999999999999999999987653
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.86 E-value=1.9e-09 Score=68.12 Aligned_cols=44 Identities=30% Similarity=0.887 Sum_probs=37.9
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccC
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
.|+||++.|.......+++ |||+||..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4999999996566777786 9999999999999866778999985
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.84 E-value=1.7e-09 Score=67.16 Aligned_cols=39 Identities=41% Similarity=1.193 Sum_probs=33.3
Q ss_pred ccccccccccCCceeEcCCCCCcccHhhHHHHHh--cCCCCccc
Q 025541 104 CSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT--THTTCPLC 145 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~--~~~~CP~C 145 (251)
|+||++.+..+. ..++ |||.||..||.+|+. ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987643 5676 999999999999999 56679998
No 20
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.77 E-value=4.5e-09 Score=65.63 Aligned_cols=38 Identities=32% Similarity=0.990 Sum_probs=28.3
Q ss_pred ccccccccccCCceeEcCCCCCcccHhhHHHHHhcC----CCCccc
Q 025541 104 CSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTH----TTCPLC 145 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~----~~CP~C 145 (251)
|+||++-|..+ ..++ |||.|+..||..|+... ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999865 4555 99999999999999753 469987
No 21
>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=98.76 E-value=6.2e-09 Score=62.81 Aligned_cols=38 Identities=42% Similarity=1.219 Sum_probs=32.0
Q ss_pred ccccccccccCCceeEcCCCCCcccHhhHHHHHh-cCCCCccc
Q 025541 104 CSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT-THTTCPLC 145 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~C 145 (251)
|+||++.. .....++ |+|.||..|+..|+. .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999883 3556676 999999999999998 66779987
No 22
>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=98.76 E-value=1e-08 Score=69.52 Aligned_cols=46 Identities=24% Similarity=0.515 Sum_probs=40.0
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
..|+||++.|..+ .+++ |||+|++.||.+|+..+.+||+|+..+..
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 4699999999875 4566 99999999999999988899999988744
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=3.3e-09 Score=73.04 Aligned_cols=51 Identities=33% Similarity=0.722 Sum_probs=38.4
Q ss_pred CcccccccccccccCC---------ceeEcCCCCCcccHhhHHHHHhc---CCCCccccCccc
Q 025541 100 RDTQCSVCLADYQAED---------KLQQIPACGHAFHMDCIDHWLTT---HTTCPLCRLSLL 150 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~---------~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~ 150 (251)
.+..|.||+.+|...- -..++..|.|.||..||.+|+.. +..||+||+.+.
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 4558999999985321 22233359999999999999974 557999999764
No 24
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=1.1e-08 Score=74.52 Aligned_cols=53 Identities=32% Similarity=0.707 Sum_probs=40.2
Q ss_pred CCcccccccccccc-------------cCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 99 IRDTQCSVCLADYQ-------------AEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 99 ~~~~~C~IC~~~~~-------------~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
..-+.|+||+..+. ..+-+.....|.|.||..||.+||+.++.||+|.++...
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF 109 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence 34577999986652 122334444699999999999999999999999887643
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=1.9e-08 Score=85.40 Aligned_cols=51 Identities=31% Similarity=0.844 Sum_probs=41.8
Q ss_pred CCcccccccccccccCCceeEcCCCCCcccHhhHHH-HHhcCCC-CccccCcccCCC
Q 025541 99 IRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDH-WLTTHTT-CPLCRLSLLAPA 153 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~-wl~~~~~-CP~Cr~~~~~~~ 153 (251)
..++.|+||++....+ ..++ |||+||..||.. |-..+.- ||+||+.+.+.+
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 3578899999987654 5565 999999999999 8777665 999999887654
No 26
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.60 E-value=3.7e-08 Score=89.68 Aligned_cols=49 Identities=27% Similarity=0.653 Sum_probs=41.8
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAP 152 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 152 (251)
....|+||++.|..+ .+++ |||.||..||..|+.....||+||..+...
T Consensus 25 ~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 25 TSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 356899999998765 3566 999999999999999888999999988654
No 27
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.59 E-value=5.9e-08 Score=88.59 Aligned_cols=50 Identities=28% Similarity=0.828 Sum_probs=39.0
Q ss_pred cccccccccccccC--------------CceeEcCCCCCcccHhhHHHHHh-cCCCCccccCcccC
Q 025541 101 DTQCSVCLADYQAE--------------DKLQQIPACGHAFHMDCIDHWLT-THTTCPLCRLSLLA 151 (251)
Q Consensus 101 ~~~C~IC~~~~~~~--------------~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 151 (251)
-.+|+|||.++.-- ....+.| |.|+||..|+.+|+. .+-.||.||.++++
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 46799999886321 1133456 999999999999999 56689999999864
No 28
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=1.6e-08 Score=85.96 Aligned_cols=54 Identities=28% Similarity=0.684 Sum_probs=44.2
Q ss_pred CCcccccccccccccCC-------ceeEcCCCCCcccHhhHHHHHh--cCCCCccccCcccCCC
Q 025541 99 IRDTQCSVCLADYQAED-------KLQQIPACGHAFHMDCIDHWLT--THTTCPLCRLSLLAPA 153 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~-------~~~~~~~C~H~fh~~Ci~~wl~--~~~~CP~Cr~~~~~~~ 153 (251)
.++..|+||-..+.... .+..+. |+|+||..||+.|.. .+++||.|+..+....
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 45788999999887655 566776 999999999999965 5789999998776543
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.45 E-value=1.3e-07 Score=59.13 Aligned_cols=38 Identities=32% Similarity=0.914 Sum_probs=22.5
Q ss_pred cccccccccc-CCceeEcCCCCCcccHhhHHHHHhcC----CCCc
Q 025541 104 CSVCLADYQA-EDKLQQIPACGHAFHMDCIDHWLTTH----TTCP 143 (251)
Q Consensus 104 C~IC~~~~~~-~~~~~~~~~C~H~fh~~Ci~~wl~~~----~~CP 143 (251)
|+||++ |.. .....+|+ |||+|+++||.+|+..+ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 754 44567888 99999999999999843 3576
No 30
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=1.2e-07 Score=87.26 Aligned_cols=49 Identities=31% Similarity=0.736 Sum_probs=39.1
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcC-----CCCccccCcccCCC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTH-----TTCPLCRLSLLAPA 153 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~-----~~CP~Cr~~~~~~~ 153 (251)
+..||||++....+. .+ .|||+||..||.+++... ..||+||..+...+
T Consensus 186 ~~~CPICL~~~~~p~---~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPV---RT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCccc---cc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 788999999876542 33 399999999999988643 46999999887744
No 31
>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=98.37 E-value=3e-07 Score=59.33 Aligned_cols=42 Identities=26% Similarity=0.883 Sum_probs=32.6
Q ss_pred cccccccccccCCceeEcCCCC-----CcccHhhHHHHHhc--CCCCcccc
Q 025541 103 QCSVCLADYQAEDKLQQIPACG-----HAFHMDCIDHWLTT--HTTCPLCR 146 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~wl~~--~~~CP~Cr 146 (251)
.|.||++. ..+....+.| |. |.||..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~~-~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 38999983 3444555787 85 89999999999974 45899995
No 32
>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=98.29 E-value=6.8e-07 Score=78.52 Aligned_cols=53 Identities=28% Similarity=0.616 Sum_probs=39.0
Q ss_pred cccccccccc-cccCC-ceeEcCCCCCcccHhhHHHHHh-cCCCCccccCcccCCCC
Q 025541 101 DTQCSVCLAD-YQAED-KLQQIPACGHAFHMDCIDHWLT-THTTCPLCRLSLLAPAK 154 (251)
Q Consensus 101 ~~~C~IC~~~-~~~~~-~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~~~~ 154 (251)
+..||||... |..+. .+.+.+ |||.||..|+...+. ....||.|+..+.....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~f 58 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNNF 58 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhhc
Confidence 4679999986 33333 333444 999999999999664 45689999998876553
No 33
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.23 E-value=4.5e-07 Score=79.52 Aligned_cols=52 Identities=23% Similarity=0.687 Sum_probs=43.7
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCCCCCC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPAKASS 157 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~ 157 (251)
..|.||.+-|..+ .++| |+|.||.-||+.+|..+..||.|+..+....-...
T Consensus 24 LRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n 75 (442)
T KOG0287|consen 24 LRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNN 75 (442)
T ss_pred HHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchhhhhhh
Confidence 4699999998754 5566 99999999999999999999999998876654433
No 34
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.23 E-value=2.5e-07 Score=64.32 Aligned_cols=50 Identities=24% Similarity=0.767 Sum_probs=23.2
Q ss_pred cccccccccccc-cCCc-eeEc--CCCCCcccHhhHHHHHhc----C-------CCCccccCccc
Q 025541 101 DTQCSVCLADYQ-AEDK-LQQI--PACGHAFHMDCIDHWLTT----H-------TTCPLCRLSLL 150 (251)
Q Consensus 101 ~~~C~IC~~~~~-~~~~-~~~~--~~C~H~fh~~Ci~~wl~~----~-------~~CP~Cr~~~~ 150 (251)
+.+|.||+..+. .+.. ..+- +.|++.||..||.+||.. + ..||.|+.+|.
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 357999999865 3222 2222 269999999999999973 1 14999998874
No 35
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.19 E-value=8.1e-07 Score=76.45 Aligned_cols=47 Identities=30% Similarity=0.675 Sum_probs=39.8
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAP 152 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 152 (251)
..|-||-+-|..+ ..++ |||.||.-||+..|..+..||+||.+....
T Consensus 26 lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 26 LRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred HHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 5699999988754 3344 999999999999999999999999977543
No 36
>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=98.16 E-value=1.3e-06 Score=61.27 Aligned_cols=49 Identities=22% Similarity=0.459 Sum_probs=37.2
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhc-CCCCccccCcccCCC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT-HTTCPLCRLSLLAPA 153 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~ 153 (251)
...|+|+.+-|..+ .++| |||.|.+.||..|+.. +.+||+|+.++....
T Consensus 4 ~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 4 EFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred ccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 46799999999865 4566 9999999999999998 889999998886543
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.12 E-value=9.3e-07 Score=86.30 Aligned_cols=52 Identities=23% Similarity=0.745 Sum_probs=38.6
Q ss_pred CCccccccccccccc---CCceeEcCCCCCcccHhhHHHHHhc--CCCCccccCccc
Q 025541 99 IRDTQCSVCLADYQA---EDKLQQIPACGHAFHMDCIDHWLTT--HTTCPLCRLSLL 150 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~---~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~ 150 (251)
.+-.+|+||+..+.. .-.-...+.|.|.||..|+.+|+.. +.+||+||..+.
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 456789999977641 1122233359999999999999985 668999997764
No 38
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=1.7e-06 Score=75.24 Aligned_cols=44 Identities=30% Similarity=0.863 Sum_probs=38.3
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
+...|+||++.|..+ .+++ |+|.||..||..++.....||.||.
T Consensus 12 ~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 456899999999987 6777 9999999999999885568999993
No 39
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.97 E-value=2.4e-06 Score=77.58 Aligned_cols=48 Identities=31% Similarity=0.871 Sum_probs=38.3
Q ss_pred CcccccccccccccCCc-eeEcCCCCCcccHhhHHHHHhcCCCCccccCccc
Q 025541 100 RDTQCSVCLADYQAEDK-LQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLL 150 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~-~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 150 (251)
+-.+|+|||+.|..... ++.+. |.|.||..|+..|.. .+||+||....
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeee-cccccchHHHhhccc--CcChhhhhhcC
Confidence 45789999999976542 33344 999999999999965 48999998765
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.96 E-value=3.2e-06 Score=75.40 Aligned_cols=48 Identities=31% Similarity=1.016 Sum_probs=34.0
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhc---CCCCccccCcc
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT---HTTCPLCRLSL 149 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~ 149 (251)
..|.||.+-+-....+.-+..|||+||..|+.+|+.. +..||.|+-.+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 4699994433333333333359999999999999985 35799998433
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=2.3e-06 Score=75.57 Aligned_cols=56 Identities=27% Similarity=0.530 Sum_probs=44.2
Q ss_pred CCCcccccccccccccCCceeEcCCCCCcccHhhHHHHHh-cCCCCccccCcccCCCCCC
Q 025541 98 SIRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT-THTTCPLCRLSLLAPAKAS 156 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~~~~~~ 156 (251)
...+..|+|||+-++.. +..+.|.|.||..||..-+. .++.||.||+.+.......
T Consensus 40 ~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr 96 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLR 96 (381)
T ss_pred hhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCC
Confidence 34567899999988754 33347999999999999887 4789999999987665443
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=7.8e-06 Score=73.28 Aligned_cols=54 Identities=24% Similarity=0.831 Sum_probs=40.8
Q ss_pred CCcccccccccccccCC----ceeEcCCCCCcccHhhHHHHHh--c-----CCCCccccCcccCC
Q 025541 99 IRDTQCSVCLADYQAED----KLQQIPACGHAFHMDCIDHWLT--T-----HTTCPLCRLSLLAP 152 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~----~~~~~~~C~H~fh~~Ci~~wl~--~-----~~~CP~Cr~~~~~~ 152 (251)
..+.+|.||++...... ...++|.|.|.||..||+.|-. + .+.||.||......
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 34778999999876543 1334567999999999999984 3 46799999866443
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.81 E-value=5.1e-06 Score=55.86 Aligned_cols=48 Identities=23% Similarity=0.616 Sum_probs=23.9
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCCC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPAK 154 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 154 (251)
..|++|.+-+..+.. +..|.|+||..||..-+.. .||+|+.+....+.
T Consensus 8 LrCs~C~~~l~~pv~---l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~ 55 (65)
T PF14835_consen 8 LRCSICFDILKEPVC---LGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDI 55 (65)
T ss_dssp TS-SSS-S--SS-B------SSS--B-TTTGGGGTTT--B-SSS--B-S-SS-
T ss_pred cCCcHHHHHhcCCce---eccCccHHHHHHhHHhcCC--CCCCcCChHHHHHH
Confidence 369999999876532 2369999999999885553 49999988765443
No 44
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=9.6e-06 Score=78.20 Aligned_cols=48 Identities=29% Similarity=0.737 Sum_probs=37.8
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHh-cCCCCccccCcccCCC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT-THTTCPLCRLSLLAPA 153 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~~~ 153 (251)
..|+.|-..+... +++.|+|+||..|+..-+. ++..||.|...+.+.+
T Consensus 644 LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 644 LKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred eeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 4699999666542 3335999999999999887 6889999988876544
No 45
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.72 E-value=7e-06 Score=78.94 Aligned_cols=52 Identities=23% Similarity=0.496 Sum_probs=41.6
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPA 153 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 153 (251)
...|++|+..+.........+ |+|+||..||..|-..-++||+||..+....
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 345888887776655555555 9999999999999999999999999776443
No 46
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=0.00015 Score=60.59 Aligned_cols=76 Identities=20% Similarity=0.540 Sum_probs=60.5
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhc--------CCCCccccCcccCCCCCCCcchhHHHhhhhcccc
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT--------HTTCPLCRLSLLAPAKASSELSDIQQETIQESSV 172 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (251)
+.-|..|--.+..++.++.. |-|+||.+|+..|-.. .-.||.|...++++.....+.-+...+...+...
T Consensus 50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L~qvNW 127 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQLKQVNW 127 (299)
T ss_pred CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHHHhhhH
Confidence 45699999999999888765 9999999999999753 3369999999999988888777766666666655
Q ss_pred ccCCCC
Q 025541 173 TENADG 178 (251)
Q Consensus 173 ~~~~~~ 178 (251)
...+-|
T Consensus 128 aRagLG 133 (299)
T KOG3970|consen 128 ARAGLG 133 (299)
T ss_pred HhhccC
Confidence 554443
No 47
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=2.2e-05 Score=70.65 Aligned_cols=49 Identities=35% Similarity=0.853 Sum_probs=38.0
Q ss_pred cccccccccccccCC-ceeEcCCCCCcccHhhHHHHHhc--CCCCccccCcc
Q 025541 101 DTQCSVCLADYQAED-KLQQIPACGHAFHMDCIDHWLTT--HTTCPLCRLSL 149 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~ 149 (251)
..+|+||++++.... .-.+.+.|||.|...||++||.+ ...||.|....
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 468999999987544 33444579999999999999963 34699997654
No 48
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=2.5e-05 Score=69.39 Aligned_cols=48 Identities=23% Similarity=0.702 Sum_probs=40.2
Q ss_pred CcccccccccccccCCceeEcCCCCC-cccHhhHHHHHhcCCCCccccCcccC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGH-AFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H-~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
...+|.|||.+-. .+.+|| |.| -.|..|-+....+++.||+||+++..
T Consensus 289 ~gkeCVIClse~r---dt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 289 SGKECVICLSESR---DTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred CCCeeEEEecCCc---ceEEec-chhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 3568999998754 567898 999 58999999887788899999998854
No 49
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=1.3e-05 Score=51.82 Aligned_cols=46 Identities=24% Similarity=0.659 Sum_probs=33.5
Q ss_pred cccccccccccccCCceeEcCCCCC-cccHhhHHHHHh-cCCCCccccCccc
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGH-AFHMDCIDHWLT-THTTCPLCRLSLL 150 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H-~fh~~Ci~~wl~-~~~~CP~Cr~~~~ 150 (251)
+++|.||++.-.. .+.. .||| -.|..|-.+.++ .+..||+||+++.
T Consensus 7 ~dECTICye~pvd--sVlY--tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVD--SVLY--TCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcch--HHHH--HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 4789999987543 2222 3999 478888655444 7889999999874
No 50
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.62 E-value=2.6e-05 Score=67.67 Aligned_cols=48 Identities=23% Similarity=0.573 Sum_probs=38.3
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhc-CCCCccccCcccCC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT-HTTCPLCRLSLLAP 152 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~ 152 (251)
..+|+||+.....+ ..++ |+|.||..||+.-... +.+|++||.++...
T Consensus 7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 45799999887654 4455 9999999999987665 56799999998643
No 51
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.44 E-value=4.8e-05 Score=65.95 Aligned_cols=53 Identities=26% Similarity=0.735 Sum_probs=42.9
Q ss_pred CCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhc-----------------------CCCCccccCcccCC
Q 025541 99 IRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT-----------------------HTTCPLCRLSLLAP 152 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-----------------------~~~CP~Cr~~~~~~ 152 (251)
.....|.|||.-|..+....+++ |-|.||..|+.++|.- +..||+||..+...
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 34567999999999998788887 9999999999888731 12599999987643
No 52
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=0.00043 Score=59.52 Aligned_cols=51 Identities=29% Similarity=0.477 Sum_probs=38.2
Q ss_pred CCCCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhc--CCCCccccCccc
Q 025541 97 FSIRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT--HTTCPLCRLSLL 150 (251)
Q Consensus 97 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~ 150 (251)
....+.+|++|-+.-..+ .... +|+|+||+-||..-+.. ..+||.|-..+.
T Consensus 235 ~~t~~~~C~~Cg~~PtiP--~~~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIP--HVIG-KCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccCCceeeccCCCCCCC--eeec-cccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 344578899999876554 2233 49999999999987663 478999977665
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.26 E-value=9.7e-05 Score=49.11 Aligned_cols=42 Identities=21% Similarity=0.677 Sum_probs=27.1
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhc--CCCCcc
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT--HTTCPL 144 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~ 144 (251)
-...|||.+..|..+ ++-. .|+|+|-+..|..||.+ ...||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 356799999999865 3333 49999999999999943 456998
No 54
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.22 E-value=0.0001 Score=66.14 Aligned_cols=46 Identities=33% Similarity=0.893 Sum_probs=37.2
Q ss_pred ccccccccccccc-CCceeEcCCCCCcccHhhHHHHHhc--CCCCccccC
Q 025541 101 DTQCSVCLADYQA-EDKLQQIPACGHAFHMDCIDHWLTT--HTTCPLCRL 147 (251)
Q Consensus 101 ~~~C~IC~~~~~~-~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~ 147 (251)
+.-|..|-+.+.- +..+..+| |.|+||..|+...|.. ..+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3459999998854 34566787 9999999999999975 457999984
No 55
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.20 E-value=0.00013 Score=65.62 Aligned_cols=47 Identities=28% Similarity=0.885 Sum_probs=37.6
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhHHHHHhc--CCCCccccCcccCCC
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT--HTTCPLCRLSLLAPA 153 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 153 (251)
-|-||-+. ...+++-| |||..|..|+..|-.. .++||.||..+....
T Consensus 371 LCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 371 LCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 49999865 33566777 9999999999999753 678999999886543
No 56
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.17 E-value=0.00021 Score=65.80 Aligned_cols=54 Identities=26% Similarity=0.693 Sum_probs=45.1
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCCCCC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPAKAS 156 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 156 (251)
.+..|+||+..+..+... . .|||.||..|+..|+..+..||.|+..+.......
T Consensus 20 ~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP 73 (391)
T ss_pred ccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhccC
Confidence 457899999999876543 3 49999999999999999999999998887665554
No 57
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.11 E-value=0.00025 Score=64.91 Aligned_cols=49 Identities=37% Similarity=0.857 Sum_probs=41.8
Q ss_pred CCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 99 IRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
..+..|.||+..+..+ ..+| |||.||..||.+-+.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 3578999999888764 4556 99999999999988888889999999875
No 58
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.08 E-value=0.00033 Score=71.55 Aligned_cols=65 Identities=23% Similarity=0.605 Sum_probs=46.7
Q ss_pred HhhCCceeecc--CCCCCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcC----------CCCccccCccc
Q 025541 85 REMLPIVIYKE--SFSIRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTH----------TTCPLCRLSLL 150 (251)
Q Consensus 85 ~~~lp~~~~~~--~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~----------~~CP~Cr~~~~ 150 (251)
.+-||-+..+. ..+..|+.|-||+-+--.....+.+. |+|+||..|.+.-|.+. -.||+|+.++.
T Consensus 3468 E~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3468 EHCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hhcccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 33455443332 23456788999998876666777885 99999999998777643 25999998874
No 59
>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=96.98 E-value=0.00028 Score=54.64 Aligned_cols=36 Identities=22% Similarity=0.641 Sum_probs=30.0
Q ss_pred cccccccccccccCCceeEcCCCC------CcccHhhHHHHHh
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACG------HAFHMDCIDHWLT 137 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~------H~fh~~Ci~~wl~ 137 (251)
..+|.||++.+.....+..++ || |+||..|+.+|-.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 468999999998855666776 76 9999999999943
No 60
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.002 Score=56.74 Aligned_cols=48 Identities=25% Similarity=0.500 Sum_probs=37.3
Q ss_pred CCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcc
Q 025541 99 IRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSL 149 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 149 (251)
.....|+||+.....+-.+. .-|-+||+.||-.++..+..||+=..++
T Consensus 298 ~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 34568999999877653332 2699999999999999999999864443
No 61
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.86 E-value=0.00082 Score=42.81 Aligned_cols=40 Identities=25% Similarity=0.899 Sum_probs=27.3
Q ss_pred ccccccccccCCceeEcCCCC-----CcccHhhHHHHHh--cCCCCccc
Q 025541 104 CSVCLADYQAEDKLQQIPACG-----HAFHMDCIDHWLT--THTTCPLC 145 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~wl~--~~~~CP~C 145 (251)
|-||++.-.... ..+.| |+ -..|..|+.+|+. .+..|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679999876655 44566 65 4789999999998 45679887
No 62
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.85 E-value=0.00035 Score=55.47 Aligned_cols=40 Identities=28% Similarity=0.711 Sum_probs=31.6
Q ss_pred CceeeccCC-CCCcccccccccccccCCceeEcCCCCCcccH
Q 025541 89 PIVIYKESF-SIRDTQCSVCLADYQAEDKLQQIPACGHAFHM 129 (251)
Q Consensus 89 p~~~~~~~~-~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~ 129 (251)
|.+.|.++. .....+|.|||+++..++.+..|| |-.+||+
T Consensus 164 PrlsYNdDVL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 164 PRLSYNDDVLKDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred cccccccchhcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 444454442 334578999999999999999999 9999996
No 63
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.80 E-value=0.00026 Score=62.37 Aligned_cols=50 Identities=22% Similarity=0.574 Sum_probs=40.0
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPA 153 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 153 (251)
..+|.+|-.-|.....+ . .|-|.||+.||...|.....||+|...+-...
T Consensus 15 ~itC~LC~GYliDATTI--~-eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 15 HITCRLCGGYLIDATTI--T-ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred ceehhhccceeecchhH--H-HHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 45799998877654332 2 59999999999999999999999988775543
No 64
>PHA02862 5L protein; Provisional
Probab=96.72 E-value=0.0012 Score=51.64 Aligned_cols=47 Identities=21% Similarity=0.641 Sum_probs=35.6
Q ss_pred cccccccccccccCCceeEcCCCC-----CcccHhhHHHHHhc--CCCCccccCcccCC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACG-----HAFHMDCIDHWLTT--HTTCPLCRLSLLAP 152 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 152 (251)
++.|-||+++-... .-| |. ...|..|+.+|+.. +..|++|+.+....
T Consensus 2 ~diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 35799999985433 244 64 58999999999974 56799999987643
No 65
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.67 E-value=0.0016 Score=55.21 Aligned_cols=54 Identities=13% Similarity=0.289 Sum_probs=47.2
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPA 153 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 153 (251)
.-+.|+||.+.+.......+|..|||+|+.+|..+.+.....||+|-.++...+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 346799999999998888888889999999999999999999999988876543
No 66
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.66 E-value=0.0043 Score=54.05 Aligned_cols=50 Identities=32% Similarity=0.717 Sum_probs=37.7
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHh-cCCCCccc-cCcccCCC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT-THTTCPLC-RLSLLAPA 153 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~C-r~~~~~~~ 153 (251)
...|+.|..-+..+.+. +.|+|.||..||..-|. ..+.||.| |+++....
T Consensus 274 ~LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~ 325 (427)
T COG5222 274 SLKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDG 325 (427)
T ss_pred cccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCcccccchhhc
Confidence 36799998877665433 46999999999987765 67899999 55665543
No 67
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.55 E-value=0.0023 Score=50.90 Aligned_cols=50 Identities=24% Similarity=0.697 Sum_probs=36.7
Q ss_pred CCCcccccccccccccCCceeEcCCCCC-----cccHhhHHHHHhc--CCCCccccCcccCC
Q 025541 98 SIRDTQCSVCLADYQAEDKLQQIPACGH-----AFHMDCIDHWLTT--HTTCPLCRLSLLAP 152 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H-----~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 152 (251)
...+..|-||+++... . ..| |.. ..|..|+..|+.. ...|++|+......
T Consensus 5 s~~~~~CRIC~~~~~~--~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 5 SLMDKCCWICKDEYDV--V--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCCeeEecCCCCCC--c--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 4456789999988532 1 235 553 6799999999984 55799999877544
No 68
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.54 E-value=0.0011 Score=61.85 Aligned_cols=50 Identities=24% Similarity=0.660 Sum_probs=38.6
Q ss_pred CCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhc-----CCCCccccCcccCC
Q 025541 99 IRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT-----HTTCPLCRLSLLAP 152 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~~~~~ 152 (251)
.+..+|.+|.++-+.. ... .|.|.||+.||..++.. +-+||.|...+.-.
T Consensus 534 k~~~~C~lc~d~aed~---i~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDY---IES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhhh---Hhh-hhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 3567899999886643 334 39999999999999863 56899998877554
No 69
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.54 E-value=0.002 Score=41.03 Aligned_cols=45 Identities=29% Similarity=0.656 Sum_probs=23.1
Q ss_pred ccccccccccCCceeEcC-CCCCcccHhhHHHHHh-cCCCCccccCcc
Q 025541 104 CSVCLADYQAEDKLQQIP-ACGHAFHMDCIDHWLT-THTTCPLCRLSL 149 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~-~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~ 149 (251)
|++|.+++...+. ...| .|++.++..|...-+. ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999944432 2333 5899999999999886 478999999864
No 70
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.53 E-value=0.00092 Score=49.79 Aligned_cols=32 Identities=38% Similarity=0.827 Sum_probs=26.5
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHH
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCID 133 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~ 133 (251)
.+..|++|...+..+ ...+.| |||+||..|+.
T Consensus 77 ~~~~C~vC~k~l~~~-~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNS-VFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCc-eEEEeC-CCeEEeccccc
Confidence 456799999999874 566777 99999999985
No 71
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.43 E-value=0.0014 Score=59.39 Aligned_cols=37 Identities=22% Similarity=0.724 Sum_probs=32.6
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHh
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT 137 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~ 137 (251)
....|.||+++.....-...+| |+|+||+.|+..++.
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFT 219 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHH
Confidence 4568999999987767888898 999999999999986
No 72
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.32 E-value=0.0027 Score=56.49 Aligned_cols=50 Identities=24% Similarity=0.581 Sum_probs=41.2
Q ss_pred CCCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 98 SIRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
..++..|+||+..- ......| |+|.=|+.||.+.|...+.|=.|+..+..
T Consensus 419 ~sEd~lCpICyA~p---i~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 419 DSEDNLCPICYAGP---INAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CcccccCcceeccc---chhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 45788999998642 2345566 99999999999999999999999988764
No 73
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.27 E-value=0.0016 Score=63.85 Aligned_cols=50 Identities=28% Similarity=0.744 Sum_probs=37.3
Q ss_pred CCCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhc-------CCCCccccC
Q 025541 98 SIRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT-------HTTCPLCRL 147 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-------~~~CP~Cr~ 147 (251)
...-++|.||++.+.....+---..|-|+||..||..|-.. ...||.|+.
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 34568899999999876544322247799999999999763 235999973
No 74
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.19 E-value=0.0026 Score=52.22 Aligned_cols=47 Identities=23% Similarity=0.552 Sum_probs=38.7
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
...|.||.++|..+. +. .|||.||..|...-++....|-+|.+....
T Consensus 196 PF~C~iCKkdy~spv---vt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G 242 (259)
T COG5152 196 PFLCGICKKDYESPV---VT-ECGHSFCSLCAIRKYQKGDECGVCGKATYG 242 (259)
T ss_pred ceeehhchhhccchh---hh-hcchhHHHHHHHHHhccCCcceecchhhcc
Confidence 457999999998753 33 499999999999888888999999776543
No 75
>PHA03096 p28-like protein; Provisional
Probab=96.09 E-value=0.003 Score=55.56 Aligned_cols=48 Identities=23% Similarity=0.519 Sum_probs=33.6
Q ss_pred ccccccccccccC----CceeEcCCCCCcccHhhHHHHHhc---CCC---CccccCcc
Q 025541 102 TQCSVCLADYQAE----DKLQQIPACGHAFHMDCIDHWLTT---HTT---CPLCRLSL 149 (251)
Q Consensus 102 ~~C~IC~~~~~~~----~~~~~~~~C~H~fh~~Ci~~wl~~---~~~---CP~Cr~~~ 149 (251)
-.|.||++..... ..--.++.|.|.||..||+.|... ..+ ||.|+..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 4699999987542 233356689999999999999863 234 55555444
No 76
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.05 E-value=0.0064 Score=52.95 Aligned_cols=56 Identities=18% Similarity=0.418 Sum_probs=42.2
Q ss_pred CCCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCCC
Q 025541 98 SIRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPAK 154 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 154 (251)
....+.|||...+|........+-.|||+|...+|...- ....||+|-.++...+.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~Di 165 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDI 165 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCE
Confidence 345688999999996544444443499999999999973 35679999988875543
No 77
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.88 E-value=0.0057 Score=54.22 Aligned_cols=57 Identities=19% Similarity=0.377 Sum_probs=41.1
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHh-cCCCCccccCcccCCCCCC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT-THTTCPLCRLSLLAPAKAS 156 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~~~~~~ 156 (251)
+++-|++|+++|...++-..--+||...|.-|....-+ .+..||-||.....+....
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~ 70 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRY 70 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeE
Confidence 34559999999987766544335998888888665433 3678999999887766543
No 78
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.78 E-value=0.0093 Score=53.05 Aligned_cols=53 Identities=25% Similarity=0.597 Sum_probs=41.0
Q ss_pred ccCCCCCcccccccccccccCCceeEcCCCCCcccHhhHHHH--HhcCCCCccccCccc
Q 025541 94 KESFSIRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHW--LTTHTTCPLCRLSLL 150 (251)
Q Consensus 94 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w--l~~~~~CP~Cr~~~~ 150 (251)
.++.+.++..|.||-+.+. ...++| |+|..|--|-.+. |..++.||+||....
T Consensus 54 addtDEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 54 ADDTDEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 3445566788999998875 567788 9999999997543 567889999998653
No 79
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.69 E-value=0.0042 Score=60.98 Aligned_cols=42 Identities=29% Similarity=0.804 Sum_probs=32.3
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcc
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSL 149 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 149 (251)
..|..|--.+..+. +-. .|||.||.+|+. .....||.|+..+
T Consensus 841 skCs~C~~~LdlP~-VhF--~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPF-VHF--LCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccce-eee--ecccHHHHHhhc---cCcccCCccchhh
Confidence 57999998887652 222 399999999999 4566899998733
No 80
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.63 E-value=0.0059 Score=53.17 Aligned_cols=47 Identities=19% Similarity=0.386 Sum_probs=39.2
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
.+.|-||...|..+.. . .|+|.||..|-..-++....|++|.+.+..
T Consensus 241 Pf~c~icr~~f~~pVv---t-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVV---T-KCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred Cccccccccccccchh---h-cCCceeehhhhccccccCCcceeccccccc
Confidence 4569999999987633 3 499999999999988888999999877654
No 81
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.42 E-value=0.0064 Score=51.60 Aligned_cols=44 Identities=27% Similarity=0.677 Sum_probs=31.5
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCccc
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLL 150 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 150 (251)
.|--|..--. ++...++. |+|+||..|...- ....||+|++.+-
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIR 48 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceee
Confidence 3666654433 55666665 9999999998763 2338999999864
No 82
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.32 E-value=0.0032 Score=54.71 Aligned_cols=43 Identities=23% Similarity=0.695 Sum_probs=32.1
Q ss_pred cccccccccccccCCceeEcCCCCC-cccHhhHHHHHhcCCCCccccCcccC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGH-AFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H-~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
+.-|.|||+... ....|+ ||| +-|.+|-+.. +.||+||+.+..
T Consensus 300 ~~LC~ICmDaP~---DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPR---DCVFLE-CGHMVTCTKCGKRM----NECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCc---ceEEee-cCcEEeehhhcccc----ccCchHHHHHHH
Confidence 567999998754 456777 999 4577786553 379999987754
No 83
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.26 E-value=0.01 Score=37.03 Aligned_cols=41 Identities=22% Similarity=0.680 Sum_probs=22.7
Q ss_pred ccccccccccCCceeEcCCCCCcccHhhHHHHHhcCC--CCccc
Q 025541 104 CSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHT--TCPLC 145 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~--~CP~C 145 (251)
|.+|.+-+..++.-... .|+=.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 66777776665333222 4888999999999998654 79988
No 84
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.98 E-value=0.016 Score=46.92 Aligned_cols=30 Identities=33% Similarity=0.946 Sum_probs=24.5
Q ss_pred CCCCcccHhhHHHHHhc----C-------CCCccccCcccC
Q 025541 122 ACGHAFHMDCIDHWLTT----H-------TTCPLCRLSLLA 151 (251)
Q Consensus 122 ~C~H~fh~~Ci~~wl~~----~-------~~CP~Cr~~~~~ 151 (251)
+||.-||.-|+..||+. . ..||.|-.++..
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 59999999999999973 1 149999888754
No 85
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=94.95 E-value=0.016 Score=52.49 Aligned_cols=29 Identities=24% Similarity=0.945 Sum_probs=22.7
Q ss_pred CCCcccHhhHHHHHhcC-------------CCCccccCcccC
Q 025541 123 CGHAFHMDCIDHWLTTH-------------TTCPLCRLSLLA 151 (251)
Q Consensus 123 C~H~fh~~Ci~~wl~~~-------------~~CP~Cr~~~~~ 151 (251)
|.-.+|.+|+-+|+..+ -.||+||+.+..
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 56788999999998642 259999998653
No 86
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.89 E-value=0.014 Score=52.33 Aligned_cols=44 Identities=30% Similarity=0.677 Sum_probs=31.2
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
...|.||+++... ...+| |||+-| |..-... ...||+||..+..
T Consensus 305 p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~~-l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 305 PDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSKH-LPQCPVCRQRIRL 348 (355)
T ss_pred CCceEEecCCccc---eeeec-CCcEEE--chHHHhh-CCCCchhHHHHHH
Confidence 4569999998765 56677 999966 6554322 3349999987643
No 87
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.85 E-value=0.002 Score=58.00 Aligned_cols=51 Identities=31% Similarity=0.679 Sum_probs=42.2
Q ss_pred cccccccccccccC-CceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCC
Q 025541 101 DTQCSVCLADYQAE-DKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAP 152 (251)
Q Consensus 101 ~~~C~IC~~~~~~~-~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 152 (251)
...|+||...+... +.+..+. |||.+|..||.+||.....||.|+..+...
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 34699999998765 4555554 999999999999999988999999988643
No 88
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.81 E-value=0.019 Score=37.51 Aligned_cols=46 Identities=24% Similarity=0.490 Sum_probs=32.2
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPA 153 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 153 (251)
..|-.|...- .+-.++| |+|+.+..|..-+ +-+-||.|.+++...+
T Consensus 8 ~~~~~~~~~~---~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFVG---TKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEccccc---ccccccc-ccceeeccccChh--hccCCCCCCCcccCCC
Confidence 3466665442 2345677 9999999998764 4457999998886543
No 89
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.50 E-value=0.016 Score=50.86 Aligned_cols=43 Identities=28% Similarity=0.662 Sum_probs=30.9
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCccc
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLL 150 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 150 (251)
.|--|-..+.. .-+++| |.|+||.+|-+. ...+.||.|-..|.
T Consensus 92 fCd~Cd~PI~I--YGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 92 FCDRCDFPIAI--YGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred eecccCCccee--eecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence 36667655443 567888 999999999865 34668999966553
No 90
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.26 E-value=0.029 Score=49.61 Aligned_cols=47 Identities=32% Similarity=0.840 Sum_probs=38.3
Q ss_pred ccccccccccccCC---ceeEcCCCCCcccHhhHHHHHhc-CCCCccccCcc
Q 025541 102 TQCSVCLADYQAED---KLQQIPACGHAFHMDCIDHWLTT-HTTCPLCRLSL 149 (251)
Q Consensus 102 ~~C~IC~~~~~~~~---~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~ 149 (251)
..|-||-++|...+ ..+++. |||.|+..|+.+.+.. ...||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 46999999998763 455564 9999999999998875 45799999986
No 91
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.13 E-value=0.065 Score=34.96 Aligned_cols=35 Identities=29% Similarity=0.816 Sum_probs=30.6
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHH
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDH 134 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~ 134 (251)
....|++|-+.|..++.+.+-|.||-.+|+.|-..
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 34679999999998888888999999999999765
No 92
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.53 E-value=0.033 Score=55.20 Aligned_cols=36 Identities=28% Similarity=0.676 Sum_probs=28.5
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHh
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT 137 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~ 137 (251)
.++.|.+|...+... .-.+.| |||.||++||.+-..
T Consensus 816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHVL 851 (911)
T ss_pred CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHHH
Confidence 567899999888664 445566 999999999987653
No 93
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.47 E-value=0.029 Score=55.10 Aligned_cols=47 Identities=30% Similarity=0.751 Sum_probs=36.4
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhc--CCCCccccCcccCCC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT--HTTCPLCRLSLLAPA 153 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 153 (251)
..|.||++ .+.....+ |+|.||..|+..-+.. ...||+||..+....
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 68999999 23445555 9999999999998874 336999998776544
No 94
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.41 E-value=0.046 Score=47.72 Aligned_cols=45 Identities=24% Similarity=0.642 Sum_probs=36.4
Q ss_pred ccccccccccccCCc-eeEcCCCCCcccHhhHHHHHhcCCCCccccC
Q 025541 102 TQCSVCLADYQAEDK-LQQIPACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~-~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
.-||||.+.+..... +..++ |||.-|..|+......+-+||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 349999998765443 44555 9999999999999887799999987
No 95
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=93.23 E-value=0.049 Score=53.15 Aligned_cols=40 Identities=30% Similarity=0.753 Sum_probs=28.5
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCcc
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPL 144 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~ 144 (251)
.|.||.-.+..... ... .|+|+-|..|.+.|+.....||.
T Consensus 1030 ~C~~C~l~V~gss~-~Cg-~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGSSN-FCG-TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeEeeEeeccch-hhc-cccccccHHHHHHHHhcCCcCCC
Confidence 36666555433222 223 39999999999999999999984
No 96
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.21 E-value=0.028 Score=53.82 Aligned_cols=43 Identities=21% Similarity=0.576 Sum_probs=31.4
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
..|.||+..|....-..+.+.|||..|.+|+.... +.+|| |+.
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCc
Confidence 35999998886554444444699999999998854 45788 543
No 97
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.88 E-value=0.034 Score=57.15 Aligned_cols=45 Identities=27% Similarity=0.773 Sum_probs=37.1
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCc
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLS 148 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 148 (251)
-..|.||++.+..-..+. .|||.+|..|+..|+..+..||+|+..
T Consensus 1153 ~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred ccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhh
Confidence 347999999987433332 499999999999999999999999743
No 98
>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=92.58 E-value=0.06 Score=33.97 Aligned_cols=29 Identities=28% Similarity=0.812 Sum_probs=21.9
Q ss_pred CC-CcccHhhHHHHHhcCCCCccccCcccC
Q 025541 123 CG-HAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 123 C~-H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
|. |..|..|+...|.+...||+|..+++.
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 76 999999999999999999999988864
No 99
>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=92.27 E-value=0.16 Score=40.52 Aligned_cols=37 Identities=22% Similarity=0.549 Sum_probs=22.1
Q ss_pred cccccccccccccCCceeEcC---C-----CC-CcccHhhHHHHHh
Q 025541 101 DTQCSVCLADYQAEDKLQQIP---A-----CG-HAFHMDCIDHWLT 137 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~---~-----C~-H~fh~~Ci~~wl~ 137 (251)
+..|+|||+--....-+.-.. + |+ -.-|..||+++-+
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 568999998755432221111 1 44 2457889998864
No 100
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.83 E-value=0.13 Score=46.85 Aligned_cols=45 Identities=22% Similarity=0.473 Sum_probs=38.5
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcC---CCCccc
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTH---TTCPLC 145 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~---~~CP~C 145 (251)
.-..|||=.+.-.....+..+. |||+..++-|.+..+.. ..||.|
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYC 380 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYC 380 (394)
T ss_pred ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCC
Confidence 4578999998888888888897 99999999999987643 579999
No 101
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.99 E-value=0.12 Score=45.20 Aligned_cols=29 Identities=21% Similarity=0.643 Sum_probs=23.2
Q ss_pred CCCcccHhhHHHHHhc-------------CCCCccccCcccC
Q 025541 123 CGHAFHMDCIDHWLTT-------------HTTCPLCRLSLLA 151 (251)
Q Consensus 123 C~H~fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~ 151 (251)
|...+|..|+-+|+.. +-+||+||+.+.-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 6788999999999852 3469999997754
No 102
>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=90.63 E-value=0.08 Score=44.95 Aligned_cols=49 Identities=31% Similarity=0.676 Sum_probs=36.2
Q ss_pred Ccccccccccc-cccC-CceeEcCCCCCcccHhhHHHHHhcC-CCCc--cccCc
Q 025541 100 RDTQCSVCLAD-YQAE-DKLQQIPACGHAFHMDCIDHWLTTH-TTCP--LCRLS 148 (251)
Q Consensus 100 ~~~~C~IC~~~-~~~~-~~~~~~~~C~H~fh~~Ci~~wl~~~-~~CP--~Cr~~ 148 (251)
.+..||||..+ |-.+ .++.+.|.|-|..|..|+++.+.+. ..|| -|.+-
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kI 62 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKI 62 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence 45679999875 3333 3455566799999999999999864 5798 77543
No 103
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.12 E-value=0.19 Score=44.60 Aligned_cols=43 Identities=28% Similarity=0.629 Sum_probs=33.7
Q ss_pred CcccccccccccccCCceeEcCCC--CCcccHhhHHHHHhcCCCCccccCccc
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPAC--GHAFHMDCIDHWLTTHTTCPLCRLSLL 150 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C--~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 150 (251)
.-.+||||.+.+..+.. +| ||+.|..|-.+ ....||.||.++.
T Consensus 47 ~lleCPvC~~~l~~Pi~-----QC~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIF-----QCDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCcccce-----ecCCCcEehhhhhhh---hcccCCccccccc
Confidence 34679999999987522 36 79999999874 4567999999886
No 104
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.55 E-value=0.24 Score=48.96 Aligned_cols=52 Identities=21% Similarity=0.647 Sum_probs=38.9
Q ss_pred CcccccccccccccCCceeEcCCCC-----CcccHhhHHHHHhc--CCCCccccCcccCCC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACG-----HAFHMDCIDHWLTT--HTTCPLCRLSLLAPA 153 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~-----H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 153 (251)
++..|-||..+-..++.+. -| |. ...|..|+.+|+.- ...|-+|+.++.-.+
T Consensus 11 d~~~CRICr~e~~~d~pLf-hP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLF-HP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred cchhceeecCCCCCCCcCc-cc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 4578999999877666554 34 54 46899999999984 557999998775443
No 105
>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=89.28 E-value=0.41 Score=41.85 Aligned_cols=52 Identities=29% Similarity=0.620 Sum_probs=36.8
Q ss_pred cccccccc-cccCCceeEcCCCCCcccHhhHHHHHhc-CCCCccccCcccCCCC
Q 025541 103 QCSVCLAD-YQAEDKLQQIPACGHAFHMDCIDHWLTT-HTTCPLCRLSLLAPAK 154 (251)
Q Consensus 103 ~C~IC~~~-~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~ 154 (251)
.|++|.-. |..++...+...|+|..|..|++..+.. ...||-|-..+-....
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence 49999864 4444433333359999999999998875 5579999776654443
No 106
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=89.10 E-value=0.67 Score=35.60 Aligned_cols=19 Identities=26% Similarity=0.457 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHhhc
Q 025541 35 FFTFILLLLFYLFYLRRRR 53 (251)
Q Consensus 35 ~~~~i~~~~~~~~~~~~~~ 53 (251)
+++++.++++++|+++|++
T Consensus 74 ~aGvIg~Illi~y~irR~~ 92 (122)
T PF01102_consen 74 MAGVIGIILLISYCIRRLR 92 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3334444444455555444
No 107
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.33 E-value=0.5 Score=40.57 Aligned_cols=58 Identities=12% Similarity=0.268 Sum_probs=42.2
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCCCCCCcc
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPAKASSEL 159 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~~~ 159 (251)
....|+|=--+|........+-.|||+|-..-+.+. ...+|++|.+.+...+......
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg 167 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNG 167 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeCC
Confidence 456799988888765544444459999999988874 4678999999887766544333
No 108
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=88.25 E-value=0.45 Score=36.88 Aligned_cols=54 Identities=20% Similarity=0.516 Sum_probs=37.1
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHh---cCCCCccccCcccCCC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT---THTTCPLCRLSLLAPA 153 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~---~~~~CP~Cr~~~~~~~ 153 (251)
.-.+|-||.+.-.+..-+.----||-..|..|-...++ .+..||.|+..+....
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 34689999987654332221114999999998765544 4788999999886543
No 109
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=88.13 E-value=0.31 Score=43.15 Aligned_cols=52 Identities=21% Similarity=0.698 Sum_probs=38.1
Q ss_pred cccccccccccccCCc-eeEcCCCC-----CcccHhhHHHHHh--cCCCCccccCcccCCC
Q 025541 101 DTQCSVCLADYQAEDK-LQQIPACG-----HAFHMDCIDHWLT--THTTCPLCRLSLLAPA 153 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~-~~~~~~C~-----H~fh~~Ci~~wl~--~~~~CP~Cr~~~~~~~ 153 (251)
+..|-||..+...... ....| |. +..|+.|+..|+. ....|..|........
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~~ 137 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINVG 137 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceecc
Confidence 4679999997654322 34455 64 6789999999998 5667999988666553
No 110
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.79 E-value=0.29 Score=47.17 Aligned_cols=49 Identities=24% Similarity=0.711 Sum_probs=39.6
Q ss_pred CCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCCCCC
Q 025541 99 IRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAPAKA 155 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 155 (251)
.....|.||+.++ ..+..+ |. |..|+..|+..+..||+|+..+......
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 3467799999998 445555 88 9999999999999999999888765543
No 111
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.37 E-value=0.34 Score=41.66 Aligned_cols=52 Identities=21% Similarity=0.638 Sum_probs=35.5
Q ss_pred CCCcccccccccccccCCce-eEcCCCC-----CcccHhhHHHHHhcC--------CCCccccCccc
Q 025541 98 SIRDTQCSVCLADYQAEDKL-QQIPACG-----HAFHMDCIDHWLTTH--------TTCPLCRLSLL 150 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~~~~-~~~~~C~-----H~fh~~Ci~~wl~~~--------~~CP~Cr~~~~ 150 (251)
...+..|=||+..=++.... -+-| |. |-.|..|+..|+..+ .+||-|+....
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred cccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 34567799999764443322 2334 53 889999999999632 25999988654
No 112
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=85.93 E-value=0.68 Score=45.53 Aligned_cols=41 Identities=22% Similarity=0.500 Sum_probs=31.3
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCcc
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPL 144 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~ 144 (251)
..|.+|-..+.. ....-+.|||.=|..|+++|+.....||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 358888766542 33344479999999999999998888876
No 113
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.34 E-value=0.29 Score=45.03 Aligned_cols=38 Identities=24% Similarity=0.760 Sum_probs=27.6
Q ss_pred CcccccccccccccC-CceeEcCCCCCcccHhhHHHHHhc
Q 025541 100 RDTQCSVCLADYQAE-DKLQQIPACGHAFHMDCIDHWLTT 138 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~-~~~~~~~~C~H~fh~~Ci~~wl~~ 138 (251)
...+|.||+.+.... ....+. .|+|.||..|+.+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 356799999444333 444434 59999999999999874
No 114
>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=84.00 E-value=0.96 Score=29.00 Aligned_cols=42 Identities=19% Similarity=0.608 Sum_probs=20.3
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhHHHHHhc-----CCCCccccCc
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT-----HTTCPLCRLS 148 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~ 148 (251)
.|+|....+.. .++... |.|.-|.+ +..||.. .-.||+|.++
T Consensus 4 ~CPls~~~i~~--P~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SS--EEEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEe--CccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 58998888766 455554 99986544 5566653 3469999763
No 115
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=83.82 E-value=6.4 Score=29.65 Aligned_cols=22 Identities=18% Similarity=0.303 Sum_probs=16.0
Q ss_pred HHHhcCCCCccccCcccCCCCC
Q 025541 134 HWLTTHTTCPLCRLSLLAPAKA 155 (251)
Q Consensus 134 ~wl~~~~~CP~Cr~~~~~~~~~ 155 (251)
+.|.+...|+.|++++..+...
T Consensus 80 KmLGr~D~CM~C~~pLTLd~~l 101 (114)
T PF11023_consen 80 KMLGRVDACMHCKEPLTLDPSL 101 (114)
T ss_pred hhhchhhccCcCCCcCccCchh
Confidence 3455667899999999876544
No 116
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=82.58 E-value=0.72 Score=45.59 Aligned_cols=52 Identities=12% Similarity=0.223 Sum_probs=36.7
Q ss_pred CcccccccccccccCCc---eeEcCCCCCcccHhhHHHHHhc------CCCCccccCcccC
Q 025541 100 RDTQCSVCLADYQAEDK---LQQIPACGHAFHMDCIDHWLTT------HTTCPLCRLSLLA 151 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~---~~~~~~C~H~fh~~Ci~~wl~~------~~~CP~Cr~~~~~ 151 (251)
..+.|.||..++..++. .-.+..|+|.||..||..|+.+ +-.|++|..-|..
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS 155 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence 45779999988877332 1122259999999999999863 3358888776643
No 117
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=82.23 E-value=0.46 Score=45.73 Aligned_cols=42 Identities=21% Similarity=0.746 Sum_probs=26.2
Q ss_pred Ccccccccccc-----cccCCceeEcCCCCCcccHhhHHHHHhcCCCCccc
Q 025541 100 RDTQCSVCLAD-----YQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLC 145 (251)
Q Consensus 100 ~~~~C~IC~~~-----~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~C 145 (251)
....|.||... |.. +.++.--.|+++||.+|+.. .+..||.|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~-~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFET-RNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCccccccc-ccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 35668888332 221 22232225999999999876 33449999
No 118
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.47 E-value=1.8 Score=40.68 Aligned_cols=37 Identities=32% Similarity=0.805 Sum_probs=29.9
Q ss_pred CCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhc
Q 025541 99 IRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT 138 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~ 138 (251)
.....|.||.+.+.. .+..+. |+|.|+..|...++..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 456789999999865 444554 9999999999999874
No 119
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.79 E-value=0.94 Score=38.09 Aligned_cols=40 Identities=28% Similarity=0.674 Sum_probs=28.1
Q ss_pred ccccccccccCCceeEcCCCCC-cccHhhHHHHHhcCCCCccccCcccC
Q 025541 104 CSVCLADYQAEDKLQQIPACGH-AFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~~C~H-~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
|-.|.+. ...+..+| |.| .+|..|-.. -..||+|+.....
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhc
Confidence 6666544 55688888 987 677888765 2359999876543
No 120
>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=78.72 E-value=2.5 Score=27.74 Aligned_cols=45 Identities=29% Similarity=0.674 Sum_probs=33.3
Q ss_pred cccccccccccCCceeEcCCCC--CcccHhhHHHHHhcCCCCccccCcccC
Q 025541 103 QCSVCLADYQAEDKLQQIPACG--HAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~--H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
.|-.|-.++.....-..+ |. ..||.+|....| +..||.|-..+..
T Consensus 7 nCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 477788887666533333 65 689999999976 5789999877754
No 121
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=78.28 E-value=3.2 Score=38.47 Aligned_cols=34 Identities=26% Similarity=0.672 Sum_probs=26.6
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHh
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT 137 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~ 137 (251)
++..|+||..=|..+ +++| |+|..|..|-..-+.
T Consensus 3 eelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYREP---IILP-CSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccCc---eEee-cccHHHHHHHHhhcc
Confidence 356799998877654 6777 999999999886554
No 122
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=77.98 E-value=3.3 Score=29.05 Aligned_cols=53 Identities=15% Similarity=0.384 Sum_probs=20.3
Q ss_pred CcccccccccccccCC--ceeE-cCCCCCcccHhhHHHHHh-cCCCCccccCcccCC
Q 025541 100 RDTQCSVCLADYQAED--KLQQ-IPACGHAFHMDCIDHWLT-THTTCPLCRLSLLAP 152 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~--~~~~-~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~~ 152 (251)
....|.||-+.+.... .+.+ .-.|+--.|+.|..-=.+ .++.||-|+......
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRH 64 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccc
Confidence 4567999999874322 1222 114778889999875444 578899999877543
No 123
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=77.57 E-value=1.6 Score=36.56 Aligned_cols=41 Identities=32% Similarity=0.886 Sum_probs=28.9
Q ss_pred Ccccccccccc-----cccCCceeEcCCCCCcccHhhHHHHHhcCCCCcccc
Q 025541 100 RDTQCSVCLAD-----YQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCR 146 (251)
Q Consensus 100 ~~~~C~IC~~~-----~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr 146 (251)
.+..|-||-++ |.. +.+..-+.|+-+||..|..+ ..||.|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 35678888753 222 24555557999999999883 5699993
No 124
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=77.47 E-value=1.4 Score=38.15 Aligned_cols=49 Identities=24% Similarity=0.602 Sum_probs=35.2
Q ss_pred cccccccccccccCCceeEc---CCCCCcccHhhHHHHHhc---------CCCCccccCcc
Q 025541 101 DTQCSVCLADYQAEDKLQQI---PACGHAFHMDCIDHWLTT---------HTTCPLCRLSL 149 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~---~~C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~~ 149 (251)
..+|-+|.+++...+..+.. +.|+-++|..|+..-+.. ...||.|++.+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 36899999999554444432 268899999999984431 34699998854
No 125
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=77.32 E-value=2.8 Score=37.26 Aligned_cols=54 Identities=26% Similarity=0.610 Sum_probs=36.2
Q ss_pred CCcccccccccccc---------------cC-CceeEcCCCCCcccHhhHHHHHhc---------CCCCccccCcccCCC
Q 025541 99 IRDTQCSVCLADYQ---------------AE-DKLQQIPACGHAFHMDCIDHWLTT---------HTTCPLCRLSLLAPA 153 (251)
Q Consensus 99 ~~~~~C~IC~~~~~---------------~~-~~~~~~~~C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~~~~~~ 153 (251)
..+.+|++|+..-. .+ -.-...| |||+--.+-..-|-+. +..||.|-+.+..+.
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~ 417 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQ 417 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccCC
Confidence 34788999996511 00 0122345 9999988999999762 346999987775543
No 126
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=77.09 E-value=0.69 Score=45.23 Aligned_cols=46 Identities=22% Similarity=0.689 Sum_probs=35.3
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhc---CCCCccccCcccC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT---HTTCPLCRLSLLA 151 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 151 (251)
.+|+||+..+..+ ..+ .|.|.|+..|+..-+.. ...||+|+..+..
T Consensus 22 lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 22 LECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred ccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 4799999998776 223 59999999999876654 3469999876643
No 127
>PLN02436 cellulose synthase A
Probab=76.85 E-value=5.4 Score=41.18 Aligned_cols=53 Identities=13% Similarity=0.394 Sum_probs=35.4
Q ss_pred Cccccccccccccc---CCceeEcCCCCCcccHhhHHHHHh-cCCCCccccCcccCC
Q 025541 100 RDTQCSVCLADYQA---EDKLQQIPACGHAFHMDCIDHWLT-THTTCPLCRLSLLAP 152 (251)
Q Consensus 100 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~~ 152 (251)
....|.||-+++.. ++.-.....|+--.|+.|..-=.+ .++.||-|++.....
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~ 91 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRI 91 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhc
Confidence 34579999999742 222222224777899999953222 477899999887633
No 128
>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=76.50 E-value=1.4 Score=24.28 Aligned_cols=23 Identities=30% Similarity=0.681 Sum_probs=12.7
Q ss_pred cccccccccccCCceeEcCCCCCcc
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAF 127 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~f 127 (251)
.||-|...+.. ..+.-|.|||.|
T Consensus 2 ~CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--hcCcCCCCCCCC
Confidence 47777666533 233344577766
No 129
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=76.41 E-value=2 Score=33.16 Aligned_cols=15 Identities=40% Similarity=0.935 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHhh
Q 025541 38 FILLLLFYLFYLRRR 52 (251)
Q Consensus 38 ~i~~~~~~~~~~~~~ 52 (251)
+++++++++++++.+
T Consensus 10 ~~i~l~~~~~~~~~r 24 (130)
T PF12273_consen 10 VAILLFLFLFYCHNR 24 (130)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444455544433
No 130
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=76.26 E-value=1.3 Score=37.09 Aligned_cols=43 Identities=23% Similarity=0.638 Sum_probs=33.4
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccC
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
..|.+|..-+-.+ ++.- .|+-.+|..|+..++++...||.|..
T Consensus 182 k~Cn~Ch~LvIqg--~rCg-~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG--IRCG-SCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHhHhHHHhhee--eccC-cccchhhhHHHHHHhcccCcCCchhc
Confidence 4699998766443 2222 48889999999999999999999943
No 131
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=76.12 E-value=5 Score=31.63 Aligned_cols=15 Identities=27% Similarity=0.361 Sum_probs=7.8
Q ss_pred CCcCCCCCCCCcccc
Q 025541 7 SCCSSPPKSSSVSAE 21 (251)
Q Consensus 7 ~~~~~~~~~~~~~~~ 21 (251)
..|.+++..+++.++
T Consensus 15 ~ecls~~~~psffst 29 (189)
T PF05568_consen 15 GECLSPVTPPSFFST 29 (189)
T ss_pred hhhcCCCCCccHHHH
Confidence 445566655554443
No 132
>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=75.22 E-value=5 Score=35.69 Aligned_cols=25 Identities=28% Similarity=0.526 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Q 025541 29 IFSVPIFFTFILLLLFYLFYLRRRR 53 (251)
Q Consensus 29 ~~~v~i~~~~i~~~~~~~~~~~~~~ 53 (251)
+..++.+++++++++++++++|.||
T Consensus 259 ~aSiiaIliIVLIMvIIYLILRYRR 283 (299)
T PF02009_consen 259 IASIIAILIIVLIMVIIYLILRYRR 283 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333344444443
No 133
>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=74.58 E-value=2.5 Score=27.28 Aligned_cols=43 Identities=26% Similarity=0.567 Sum_probs=21.4
Q ss_pred ccccccccccCC------ceeEcCCCCCcccHhhHHHHHhcCCCCcccc
Q 025541 104 CSVCLADYQAED------KLQQIPACGHAFHMDCIDHWLTTHTTCPLCR 146 (251)
Q Consensus 104 C~IC~~~~~~~~------~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr 146 (251)
|--|+..|.... ....-|.|++.|+.+|=.---..-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 555666665542 3345557999999999543223344688883
No 134
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.01 E-value=1.4 Score=43.68 Aligned_cols=44 Identities=23% Similarity=0.597 Sum_probs=31.4
Q ss_pred CcccccccccccccC----CceeEcCCCCCcccHhhHHHHHhcCCCCccc
Q 025541 100 RDTQCSVCLADYQAE----DKLQQIPACGHAFHMDCIDHWLTTHTTCPLC 145 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~----~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~C 145 (251)
.+..|.-|.+..... ..+.+.- |||+||..|+..-..++. |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 345799999886532 3455564 999999999987766554 6555
No 135
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=72.50 E-value=3.4 Score=36.92 Aligned_cols=49 Identities=24% Similarity=0.591 Sum_probs=36.7
Q ss_pred ccccccccccccCCceeEcC-CCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 102 TQCSVCLADYQAEDKLQQIP-ACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~-~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
..|+||.+.....+... +| .|+|..|..|+..-...+.+||.||++...
T Consensus 250 ~s~p~~~~~~~~~d~~~-lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNF-LPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCccccccccc-ccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 67999999875444332 33 488888888888888889999999966544
No 136
>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=72.26 E-value=7.7 Score=29.81 Aligned_cols=38 Identities=16% Similarity=0.175 Sum_probs=19.5
Q ss_pred CCcccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 025541 16 SSVSAELKVYQAFIFSVPIFFTFILLLLFYLFYLRRRR 53 (251)
Q Consensus 16 ~~~~~~l~~~~~~~~~v~i~~~~i~~~~~~~~~~~~~~ 53 (251)
.+--....+..|++-+|+.++++|+++.|++.-++++-
T Consensus 58 ~h~fs~~~i~~Ii~gv~aGvIg~Illi~y~irR~~Kk~ 95 (122)
T PF01102_consen 58 VHRFSEPAIIGIIFGVMAGVIGIILLISYCIRRLRKKS 95 (122)
T ss_dssp SSSSS-TCHHHHHHHHHHHHHHHHHHHHHHHHHHS---
T ss_pred ccCccccceeehhHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 33333444555555555555666666667766666655
No 137
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.10 E-value=1.7 Score=40.08 Aligned_cols=43 Identities=28% Similarity=0.626 Sum_probs=30.9
Q ss_pred ccccccccccccCC--ceeEcCCCCCcccHhhHHHHHhcCCCCccc
Q 025541 102 TQCSVCLADYQAED--KLQQIPACGHAFHMDCIDHWLTTHTTCPLC 145 (251)
Q Consensus 102 ~~C~IC~~~~~~~~--~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~C 145 (251)
..|++|.-.+.... ....-. |||.||+.|...|...+..|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 46888887654322 233343 99999999999998888877555
No 138
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=71.50 E-value=2.6 Score=37.42 Aligned_cols=45 Identities=20% Similarity=0.411 Sum_probs=35.0
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhc---CCCCccc
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT---HTTCPLC 145 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~---~~~CP~C 145 (251)
.-..||+-.+.-........+. |||+.-.+-++..-+. .+.||.|
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred ceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 3467998777766666777786 9999999999886653 4569999
No 139
>PF02060 ISK_Channel: Slow voltage-gated potassium channel; InterPro: IPR000369 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Two types of beta subunit (KCNE and KCNAB) are presently known to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like). However, not all combinations of alpha and beta subunits are possible. The KCNE family of K+ channel subunits are membrane glycoproteins that possess a single transmembrane (TM) domain. They share no structural relationship with the alpha subunit proteins, which possess pore forming domains. The subunits appear to have a regulatory function, modulating the kinetics and voltage dependence of the alpha subunits of voltage-dependent K+ channels. KCNE subunits are formed from short polypeptides of ~130 amino acids, and are divided into five subfamilies: KCNE1 (MinK/IsK), KCNE2 (MiRP1), KCNE3 (MiRP2), KCNE4 (MiRP3) and KCNE1L (AMMECR2). ; GO: 0005249 voltage-gated potassium channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2K21_A.
Probab=70.93 E-value=9.8 Score=29.28 Aligned_cols=28 Identities=21% Similarity=0.414 Sum_probs=15.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 025541 26 QAFIFSVPIFFTFILLLLFYLFYLRRRR 53 (251)
Q Consensus 26 ~~~~~~v~i~~~~i~~~~~~~~~~~~~~ 53 (251)
.++|++|..||+|+++.+.+-++.-+++
T Consensus 44 ~lYIL~vmgfFgff~~gImlsyvRSKK~ 71 (129)
T PF02060_consen 44 YLYILVVMGFFGFFTVGIMLSYVRSKKR 71 (129)
T ss_dssp T-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred eehHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3555566666666666555555544443
No 140
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=70.89 E-value=6 Score=34.74 Aligned_cols=20 Identities=30% Similarity=0.949 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHhhcccc
Q 025541 37 TFILLLLFYLFYLRRRRVDW 56 (251)
Q Consensus 37 ~~i~~~~~~~~~~~~~~~~~ 56 (251)
+.++++++|+++.|||++-|
T Consensus 271 l~vvliiLYiWlyrrRK~sw 290 (295)
T TIGR01478 271 LTVVLIILYIWLYRRRKKSW 290 (295)
T ss_pred HHHHHHHHHHHHHHhhcccc
Confidence 33445555555555555544
No 141
>PTZ00370 STEVOR; Provisional
Probab=69.66 E-value=6.5 Score=34.59 Aligned_cols=20 Identities=30% Similarity=0.939 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHhhcccc
Q 025541 37 TFILLLLFYLFYLRRRRVDW 56 (251)
Q Consensus 37 ~~i~~~~~~~~~~~~~~~~~ 56 (251)
..++++++|+++.|||++-|
T Consensus 267 l~vvliilYiwlyrrRK~sw 286 (296)
T PTZ00370 267 LAVVLIILYIWLYRRRKNSW 286 (296)
T ss_pred HHHHHHHHHHHHHHhhcchh
Confidence 33444555555556555545
No 142
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=68.87 E-value=14 Score=38.28 Aligned_cols=52 Identities=13% Similarity=0.418 Sum_probs=34.9
Q ss_pred CcccccccccccccC---CceeEcCCCCCcccHhhHHH-HHhcCCCCccccCcccC
Q 025541 100 RDTQCSVCLADYQAE---DKLQQIPACGHAFHMDCIDH-WLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~---~~~~~~~~C~H~fh~~Ci~~-wl~~~~~CP~Cr~~~~~ 151 (251)
....|.||-+++... +.-.....|+--.|+.|..- .-..++.||-|++...-
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr 71 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKR 71 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 345799999997432 22222224777799999943 22357889999988763
No 143
>PLN02189 cellulose synthase
Probab=68.82 E-value=5.6 Score=40.96 Aligned_cols=52 Identities=17% Similarity=0.423 Sum_probs=35.6
Q ss_pred Cccccccccccccc---CCceeEcCCCCCcccHhhHHHHH-hcCCCCccccCcccC
Q 025541 100 RDTQCSVCLADYQA---EDKLQQIPACGHAFHMDCIDHWL-TTHTTCPLCRLSLLA 151 (251)
Q Consensus 100 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~~ 151 (251)
....|.||-+++.. ++.-+....|+--.|+.|..-=. ..++.||-|++....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 34579999999753 22222233588889999995322 247789999988763
No 144
>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus [].; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane
Probab=67.85 E-value=10 Score=27.33 Aligned_cols=23 Identities=26% Similarity=0.280 Sum_probs=10.8
Q ss_pred CccCC-CCcCCCCCCCCcccchhh
Q 025541 2 SYYTP-SCCSSPPKSSSVSAELKV 24 (251)
Q Consensus 2 ~~~~~-~~~~~~~~~~~~~~~l~~ 24 (251)
+|++| ..-..+.++...++++-.
T Consensus 16 ~y~~P~~p~~~p~ss~~~ws~vv~ 39 (91)
T PF01708_consen 16 SYQTPRVPTAAPSSSGLPWSRVVE 39 (91)
T ss_pred cccCCCCCCCCCCCCCCcceeEee
Confidence 45666 344444444445555433
No 145
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=67.74 E-value=13 Score=22.35 Aligned_cols=14 Identities=21% Similarity=0.505 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHHH
Q 025541 37 TFILLLLFYLFYLR 50 (251)
Q Consensus 37 ~~i~~~~~~~~~~~ 50 (251)
+++++.++++.+.+
T Consensus 17 ~iiii~~~~YaCcy 30 (38)
T PF02439_consen 17 AIIIICMFYYACCY 30 (38)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 146
>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=67.42 E-value=3.5 Score=27.86 Aligned_cols=36 Identities=14% Similarity=0.483 Sum_probs=18.5
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHH
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWL 136 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl 136 (251)
...|.+|...|..-..-..-..||++|+..|.....
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 457999999996544333333599999999986544
No 147
>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 PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=67.13 E-value=9.9 Score=28.06 Aligned_cols=38 Identities=16% Similarity=0.013 Sum_probs=17.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhhhhhh
Q 025541 26 QAFIFSVPIFFTFILLLLFYLFYLRRRRVDWSSLRMRT 63 (251)
Q Consensus 26 ~~~~~~v~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~~ 63 (251)
|.+++.|++..+.+.+++++...+...++.+.+++.+.
T Consensus 17 W~~LVGVv~~al~~SlLIalaaKC~~~~k~~~SY~H~r 54 (102)
T PF15176_consen 17 WPFLVGVVVTALVTSLLIALAAKCPVWYKYLASYRHHR 54 (102)
T ss_pred cHhHHHHHHHHHHHHHHHHHHHHhHHHHHHHhcccccc
Confidence 33444444444444445444444444444444444433
No 149
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=66.85 E-value=4 Score=24.28 Aligned_cols=26 Identities=31% Similarity=0.860 Sum_probs=15.5
Q ss_pred cccccccccccCCc-------eeEcCCCCCccc
Q 025541 103 QCSVCLADYQAEDK-------LQQIPACGHAFH 128 (251)
Q Consensus 103 ~C~IC~~~~~~~~~-------~~~~~~C~H~fh 128 (251)
.|+=|...|..++. ...-+.|+|+|.
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 58888877765442 222335777764
No 150
>PF12877 DUF3827: Domain of unknown function (DUF3827); InterPro: IPR024606 The function of the proteins in this entry is not currently known, but one of the human proteins (Q9HCM3 from SWISSPROT) has been implicated in pilocytic astrocytomas [, , ]. In the majority of cases of pilocytic astrocytomas a tandem duplication produces an in-frame fusion of the gene encoding this protein and the BRAF oncogene. The resulting fusion protein has constitutive BRAF kinase activity and is capable of transforming cells.
Probab=66.67 E-value=4.8 Score=39.21 Aligned_cols=37 Identities=11% Similarity=0.432 Sum_probs=29.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcccchh
Q 025541 22 LKVYQAFIFSVPIFFTFILLLLFYLFYLRRRRVDWSS 58 (251)
Q Consensus 22 l~~~~~~~~~v~i~~~~i~~~~~~~~~~~~~~~~~~~ 58 (251)
-++|+|+-+++.+++++++++++++.++++.+..+..
T Consensus 267 ~NlWII~gVlvPv~vV~~Iiiil~~~LCRk~K~eFqp 303 (684)
T PF12877_consen 267 NNLWIIAGVLVPVLVVLLIIIILYWKLCRKNKLEFQP 303 (684)
T ss_pred CCeEEEehHhHHHHHHHHHHHHHHHHHhcccccCCCc
Confidence 4567778888898989888888888888877665443
No 151
>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=66.13 E-value=3.5 Score=27.97 Aligned_cols=12 Identities=25% Similarity=1.002 Sum_probs=8.8
Q ss_pred cccHhhHHHHHh
Q 025541 126 AFHMDCIDHWLT 137 (251)
Q Consensus 126 ~fh~~Ci~~wl~ 137 (251)
-||+.|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999986
No 152
>PF15102 TMEM154: TMEM154 protein family
Probab=65.98 E-value=1.7 Score=34.39 Aligned_cols=9 Identities=22% Similarity=0.992 Sum_probs=5.1
Q ss_pred hhHHHHHhc
Q 025541 130 DCIDHWLTT 138 (251)
Q Consensus 130 ~Ci~~wl~~ 138 (251)
.=|++|+..
T Consensus 128 eeldkwm~s 136 (146)
T PF15102_consen 128 EELDKWMNS 136 (146)
T ss_pred HHHHhHHHh
Confidence 346667653
No 153
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.33 E-value=2.5 Score=37.34 Aligned_cols=50 Identities=22% Similarity=0.536 Sum_probs=39.7
Q ss_pred CCCcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCccc
Q 025541 98 SIRDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLL 150 (251)
Q Consensus 98 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 150 (251)
......|-||..-+..+...- +|.|.|+..|...|......||.|+....
T Consensus 102 ~~~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred cCCccceeeeeeeEEeccccc---CceeeeeecCCchhhhhhhccchhhcCcC
Confidence 345677999998876543332 59999999999999999999999987554
No 154
>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=64.62 E-value=2 Score=31.84 Aligned_cols=17 Identities=18% Similarity=0.516 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 025541 31 SVPIFFTFILLLLFYLF 47 (251)
Q Consensus 31 ~v~i~~~~i~~~~~~~~ 47 (251)
+++++.+++++.++|+|
T Consensus 68 lls~v~IlVily~IyYF 84 (101)
T PF06024_consen 68 LLSFVCILVILYAIYYF 84 (101)
T ss_pred HHHHHHHHHHHhhheEE
Confidence 33333333333333333
No 155
>PHA02902 putative IMV membrane protein; Provisional
Probab=64.53 E-value=19 Score=24.31 Aligned_cols=12 Identities=17% Similarity=0.122 Sum_probs=5.4
Q ss_pred hcCCCHHHHhhC
Q 025541 77 ELGLKKELREML 88 (251)
Q Consensus 77 ~~~~~~~~~~~l 88 (251)
+..++...++.+
T Consensus 51 ~D~lTpDQirAl 62 (70)
T PHA02902 51 KDSLTPDQIKAL 62 (70)
T ss_pred hccCCHHHHHHH
Confidence 334444444443
No 156
>PHA03164 hypothetical protein; Provisional
Probab=63.88 E-value=9.3 Score=26.65 Aligned_cols=42 Identities=19% Similarity=0.388 Sum_probs=18.6
Q ss_pred CcCCCCCCCCcccchhhh---hHHHHHHHHHHHHHHHHHHHHHHH
Q 025541 8 CCSSPPKSSSVSAELKVY---QAFIFSVPIFFTFILLLLFYLFYL 49 (251)
Q Consensus 8 ~~~~~~~~~~~~~~l~~~---~~~~~~v~i~~~~i~~~~~~~~~~ 49 (251)
|..-+..++..|+..+-. .-|+++.++++..|++++|+++++
T Consensus 37 clpPpqisrtawnlwnnrRktftFlvLtgLaIamILfiifvlyvF 81 (88)
T PHA03164 37 CLPPPQISRTAWNLWNNRRKTFTFLVLTGLAIAMILFIIFVLYVF 81 (88)
T ss_pred ecCCcccCchhHHHHHhhhheeehHHHHHHHHHHHHHHHHHHHhe
Confidence 444343355555443321 233444444445555554444443
No 157
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.35 E-value=4.9 Score=35.22 Aligned_cols=39 Identities=15% Similarity=0.328 Sum_probs=28.5
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTH 139 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~ 139 (251)
-..|.+|.+.+++...+..-..=.|.||..|-++-++.+
T Consensus 268 pLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 467999999998765543111125999999999998754
No 158
>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=62.01 E-value=2.6 Score=38.64 Aligned_cols=51 Identities=25% Similarity=0.566 Sum_probs=0.0
Q ss_pred Cccccccccccccc----------------CCceeEcCCCCCcccHhhHHHHHhc---------CCCCccccCcccC
Q 025541 100 RDTQCSVCLADYQA----------------EDKLQQIPACGHAFHMDCIDHWLTT---------HTTCPLCRLSLLA 151 (251)
Q Consensus 100 ~~~~C~IC~~~~~~----------------~~~~~~~~~C~H~fh~~Ci~~wl~~---------~~~CP~Cr~~~~~ 151 (251)
...+|++|+..-.. .-.....| |||+--.+..+-|-+. +..||.|-..+..
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp -----------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 36789999965210 01223455 9999999999999752 3469999887764
No 159
>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=61.24 E-value=7 Score=22.47 Aligned_cols=37 Identities=22% Similarity=0.603 Sum_probs=23.6
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcc
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSL 149 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 149 (251)
.|..|.+.+...... +.. =+..||..|+ .|..|+..|
T Consensus 1 ~C~~C~~~i~~~~~~-~~~-~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELV-LRA-LGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEE-EEe-CCccccccCC--------CCcccCCcC
Confidence 378888887665222 222 4678887765 477776655
No 160
>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=60.83 E-value=5 Score=25.21 Aligned_cols=43 Identities=28% Similarity=0.586 Sum_probs=28.7
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhHHHHHh------cCCCCcccc
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT------THTTCPLCR 146 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~------~~~~CP~Cr 146 (251)
.|.||...-..+..+.-- .|+..||..|+..-.. ....||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~-~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD-SCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS-TTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcC-CCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 388998844444344333 5999999999865433 245788885
No 161
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=60.53 E-value=6.7 Score=23.20 Aligned_cols=26 Identities=35% Similarity=0.868 Sum_probs=15.2
Q ss_pred cccccccccccCCc-------eeEcCCCCCccc
Q 025541 103 QCSVCLADYQAEDK-------LQQIPACGHAFH 128 (251)
Q Consensus 103 ~C~IC~~~~~~~~~-------~~~~~~C~H~fh 128 (251)
+|+=|...|..++. ...-+.|+|.|+
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 58888887765442 112224777764
No 162
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=60.04 E-value=11 Score=24.13 Aligned_cols=23 Identities=30% Similarity=0.272 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 025541 29 IFSVPIFFTFILLLLFYLFYLRR 51 (251)
Q Consensus 29 ~~~v~i~~~~i~~~~~~~~~~~~ 51 (251)
+++|++|+++.++.+.+.-.+++
T Consensus 4 ~~iV~i~iv~~lLg~~I~~~~K~ 26 (50)
T PF12606_consen 4 FLIVSIFIVMGLLGLSICTTLKA 26 (50)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhc
Confidence 44555555555555555544443
No 163
>PLN02400 cellulose synthase
Probab=59.81 E-value=8.3 Score=39.98 Aligned_cols=52 Identities=15% Similarity=0.407 Sum_probs=34.4
Q ss_pred CcccccccccccccCC--ceeE-cCCCCCcccHhhHHH-HHhcCCCCccccCcccC
Q 025541 100 RDTQCSVCLADYQAED--KLQQ-IPACGHAFHMDCIDH-WLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~--~~~~-~~~C~H~fh~~Ci~~-wl~~~~~CP~Cr~~~~~ 151 (251)
....|.||-+++.... .+.+ .-.|+--.|+.|..- .-..++.||-|++...-
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccc
Confidence 3457999999974322 1222 224777799999942 12247789999988763
No 164
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=58.83 E-value=28 Score=21.66 Aligned_cols=24 Identities=21% Similarity=0.391 Sum_probs=12.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHH
Q 025541 24 VYQAFIFSVPIFFTFILLLLFYLF 47 (251)
Q Consensus 24 ~~~~~~~~v~i~~~~i~~~~~~~~ 47 (251)
.|+-.+|.++|++.++..+.+.+|
T Consensus 3 ~wlt~iFsvvIil~If~~iGl~Iy 26 (49)
T PF11044_consen 3 TWLTTIFSVVIILGIFAWIGLSIY 26 (49)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455566655555554444444
No 165
>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=58.53 E-value=6.9 Score=25.07 Aligned_cols=39 Identities=21% Similarity=0.513 Sum_probs=25.5
Q ss_pred ccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCC
Q 025541 104 CSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAP 152 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 152 (251)
|.-|...+.....+... -+..||..|+ .|-.|+..|...
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEcccc--------ccCCCCCccCCC
Confidence 66777777755443222 6788887764 588887777544
No 166
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=58.01 E-value=13 Score=28.13 Aligned_cols=46 Identities=20% Similarity=0.414 Sum_probs=33.3
Q ss_pred cccccccccccccCC----------ceeEcCCCCCcccHhhHHHHHhcCCCCcccc
Q 025541 101 DTQCSVCLADYQAED----------KLQQIPACGHAFHMDCIDHWLTTHTTCPLCR 146 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~----------~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr 146 (251)
...|--|+..|.... ....-+.|++.||.+|=.-+-..=..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 346999999886431 1123446999999999877777666799995
No 167
>PTZ00046 rifin; Provisional
Probab=56.93 E-value=20 Score=32.72 Aligned_cols=28 Identities=29% Similarity=0.504 Sum_probs=13.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 025541 26 QAFIFSVPIFFTFILLLLFYLFYLRRRR 53 (251)
Q Consensus 26 ~~~~~~v~i~~~~i~~~~~~~~~~~~~~ 53 (251)
..++..++.+++++++++++++++|.||
T Consensus 315 taIiaSiiAIvVIVLIMvIIYLILRYRR 342 (358)
T PTZ00046 315 TAIIASIVAIVVIVLIMVIIYLILRYRR 342 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3344444444444444444444555444
No 168
>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=55.74 E-value=3.8 Score=37.56 Aligned_cols=45 Identities=31% Similarity=0.609 Sum_probs=0.0
Q ss_pred cccccccccccccC-----------CceeEcCCCCCcccHhhHHHHHh------cCCCCccccCcc
Q 025541 101 DTQCSVCLADYQAE-----------DKLQQIPACGHAFHMDCIDHWLT------THTTCPLCRLSL 149 (251)
Q Consensus 101 ~~~C~IC~~~~~~~-----------~~~~~~~~C~H~fh~~Ci~~wl~------~~~~CP~Cr~~~ 149 (251)
-..||+=|..+..+ +....+ .|||++.+. .|-. ....||+||..-
T Consensus 277 rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl-~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 277 RPQCPVGLNTLVFPSKSRKDVPDERQPWVYL-NCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp ------------------------------------------------------------------
T ss_pred CCCCCcCCCccccccccccccccccCceeec-cccceeeec---ccccccccccccccCCCccccC
Confidence 45577766655332 233455 499988754 6754 245799998753
No 169
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=55.32 E-value=22 Score=32.37 Aligned_cols=28 Identities=25% Similarity=0.485 Sum_probs=12.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 025541 26 QAFIFSVPIFFTFILLLLFYLFYLRRRR 53 (251)
Q Consensus 26 ~~~~~~v~i~~~~i~~~~~~~~~~~~~~ 53 (251)
..++..++.+++++++++++++++|.||
T Consensus 310 t~IiaSiIAIvvIVLIMvIIYLILRYRR 337 (353)
T TIGR01477 310 TPIIASIIAILIIVLIMVIIYLILRYRR 337 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3344444444444444444444444444
No 170
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=55.11 E-value=22 Score=25.20 Aligned_cols=20 Identities=15% Similarity=0.474 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 025541 30 FSVPIFFTFILLLLFYLFYL 49 (251)
Q Consensus 30 ~~v~i~~~~i~~~~~~~~~~ 49 (251)
++|++++.++++.+.|+.+.
T Consensus 12 liv~~iiaIvvW~iv~ieYr 31 (81)
T PF00558_consen 12 LIVALIIAIVVWTIVYIEYR 31 (81)
T ss_dssp HHHHHHHHHHHHHHH-----
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333
No 171
>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=54.78 E-value=9.2 Score=24.54 Aligned_cols=36 Identities=17% Similarity=0.501 Sum_probs=24.8
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHh
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT 137 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~ 137 (251)
..|.+|-..|.....-..-..||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 469999888865432222335999999999876544
No 172
>PRK02935 hypothetical protein; Provisional
Probab=54.39 E-value=70 Score=23.89 Aligned_cols=20 Identities=20% Similarity=0.305 Sum_probs=13.8
Q ss_pred HhcCCCCccccCcccCCCCC
Q 025541 136 LTTHTTCPLCRLSLLAPAKA 155 (251)
Q Consensus 136 l~~~~~CP~Cr~~~~~~~~~ 155 (251)
|.+-..|..|+.++..+...
T Consensus 83 LGrvD~CM~C~~PLTLd~~l 102 (110)
T PRK02935 83 LGRVDACMHCNQPLTLDRSL 102 (110)
T ss_pred ccceeecCcCCCcCCcCccc
Confidence 34555799999998765543
No 173
>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=53.25 E-value=4.9 Score=27.68 Aligned_cols=40 Identities=23% Similarity=0.541 Sum_probs=20.5
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCccc
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLL 150 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 150 (251)
..||.|..++.... +|.+|..|-.. +.....||-|..++-
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHH
Confidence 46999998875432 56666666654 244567999987763
No 174
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.75 E-value=10 Score=32.73 Aligned_cols=33 Identities=21% Similarity=0.355 Sum_probs=26.3
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhc
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT 138 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~ 138 (251)
+.|++||.++..+ .+.| =||+|++.||.+++..
T Consensus 44 dcCsLtLqPc~dP---vit~-~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 44 DCCSLTLQPCRDP---VITP-DGYLFDREAILEYILA 76 (303)
T ss_pred ceeeeecccccCC---ccCC-CCeeeeHHHHHHHHHH
Confidence 5799999998765 3444 7999999999998753
No 175
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=52.66 E-value=30 Score=23.92 Aligned_cols=24 Identities=21% Similarity=0.501 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 025541 27 AFIFSVPIFFTFILLLLFYLFYLR 50 (251)
Q Consensus 27 ~~~~~v~i~~~~i~~~~~~~~~~~ 50 (251)
+.++.+++.|++++++.+++....
T Consensus 7 i~i~Gm~iVF~~L~lL~~~i~l~~ 30 (79)
T PF04277_consen 7 IMIIGMGIVFLVLILLILVISLMS 30 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444433333
No 176
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=52.48 E-value=8.4 Score=33.30 Aligned_cols=42 Identities=19% Similarity=0.369 Sum_probs=31.3
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcC--CCCccc
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTH--TTCPLC 145 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~--~~CP~C 145 (251)
...|||=...+..+..-+ .|||+|-++-|...+... -.||+=
T Consensus 176 s~rdPis~~~I~nPviSk---kC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISK---KCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred cccCchhhhhhhchhhhc---CcCcchhhhhHHHHhccCceeecccc
Confidence 466999877777653322 699999999999998763 357764
No 177
>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=51.68 E-value=31 Score=24.83 Aligned_cols=16 Identities=31% Similarity=0.818 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHhh
Q 025541 37 TFILLLLFYLFYLRRR 52 (251)
Q Consensus 37 ~~i~~~~~~~~~~~~~ 52 (251)
+|+++++.|+...++|
T Consensus 43 iFil~VilwfvCC~kR 58 (94)
T PF05393_consen 43 IFILLVILWFVCCKKR 58 (94)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3344444444443333
No 178
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=51.55 E-value=11 Score=33.54 Aligned_cols=27 Identities=19% Similarity=0.359 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 025541 28 FIFSVPIFFTFILLLLFYLFYLRRRRV 54 (251)
Q Consensus 28 ~~~~v~i~~~~i~~~~~~~~~~~~~~~ 54 (251)
+-++||+.++.+++++++.|++.|||.
T Consensus 273 vPIaVG~~La~lvlivLiaYli~Rrr~ 299 (306)
T PF01299_consen 273 VPIAVGAALAGLVLIVLIAYLIGRRRS 299 (306)
T ss_pred HHHHHHHHHHHHHHHHHHhheeEeccc
Confidence 334455555555555555555554443
No 179
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.14 E-value=12 Score=25.81 Aligned_cols=45 Identities=33% Similarity=0.726 Sum_probs=29.2
Q ss_pred ccccccccccCCceeEcCCC--CCcccHhhHHHHHhcCCCCccccCcccCC
Q 025541 104 CSVCLADYQAEDKLQQIPAC--GHAFHMDCIDHWLTTHTTCPLCRLSLLAP 152 (251)
Q Consensus 104 C~IC~~~~~~~~~~~~~~~C--~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 152 (251)
|--|-.++-.+..-..+ | .|.||.+|...-| +..||.|-..+...
T Consensus 8 CECCDrDLpp~s~dA~I--CtfEcTFCadCae~~l--~g~CPnCGGelv~R 54 (84)
T COG3813 8 CECCDRDLPPDSTDARI--CTFECTFCADCAENRL--HGLCPNCGGELVAR 54 (84)
T ss_pred CcccCCCCCCCCCceeE--EEEeeehhHhHHHHhh--cCcCCCCCchhhcC
Confidence 54455555443332222 5 4899999998754 46899998777643
No 180
>PF14147 Spore_YhaL: Sporulation protein YhaL
Probab=50.91 E-value=19 Score=23.22 Aligned_cols=18 Identities=11% Similarity=0.220 Sum_probs=11.3
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 025541 24 VYQAFIFSVPIFFTFILL 41 (251)
Q Consensus 24 ~~~~~~~~v~i~~~~i~~ 41 (251)
.||+++++++|++..+.+
T Consensus 2 PwWvY~vi~gI~~S~ym~ 19 (52)
T PF14147_consen 2 PWWVYFVIAGIIFSGYMA 19 (52)
T ss_pred cchHHHHHHHHHHHHHHH
Confidence 367777777766654443
No 181
>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 PHA02650 hypothetical protein; Provisional
Probab=49.74 E-value=39 Score=23.77 Aligned_cols=25 Identities=0% Similarity=0.055 Sum_probs=12.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHH
Q 025541 23 KVYQAFIFSVPIFFTFILLLLFYLF 47 (251)
Q Consensus 23 ~~~~~~~~~v~i~~~~i~~~~~~~~ 47 (251)
..+++++.++.++++++++++++-.
T Consensus 48 ~~~~~ii~i~~v~i~~l~~flYLK~ 72 (81)
T PHA02650 48 NGQNFIFLIFSLIIVALFSFFVFKG 72 (81)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444455555555565555443
No 183
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=49.66 E-value=18 Score=32.42 Aligned_cols=47 Identities=19% Similarity=0.490 Sum_probs=32.7
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccC
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
....|-.|.++.......+.- .|.|.||.+|=.---..-..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcCC
Confidence 345599997777665555444 49999999996544344457999963
No 184
>PF15018 InaF-motif: TRP-interacting helix
Probab=49.44 E-value=19 Score=21.68 Aligned_cols=28 Identities=18% Similarity=0.559 Sum_probs=20.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 025541 23 KVYQAFIFSVPIFFTFILLLLFYLFYLR 50 (251)
Q Consensus 23 ~~~~~~~~~v~i~~~~i~~~~~~~~~~~ 50 (251)
.+..++.++.++.+..+++.++|+++..
T Consensus 6 R~~tV~~Yl~~VSl~Ai~LsiYY~f~W~ 33 (38)
T PF15018_consen 6 RVLTVVAYLFSVSLAAIVLSIYYIFFWD 33 (38)
T ss_pred eeHHHHHHHHHHHHHHHHHHHHHheeeC
Confidence 3556777777777888888888887653
No 185
>TIGR01195 oadG_fam sodium pump decarboxylases, gamma subunit. Most sequences scoring between the noise and trusted cutoffs are eukaryotic sodium channel proteins.
Probab=47.75 E-value=40 Score=23.85 Aligned_cols=27 Identities=19% Similarity=0.376 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025541 26 QAFIFSVPIFFTFILLLLFYLFYLRRR 52 (251)
Q Consensus 26 ~~~~~~v~i~~~~i~~~~~~~~~~~~~ 52 (251)
.+.++.+++.|++++++++.+....+.
T Consensus 9 ~l~v~GM~~VF~fL~lLi~~i~~~~~~ 35 (82)
T TIGR01195 9 TLTVLGMGIVFLFLSLLIYAVRGMGKV 35 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666655555555544443
No 186
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=46.87 E-value=16 Score=30.97 Aligned_cols=9 Identities=0% Similarity=0.017 Sum_probs=3.4
Q ss_pred hhhHHHHHH
Q 025541 24 VYQAFIFSV 32 (251)
Q Consensus 24 ~~~~~~~~v 32 (251)
.++.+++.|
T Consensus 14 ~iLNiaI~I 22 (217)
T PF07423_consen 14 KILNIAIGI 22 (217)
T ss_pred hhHHHHHHH
Confidence 333333333
No 187
>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=46.59 E-value=12 Score=21.55 Aligned_cols=19 Identities=26% Similarity=0.754 Sum_probs=11.8
Q ss_pred CCCcccHhhHHHHHhcCCCCccccC
Q 025541 123 CGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 123 C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
|||++-..- ....||+|..
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 676654332 3447999965
No 188
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=46.15 E-value=43 Score=31.82 Aligned_cols=13 Identities=23% Similarity=0.559 Sum_probs=8.5
Q ss_pred cc-HhhHHHHHhcC
Q 025541 127 FH-MDCIDHWLTTH 139 (251)
Q Consensus 127 fh-~~Ci~~wl~~~ 139 (251)
|| +.|+..||+.+
T Consensus 289 fh~kGsL~dyL~~n 302 (534)
T KOG3653|consen 289 FHPKGSLCDYLKAN 302 (534)
T ss_pred eccCCcHHHHHHhc
Confidence 44 44888888754
No 189
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=45.87 E-value=3.3 Score=36.53 Aligned_cols=46 Identities=20% Similarity=0.299 Sum_probs=20.2
Q ss_pred cccccccccccccCCceeEcC--CCCCcccHhhHHHHHhcCCCCccccC
Q 025541 101 DTQCSVCLADYQAEDKLQQIP--ACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~--~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
...||||-..-.... +..-. +=.|.+|.-|-..|-.....||.|-.
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-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 468999987643221 11110 12467778888888877888999943
No 190
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=45.80 E-value=7.3 Score=25.43 Aligned_cols=20 Identities=30% Similarity=0.815 Sum_probs=14.8
Q ss_pred ceeEcCCCCCcccHhhHHHH
Q 025541 116 KLQQIPACGHAFHMDCIDHW 135 (251)
Q Consensus 116 ~~~~~~~C~H~fh~~Ci~~w 135 (251)
....-+.|+|.||..|...|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 33444358999999998887
No 191
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=44.88 E-value=28 Score=25.88 Aligned_cols=24 Identities=25% Similarity=0.536 Sum_probs=18.9
Q ss_pred CCcccHhhHHHHHhc---------CCCCccccC
Q 025541 124 GHAFHMDCIDHWLTT---------HTTCPLCRL 147 (251)
Q Consensus 124 ~H~fh~~Ci~~wl~~---------~~~CP~Cr~ 147 (251)
.=.||..||..++.. +..||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 668999999888742 346999987
No 192
>PF11395 DUF2873: Protein of unknown function (DUF2873); InterPro: IPR021532 This entry is represented by the human SARS coronavirus, Orf7b; it is a family of uncharacterised viral proteins.
Probab=44.00 E-value=59 Score=19.41 Aligned_cols=7 Identities=0% Similarity=0.225 Sum_probs=2.6
Q ss_pred hHHHHHH
Q 025541 26 QAFIFSV 32 (251)
Q Consensus 26 ~~~~~~v 32 (251)
.+++.++
T Consensus 8 dfylc~l 14 (43)
T PF11395_consen 8 DFYLCFL 14 (43)
T ss_pred HHHHHHH
Confidence 3333333
No 193
>PF15106 TMEM156: TMEM156 protein family
Probab=43.61 E-value=34 Score=28.77 Aligned_cols=9 Identities=33% Similarity=0.785 Sum_probs=3.2
Q ss_pred HHHHHHHHH
Q 025541 32 VPIFFTFIL 40 (251)
Q Consensus 32 v~i~~~~i~ 40 (251)
+.++++|++
T Consensus 180 vLVllVfif 188 (226)
T PF15106_consen 180 VLVLLVFIF 188 (226)
T ss_pred HHHHHHHHH
Confidence 333333333
No 194
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=43.51 E-value=36 Score=25.61 Aligned_cols=12 Identities=25% Similarity=0.559 Sum_probs=5.1
Q ss_pred HHHHHHHHHHHh
Q 025541 40 LLLLFYLFYLRR 51 (251)
Q Consensus 40 ~~~~~~~~~~~~ 51 (251)
.++.|++|.+..
T Consensus 76 aLVsFvIFLiiQ 87 (128)
T PF15145_consen 76 ALVSFVIFLIIQ 87 (128)
T ss_pred HHHHHHHHheee
Confidence 344444444443
No 195
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=43.46 E-value=31 Score=37.28 Aligned_cols=48 Identities=31% Similarity=0.593 Sum_probs=36.2
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhc----CCCCccccCcc
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT----HTTCPLCRLSL 149 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~----~~~CP~Cr~~~ 149 (251)
...|.+|+........+... .|.-.||..|++.-+.. ...||-||..-
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 34699999887665454444 48899999999998874 45799998755
No 196
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=43.19 E-value=87 Score=20.89 Aligned_cols=23 Identities=13% Similarity=0.141 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 025541 28 FIFSVPIFFTFILLLLFYLFYLR 50 (251)
Q Consensus 28 ~~~~v~i~~~~i~~~~~~~~~~~ 50 (251)
++...+.++.+++++.++++.++
T Consensus 9 ~a~a~~t~~~~l~fiavi~~ayr 31 (60)
T COG4736 9 FADAWGTIAFTLFFIAVIYFAYR 31 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 33344433333333333333333
No 197
>PHA03105 EEV glycoprotein; Provisional
Probab=42.86 E-value=8.4 Score=30.78 Aligned_cols=27 Identities=22% Similarity=0.519 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 025541 27 AFIFSVPIFFTFILLLLFYLFYLRRRR 53 (251)
Q Consensus 27 ~~~~~v~i~~~~i~~~~~~~~~~~~~~ 53 (251)
++++++++.+.+++++++++++.++..
T Consensus 4 ~iv~Y~vv~~SfiiLi~Yll~i~K~~i 30 (188)
T PHA03105 4 VIVVYVVVPLSFIVLILYIFFICKNTI 30 (188)
T ss_pred EEEEeeehHHHHHHHHHHHHHHHHHHH
Confidence 345566677777777777776666543
No 198
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=42.73 E-value=31 Score=22.57 Aligned_cols=16 Identities=0% Similarity=0.125 Sum_probs=7.0
Q ss_pred hhhhHHHHHHHHHHHH
Q 025541 23 KVYQAFIFSVPIFFTF 38 (251)
Q Consensus 23 ~~~~~~~~~v~i~~~~ 38 (251)
.+|.+++++++++++-
T Consensus 4 ~~wlIIviVlgvIigN 19 (55)
T PF11446_consen 4 NPWLIIVIVLGVIIGN 19 (55)
T ss_pred hhhHHHHHHHHHHHhH
Confidence 3444444444444333
No 199
>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=42.40 E-value=19 Score=20.08 Aligned_cols=29 Identities=17% Similarity=0.448 Sum_probs=10.1
Q ss_pred cccccccccccCCceeEcCCCCCcccHhhH
Q 025541 103 QCSVCLADYQAEDKLQQIPACGHAFHMDCI 132 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci 132 (251)
.|.+|...........-. .|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~-~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCS-ECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-T-TT-----HHHH
T ss_pred cCCcCCCcCCCCceEECc-cCCCccChhcC
Confidence 488888887652233333 49999999885
No 200
>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=42.09 E-value=16 Score=27.70 Aligned_cols=48 Identities=15% Similarity=0.287 Sum_probs=28.3
Q ss_pred CCcccccccccccccCC-ceeEcCCCCCcccHhhHHHHHhcC--CCCccccC
Q 025541 99 IRDTQCSVCLADYQAED-KLQQIPACGHAFHMDCIDHWLTTH--TTCPLCRL 147 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~~-~~~~~~~C~H~fh~~Ci~~wl~~~--~~CP~Cr~ 147 (251)
..+..|.+|...|..-. .-..-..|+|.+|..|-.. .... -.|-+|..
T Consensus 52 ~~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 52 YGERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp HCCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred cCCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 35678999998874321 2233336999999998665 1111 14877754
No 201
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=42.08 E-value=84 Score=19.76 Aligned_cols=10 Identities=30% Similarity=0.726 Sum_probs=4.0
Q ss_pred HHHHHHHHHH
Q 025541 41 LLLFYLFYLR 50 (251)
Q Consensus 41 ~~~~~~~~~~ 50 (251)
+..|+.++.+
T Consensus 24 ~~~F~~F~~K 33 (54)
T PF06716_consen 24 LVVFIWFVYK 33 (54)
T ss_pred HHHHHHHHHH
Confidence 3334444433
No 202
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=41.84 E-value=47 Score=25.89 Aligned_cols=28 Identities=18% Similarity=0.427 Sum_probs=16.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025541 25 YQAFIFSVPIFFTFILLLLFYLFYLRRR 52 (251)
Q Consensus 25 ~~~~~~~v~i~~~~i~~~~~~~~~~~~~ 52 (251)
++.+|-++++.+.|+++.+|++..+++.
T Consensus 2 ~ilyIs~~iiAiAf~vL~I~li~tlkkv 29 (139)
T COG4768 2 IILYISLAIIAIAFLVLVIYLIITLKKV 29 (139)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555666666666666666666643
No 203
>PF07406 NICE-3: NICE-3 protein; InterPro: IPR010876 This family consists of several eukaryotic NICE-3 and related proteins. The gene coding for NICE-3 is part of the epidermal differentiation complex (EDC), which comprises a large number of genes that are of crucial importance for the maturation of the human epidermis []. The function of NICE-3 is unknown.
Probab=41.66 E-value=21 Score=29.48 Aligned_cols=11 Identities=9% Similarity=0.193 Sum_probs=7.0
Q ss_pred cccHhhHHHHH
Q 025541 126 AFHMDCIDHWL 136 (251)
Q Consensus 126 ~fh~~Ci~~wl 136 (251)
....+-++.||
T Consensus 123 r~~G~~~R~~L 133 (186)
T PF07406_consen 123 RLPGENFRSYL 133 (186)
T ss_pred ccccccHHHHH
Confidence 34456677887
No 204
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=41.52 E-value=38 Score=25.46 Aligned_cols=6 Identities=33% Similarity=0.528 Sum_probs=2.2
Q ss_pred HHHHHH
Q 025541 44 FYLFYL 49 (251)
Q Consensus 44 ~~~~~~ 49 (251)
+|++++
T Consensus 17 ~yF~~i 22 (109)
T PRK05886 17 FMYFAS 22 (109)
T ss_pred HHHHHc
Confidence 333333
No 205
>PF07204 Orthoreo_P10: Orthoreovirus membrane fusion protein p10; InterPro: IPR009854 This family consists of several Orthoreovirus membrane fusion protein p10 sequences. p10 is thought to be a multifunctional protein that plays a key role in virus-host interaction [].
Probab=41.40 E-value=27 Score=25.44 Aligned_cols=17 Identities=6% Similarity=0.272 Sum_probs=7.1
Q ss_pred hhHHHHHHHHHHHHHHH
Q 025541 25 YQAFIFSVPIFFTFILL 41 (251)
Q Consensus 25 ~~~~~~~v~i~~~~i~~ 41 (251)
||.++...+.++.++++
T Consensus 41 yWpyLA~GGG~iLilIi 57 (98)
T PF07204_consen 41 YWPYLAAGGGLILILII 57 (98)
T ss_pred hhHHhhccchhhhHHHH
Confidence 44444444433333333
No 206
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=40.95 E-value=58 Score=23.29 Aligned_cols=20 Identities=30% Similarity=0.879 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 025541 28 FIFSVPIFFTFILLLLFYLF 47 (251)
Q Consensus 28 ~~~~v~i~~~~i~~~~~~~~ 47 (251)
|+.++..+++|+++++|+++
T Consensus 36 FvLVic~~lVfVii~lFi~l 55 (84)
T PF06143_consen 36 FVLVICCFLVFVIIVLFILL 55 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444433
No 207
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.56 E-value=27 Score=34.41 Aligned_cols=41 Identities=20% Similarity=0.442 Sum_probs=24.9
Q ss_pred ccccccccccccc-CCceeEcCCCCCcccHhhHHHHHhcCCCCccc
Q 025541 101 DTQCSVCLADYQA-EDKLQQIPACGHAFHMDCIDHWLTTHTTCPLC 145 (251)
Q Consensus 101 ~~~C~IC~~~~~~-~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~C 145 (251)
...|-+|...=.. .+..+.+ .|+-.||..| |+.-.+.||+|
T Consensus 654 ~r~C~vcq~pedse~~v~rt~-~C~~~~C~~c---~~~~~~~~~vC 695 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTT-FCYTPYCVAC---SLDYASISEVC 695 (717)
T ss_pred HHHHHHhcCCcCccccccCcc-ccCCcchHhh---hhhhhccCccc
Confidence 3468888765332 2223333 3777777776 44556679999
No 208
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=40.08 E-value=5.7 Score=35.11 Aligned_cols=36 Identities=25% Similarity=0.614 Sum_probs=24.7
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHhc
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT 138 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~ 138 (251)
..|.+|+++|..+......- |.-+||..|+..|+..
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTT 250 (288)
T ss_pred eecHHHHHHHhcccccchhh-cccccccccccccccc
Confidence 37888888886544444443 6668888888888764
No 209
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.92 E-value=14 Score=26.70 Aligned_cols=12 Identities=25% Similarity=1.019 Sum_probs=10.8
Q ss_pred cccHhhHHHHHh
Q 025541 126 AFHMDCIDHWLT 137 (251)
Q Consensus 126 ~fh~~Ci~~wl~ 137 (251)
-||+.|+..|+.
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999987
No 210
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.79 E-value=20 Score=35.33 Aligned_cols=45 Identities=22% Similarity=0.588 Sum_probs=32.2
Q ss_pred cccccccccccCCceeEcCCCCC-cccHhhHHHHHh--c----CCCCccccCcccC
Q 025541 103 QCSVCLADYQAEDKLQQIPACGH-AFHMDCIDHWLT--T----HTTCPLCRLSLLA 151 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~~~~~~C~H-~fh~~Ci~~wl~--~----~~~CP~Cr~~~~~ 151 (251)
.|+||-..+.. .....||| ..+..|..+... . ...||+||..+..
T Consensus 2 ~c~ic~~s~~~----~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDF----VGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCccc----cccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 59999877643 23335999 999999887643 2 3468999986654
No 211
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=39.66 E-value=35 Score=25.09 Aligned_cols=9 Identities=33% Similarity=1.006 Sum_probs=3.6
Q ss_pred HHHHHHHHH
Q 025541 42 LLFYLFYLR 50 (251)
Q Consensus 42 ~~~~~~~~~ 50 (251)
.+||++++|
T Consensus 20 ~ifyFli~R 28 (97)
T COG1862 20 AIFYFLIIR 28 (97)
T ss_pred HHHHHhhcC
Confidence 334443444
No 212
>PRK12495 hypothetical protein; Provisional
Probab=38.95 E-value=1.4e+02 Score=25.32 Aligned_cols=12 Identities=25% Similarity=0.755 Sum_probs=8.3
Q ss_pred CCccccCcccCC
Q 025541 141 TCPLCRLSLLAP 152 (251)
Q Consensus 141 ~CP~Cr~~~~~~ 152 (251)
.||.|...+...
T Consensus 60 ~Cp~CQ~~~~~~ 71 (226)
T PRK12495 60 FCPTCQQPVTED 71 (226)
T ss_pred ECCCCCCccccc
Confidence 599997666543
No 213
>PF11027 DUF2615: Protein of unknown function (DUF2615); InterPro: IPR020309 This entry represents a group of uncharacterised protein from the Metazoa, including CD034 (or C4orf34) and YQF4 (or C34C12.4).
Probab=38.94 E-value=51 Score=24.51 Aligned_cols=10 Identities=30% Similarity=0.604 Sum_probs=6.4
Q ss_pred CccCCCCcCC
Q 025541 2 SYYTPSCCSS 11 (251)
Q Consensus 2 ~~~~~~~~~~ 11 (251)
+||+-+.|..
T Consensus 30 ~~CTDteC~~ 39 (103)
T PF11027_consen 30 NYCTDTECLQ 39 (103)
T ss_pred CccCcchhhc
Confidence 5888855543
No 214
>PRK12495 hypothetical protein; Provisional
Probab=38.03 E-value=1.8e+02 Score=24.72 Aligned_cols=13 Identities=15% Similarity=0.429 Sum_probs=8.1
Q ss_pred Ccccccccccccc
Q 025541 100 RDTQCSVCLADYQ 112 (251)
Q Consensus 100 ~~~~C~IC~~~~~ 112 (251)
....|..|-..+-
T Consensus 41 sa~hC~~CG~PIp 53 (226)
T PRK12495 41 TNAHCDECGDPIF 53 (226)
T ss_pred chhhcccccCccc
Confidence 4556777766654
No 215
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=37.95 E-value=2.9 Score=33.32 Aligned_cols=30 Identities=20% Similarity=0.409 Sum_probs=14.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 025541 24 VYQAFIFSVPIFFTFILLLLFYLFYLRRRR 53 (251)
Q Consensus 24 ~~~~~~~~v~i~~~~i~~~~~~~~~~~~~~ 53 (251)
+.+-+.+.|++.+++++++++|+|+.++++
T Consensus 50 IVIGvVVGVGg~ill~il~lvf~~c~r~kk 79 (154)
T PF04478_consen 50 IVIGVVVGVGGPILLGILALVFIFCIRRKK 79 (154)
T ss_pred EEEEEEecccHHHHHHHHHhheeEEEeccc
Confidence 444444555554444444444444444443
No 216
>PF12191 stn_TNFRSF12A: Tumour necrosis factor receptor stn_TNFRSF12A_TNFR domain; InterPro: IPR022316 The tumour necrosis factor (TNF) receptor (TNFR) superfamily comprises more than 20 type-I transmembrane proteins. Family members are defined based on similarity in their extracellular domain - a region that contains many cysteine residues arranged in a specific repetitive pattern []. The cysteines allow formation of an extended rod-like structure, responsible for ligand binding []. Upon receptor activation, different intracellular signalling complexes are assembled for different members of the TNFR superfamily, depending on their intracellular domains and sequences []. Activation of TNFRs can therefore induce a range of disparate effects, including cell proliferation, differentiation, survival, or apoptotic cell death, depending upon the receptor involved []. TNFRs are widely distributed and play important roles in many crucial biological processes, such as lymphoid and neuronal development, innate and adaptive immunity, and maintenance of cellular homeostasis []. Drugs that manipulate their signalling have potential roles in the prevention and treatment of many diseases, such as viral infections, coronary heart disease, transplant rejection, and immune disease []. TNF receptor 12 (also known as TWEAK receptor, and fibroblast growth factor-inducible-14 (Fn14)) has been implicated in endothelial cell growth and migration []. The receptor may also play a role in cell-matrix interactions [].; PDB: 2KN0_A 2RPJ_A 2KMZ_A 2EQP_A.
Probab=37.61 E-value=13 Score=28.61 Aligned_cols=24 Identities=13% Similarity=0.058 Sum_probs=1.9
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHH
Q 025541 22 LKVYQAFIFSVPIFFTFILLLLFY 45 (251)
Q Consensus 22 l~~~~~~~~~v~i~~~~i~~~~~~ 45 (251)
.++.+.+.+.+..++.++.++.++
T Consensus 75 ~~l~~pi~~sal~v~lVl~llsg~ 98 (129)
T PF12191_consen 75 FPLLWPILGSALSVVLVLALLSGF 98 (129)
T ss_dssp SSSS--------------------
T ss_pred cceehhhhhhHHHHHHHHHHHHHH
Confidence 445555555555444443333333
No 217
>PRK02919 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=37.30 E-value=69 Score=22.76 Aligned_cols=25 Identities=16% Similarity=0.421 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 025541 28 FIFSVPIFFTFILLLLFYLFYLRRR 52 (251)
Q Consensus 28 ~~~~v~i~~~~i~~~~~~~~~~~~~ 52 (251)
.++.+++.|+|+.++++.+-+..+.
T Consensus 14 MvlGMg~VfvFL~lLI~~i~~ms~l 38 (82)
T PRK02919 14 MFLGMGFVLAFLFLLIFAIRGMSAL 38 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666555555544443
No 218
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=37.26 E-value=59 Score=25.84 Aligned_cols=18 Identities=17% Similarity=0.418 Sum_probs=6.9
Q ss_pred HHHHHHHHHhhcccchhh
Q 025541 42 LLFYLFYLRRRRVDWSSL 59 (251)
Q Consensus 42 ~~~~~~~~~~~~~~~~~~ 59 (251)
+.++.++..|...+|+.+
T Consensus 32 ~~~~~Y~r~r~~tKyRDL 49 (149)
T PF11694_consen 32 FFFIKYLRNRLDTKYRDL 49 (149)
T ss_pred HHHHHHHHhcCcchhhhH
Confidence 333333333333334333
No 219
>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=37.01 E-value=17 Score=29.11 Aligned_cols=45 Identities=22% Similarity=0.488 Sum_probs=29.6
Q ss_pred cccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccCC
Q 025541 105 SVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLAP 152 (251)
Q Consensus 105 ~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 152 (251)
.||+.--...+....-|.=.+-||.+|-.+-+. .||.|..++...
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRGD 52 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCCc
Confidence 366655444434444444567899999888766 599998887644
No 220
>PF05510 Sarcoglycan_2: Sarcoglycan alpha/epsilon; InterPro: IPR008908 Sarcoglycans are a subcomplex of transmembrane proteins which are part of the dystrophin-glycoprotein complex. They are expressed in the skeletal, cardiac and smooth muscle. Although numerous studies have been conducted on the sarcoglycan subcomplex in skeletal and cardiac muscle, the manner of the distribution and localisation of these proteins along the nonjunctional sarcolemma is not clear []. This family contains alpha and epsilon members.; GO: 0016012 sarcoglycan complex
Probab=37.00 E-value=50 Score=30.50 Aligned_cols=43 Identities=28% Similarity=0.352 Sum_probs=20.6
Q ss_pred cCCCCCCC-CcccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025541 9 CSSPPKSS-SVSAELKVYQAFIFSVPIFFTFILLLLFYLFYLRR 51 (251)
Q Consensus 9 ~~~~~~~~-~~~~~l~~~~~~~~~v~i~~~~i~~~~~~~~~~~~ 51 (251)
+..|++.. ..-..+.-|.+.+++-+++++++++++.++++.++
T Consensus 268 ~~~Pp~~~~p~R~y~~d~~vtl~iPl~i~llL~llLs~Imc~rR 311 (386)
T PF05510_consen 268 WFNPPKESVPGRDYFPDFLVTLAIPLIIALLLLLLLSYIMCCRR 311 (386)
T ss_pred CCCCCcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHheech
Confidence 44444433 44444555544444444444455555555555554
No 221
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=36.74 E-value=41 Score=32.63 Aligned_cols=20 Identities=25% Similarity=0.359 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 025541 32 VPIFFTFILLLLFYLFYLRR 51 (251)
Q Consensus 32 v~i~~~~i~~~~~~~~~~~~ 51 (251)
++|++++++++++.+++.++
T Consensus 7 i~i~ii~i~~~~~~~~~rr~ 26 (569)
T PRK04778 7 IAIVVIIIIAYLAGLILRKR 26 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333444333
No 222
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=36.66 E-value=73 Score=18.96 Aligned_cols=11 Identities=27% Similarity=0.682 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q 025541 31 SVPIFFTFILL 41 (251)
Q Consensus 31 ~v~i~~~~i~~ 41 (251)
.+..+++|+++
T Consensus 20 ~l~mi~vFi~l 30 (38)
T PF09125_consen 20 ALAMILVFIAL 30 (38)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 33333333333
No 223
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=36.34 E-value=48 Score=21.96 Aligned_cols=16 Identities=13% Similarity=0.204 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 025541 30 FSVPIFFTFILLLLFY 45 (251)
Q Consensus 30 ~~v~i~~~~i~~~~~~ 45 (251)
+++.+++++++..++.
T Consensus 24 il~~f~~G~llg~l~~ 39 (68)
T PF06305_consen 24 ILIAFLLGALLGWLLS 39 (68)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333344444433333
No 224
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=36.18 E-value=41 Score=35.01 Aligned_cols=52 Identities=17% Similarity=0.423 Sum_probs=34.9
Q ss_pred CcccccccccccccC---CceeEcCCCCCcccHhhHHHHH-hcCCCCccccCcccC
Q 025541 100 RDTQCSVCLADYQAE---DKLQQIPACGHAFHMDCIDHWL-TTHTTCPLCRLSLLA 151 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~---~~~~~~~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~~ 151 (251)
....|.||-+++... +.-.....|+--.|+.|..-=. ..++.||-|++....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 456799999987532 2222222477779999995322 247789999987763
No 225
>PHA02909 hypothetical protein; Provisional
Probab=35.62 E-value=99 Score=20.28 Aligned_cols=18 Identities=22% Similarity=0.471 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 025541 28 FIFSVPIFFTFILLLLFY 45 (251)
Q Consensus 28 ~~~~v~i~~~~i~~~~~~ 45 (251)
++++++++..|.++...|
T Consensus 39 ilfviiflsmftilacsy 56 (72)
T PHA02909 39 ILFVIIFLSMFTILACSY 56 (72)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333443443333
No 226
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=35.56 E-value=35 Score=25.83 Aligned_cols=6 Identities=33% Similarity=0.800 Sum_probs=2.3
Q ss_pred ccHhhH
Q 025541 127 FHMDCI 132 (251)
Q Consensus 127 fh~~Ci 132 (251)
|.+.-|
T Consensus 74 v~r~AI 79 (113)
T PRK06531 74 FELAAI 79 (113)
T ss_pred EEhhHh
Confidence 333333
No 227
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=34.80 E-value=31 Score=25.53 Aligned_cols=34 Identities=12% Similarity=0.266 Sum_probs=27.0
Q ss_pred ccccccccccccCCceeEcCCCCCcccHhhHHHHHh
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLT 137 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~ 137 (251)
..|.||-+++..++....+.+ =..|+.|+..=..
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 469999999998887766653 6689999987544
No 228
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=34.21 E-value=26 Score=22.50 Aligned_cols=23 Identities=26% Similarity=0.845 Sum_probs=13.6
Q ss_pred CCCCcccHhhHHHHHhcCCCCccc
Q 025541 122 ACGHAFHMDCIDHWLTTHTTCPLC 145 (251)
Q Consensus 122 ~C~H~fh~~Ci~~wl~~~~~CP~C 145 (251)
.|||.|-.. |..-......||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-HhhhccCCCCCCCC
Confidence 477766544 22222456679988
No 229
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=33.94 E-value=39 Score=24.47 Aligned_cols=38 Identities=24% Similarity=0.445 Sum_probs=29.3
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCCCCccccCcccC
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLLA 151 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 151 (251)
-..|+-|...+..-+ .+| |-.|+..+..|..|++++..
T Consensus 33 rS~C~~C~~~L~~~~---lIP----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWD---LIP----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCcCcCCCCcCcccc---cch----------HHHHHHhCCCCcccCCCCCh
Confidence 357999988876543 344 67899999999999998864
No 230
>PLN02195 cellulose synthase A
Probab=33.91 E-value=47 Score=34.32 Aligned_cols=50 Identities=12% Similarity=0.353 Sum_probs=34.2
Q ss_pred cccccccccccccC---CceeEcCCCCCcccHhhHHHHH-hcCCCCccccCccc
Q 025541 101 DTQCSVCLADYQAE---DKLQQIPACGHAFHMDCIDHWL-TTHTTCPLCRLSLL 150 (251)
Q Consensus 101 ~~~C~IC~~~~~~~---~~~~~~~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~ 150 (251)
...|.||-+.+... +.-.....|+--.|+.|..-=- ..++.||-|++...
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 45799999977432 2222222588889999994322 24778999998887
No 231
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=33.88 E-value=6.8 Score=29.54 Aligned_cols=31 Identities=23% Similarity=0.428 Sum_probs=1.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccchhhhh
Q 025541 31 SVPIFFTFILLLLFYLFYLRRRRVDWSSLRM 61 (251)
Q Consensus 31 ~v~i~~~~i~~~~~~~~~~~~~~~~~~~~~~ 61 (251)
.|+||++++.+++++-.+..+||..+..++.
T Consensus 28 GIGiL~VILgiLLliGCWYckRRSGYk~L~~ 58 (118)
T PF14991_consen 28 GIGILIVILGILLLIGCWYCKRRSGYKTLRD 58 (118)
T ss_dssp SSS----------------------------
T ss_pred cceeHHHHHHHHHHHhheeeeecchhhhhhh
Confidence 4455555555555555555666666665543
No 232
>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=33.76 E-value=13 Score=23.82 Aligned_cols=13 Identities=38% Similarity=0.761 Sum_probs=6.6
Q ss_pred CCCccccCcccCC
Q 025541 140 TTCPLCRLSLLAP 152 (251)
Q Consensus 140 ~~CP~Cr~~~~~~ 152 (251)
..||+|..++...
T Consensus 21 ~~CPlC~r~l~~e 33 (54)
T PF04423_consen 21 GCCPLCGRPLDEE 33 (54)
T ss_dssp EE-TTT--EE-HH
T ss_pred CcCCCCCCCCCHH
Confidence 3799998888643
No 233
>PF15106 TMEM156: TMEM156 protein family
Probab=33.65 E-value=67 Score=27.07 Aligned_cols=25 Identities=28% Similarity=0.688 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcccchh
Q 025541 34 IFFTFILLLLFYLFYLRRRRVDWSS 58 (251)
Q Consensus 34 i~~~~i~~~~~~~~~~~~~~~~~~~ 58 (251)
+|+.+++++++-++--.+|-+.|..
T Consensus 185 Vfiflii~iI~KIle~hrrvqkwq~ 209 (226)
T PF15106_consen 185 VFIFLIILIIYKILEGHRRVQKWQS 209 (226)
T ss_pred HHHHHHHHHHHHHHHhhhhHhHHhh
Confidence 3334444555555555554444443
No 234
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=33.03 E-value=11 Score=22.97 Aligned_cols=25 Identities=28% Similarity=0.538 Sum_probs=14.1
Q ss_pred CCCCcccHhhHHHHHhcCCCCccccC
Q 025541 122 ACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 122 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
.|||.|-..--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 48887764321110 22446999977
No 235
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=32.95 E-value=68 Score=25.52 Aligned_cols=13 Identities=31% Similarity=0.302 Sum_probs=8.3
Q ss_pred Ccccccccccccc
Q 025541 100 RDTQCSVCLADYQ 112 (251)
Q Consensus 100 ~~~~C~IC~~~~~ 112 (251)
++..-++|+-+-.
T Consensus 96 g~LSFslAlLD~~ 108 (151)
T PF14584_consen 96 GDLSFSLALLDDN 108 (151)
T ss_pred ccceeeeEEEeCC
Confidence 4566777776643
No 236
>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus [].; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane
Probab=32.75 E-value=31 Score=24.90 Aligned_cols=37 Identities=16% Similarity=0.206 Sum_probs=24.9
Q ss_pred CCcccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025541 16 SSVSAELKVYQAFIFSVPIFFTFILLLLFYLFYLRRR 52 (251)
Q Consensus 16 ~~~~~~l~~~~~~~~~v~i~~~~i~~~~~~~~~~~~~ 52 (251)
.+..+.+.+-.+..+.+.+|+.++++.+.|..+++..
T Consensus 26 ~p~ss~~~ws~vv~v~i~~lvaVg~~YL~y~~fLkDl 62 (91)
T PF01708_consen 26 APSSSGLPWSRVVEVAIFTLVAVGCLYLAYTWFLKDL 62 (91)
T ss_pred CCCCCCCcceeEeeeeehHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666777777777777777777777654
No 237
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=32.22 E-value=29 Score=30.05 Aligned_cols=25 Identities=28% Similarity=0.530 Sum_probs=18.1
Q ss_pred ccccccccccccCCceeEcCCCCCcc
Q 025541 102 TQCSVCLADYQAEDKLQQIPACGHAF 127 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~~C~H~f 127 (251)
..||+|...+.........+ .+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 46999999997655544444 67888
No 238
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=32.08 E-value=88 Score=21.66 Aligned_cols=22 Identities=14% Similarity=0.202 Sum_probs=10.3
Q ss_pred hhhhhHHHHHHHHHHHHHHHHH
Q 025541 22 LKVYQAFIFSVPIFFTFILLLL 43 (251)
Q Consensus 22 l~~~~~~~~~v~i~~~~i~~~~ 43 (251)
...+++++.++.++++++++++
T Consensus 46 ~~~~~~ii~ii~v~ii~~l~fl 67 (72)
T PF12575_consen 46 FNWIILIISIIFVLIIVLLTFL 67 (72)
T ss_pred chHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444445555555443
No 239
>PRK03814 oxaloacetate decarboxylase subunit gamma; Provisional
Probab=31.92 E-value=99 Score=22.09 Aligned_cols=21 Identities=19% Similarity=0.534 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 025541 27 AFIFSVPIFFTFILLLLFYLF 47 (251)
Q Consensus 27 ~~~~~v~i~~~~i~~~~~~~~ 47 (251)
+.++.+++.|+|++++++.+-
T Consensus 14 lm~~GM~~VF~fL~lLi~~~~ 34 (85)
T PRK03814 14 LMLTGMGVVFIFLTLLVYLVQ 34 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444333
No 240
>KOG1025 consensus Epidermal growth factor receptor EGFR and related tyrosine kinases [Signal transduction mechanisms]
Probab=31.61 E-value=78 Score=32.55 Aligned_cols=21 Identities=29% Similarity=0.540 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 025541 31 SVPIFFTFILLLLFYLFYLRR 51 (251)
Q Consensus 31 ~v~i~~~~i~~~~~~~~~~~~ 51 (251)
+-++++++++++.+++++.++
T Consensus 635 iG~~Ll~~~~~~~~~~~~~~r 655 (1177)
T KOG1025|consen 635 IGGLLLAFFVFLGFSLYMCRR 655 (1177)
T ss_pred HHHHHHHHHHHHHHHHhhhhh
Confidence 333455555555555555444
No 241
>PRK05978 hypothetical protein; Provisional
Probab=31.50 E-value=36 Score=27.08 Aligned_cols=25 Identities=20% Similarity=0.472 Sum_probs=19.8
Q ss_pred CCcccHhhHHHHHhcCCCCccccCcccCCC
Q 025541 124 GHAFHMDCIDHWLTTHTTCPLCRLSLLAPA 153 (251)
Q Consensus 124 ~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 153 (251)
||+|+ .+|+.+..||.|-.++....
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCC
Confidence 47885 78889999999988776543
No 242
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=31.21 E-value=92 Score=20.67 Aligned_cols=33 Identities=18% Similarity=0.451 Sum_probs=21.0
Q ss_pred Cccccccccccccc--CCceeEcCCCCCcccHhhH
Q 025541 100 RDTQCSVCLADYQA--EDKLQQIPACGHAFHMDCI 132 (251)
Q Consensus 100 ~~~~C~IC~~~~~~--~~~~~~~~~C~H~fh~~Ci 132 (251)
....|+.|-..... .......+.||+.+|++-.
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~n 61 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVN 61 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHH
Confidence 45579998877665 3344445557777776643
No 243
>PF11346 DUF3149: Protein of unknown function (DUF3149); InterPro: IPR021494 This bacterial family of proteins has no known function.
Probab=31.11 E-value=1.3e+02 Score=18.54 Aligned_cols=11 Identities=18% Similarity=0.724 Sum_probs=4.4
Q ss_pred HHHHHHHHHHh
Q 025541 41 LLLFYLFYLRR 51 (251)
Q Consensus 41 ~~~~~~~~~~~ 51 (251)
...++.++.++
T Consensus 26 ~~~~~~~F~~k 36 (42)
T PF11346_consen 26 GVFFIRYFIRK 36 (42)
T ss_pred HHHHHHHHHHH
Confidence 33333444443
No 244
>PF15012 DUF4519: Domain of unknown function (DUF4519)
Probab=30.99 E-value=13 Score=24.38 Aligned_cols=16 Identities=25% Similarity=0.569 Sum_probs=6.3
Q ss_pred hhhHHHHHHHHHHHHH
Q 025541 24 VYQAFIFSVPIFFTFI 39 (251)
Q Consensus 24 ~~~~~~~~v~i~~~~i 39 (251)
++.+.+-.+++++++|
T Consensus 30 v~tVVlP~l~~~~~~I 45 (56)
T PF15012_consen 30 VFTVVLPTLAAVFLFI 45 (56)
T ss_pred heeEehhHHHHHHHHH
Confidence 3333444444333333
No 245
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=30.81 E-value=16 Score=32.30 Aligned_cols=17 Identities=18% Similarity=0.370 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhc
Q 025541 37 TFILLLLFYLFYLRRRR 53 (251)
Q Consensus 37 ~~i~~~~~~~~~~~~~~ 53 (251)
++++.++++.++++++|
T Consensus 158 iLLIA~iIa~icyrrkR 174 (290)
T PF05454_consen 158 ILLIAGIIACICYRRKR 174 (290)
T ss_dssp -----------------
T ss_pred HHHHHHHHHHHhhhhhh
Confidence 33333334444444443
No 246
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=30.49 E-value=1.5e+02 Score=21.26 Aligned_cols=26 Identities=15% Similarity=0.360 Sum_probs=12.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 025541 25 YQAFIFSVPIFFTFILLLLFYLFYLR 50 (251)
Q Consensus 25 ~~~~~~~v~i~~~~i~~~~~~~~~~~ 50 (251)
+..++..+.+|+++++++++++.+.+
T Consensus 36 FvLVic~~lVfVii~lFi~ll~~i~~ 61 (84)
T PF06143_consen 36 FVLVICCFLVFVIIVLFILLLYNINK 61 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444443
No 247
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=30.44 E-value=56 Score=23.21 Aligned_cols=10 Identities=40% Similarity=1.145 Sum_probs=4.0
Q ss_pred HHHHHHHHHH
Q 025541 41 LLLFYLFYLR 50 (251)
Q Consensus 41 ~~~~~~~~~~ 50 (251)
++++|+++.+
T Consensus 13 ~~i~yf~~~r 22 (84)
T TIGR00739 13 FLIFYFLIIR 22 (84)
T ss_pred HHHHHHheec
Confidence 3344444433
No 248
>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=30.23 E-value=77 Score=25.62 Aligned_cols=6 Identities=17% Similarity=0.063 Sum_probs=2.2
Q ss_pred HHHHHH
Q 025541 28 FIFSVP 33 (251)
Q Consensus 28 ~~~~v~ 33 (251)
++++++
T Consensus 98 ~~Vl~g 103 (163)
T PF06679_consen 98 LYVLVG 103 (163)
T ss_pred HHHHHH
Confidence 333333
No 249
>PHA03030 hypothetical protein; Provisional
Probab=30.13 E-value=27 Score=25.84 Aligned_cols=7 Identities=29% Similarity=1.041 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 025541 41 LLLFYLF 47 (251)
Q Consensus 41 ~~~~~~~ 47 (251)
+++||++
T Consensus 15 l~iffYI 21 (122)
T PHA03030 15 LFIFFYI 21 (122)
T ss_pred HHHHHHh
Confidence 3333333
No 250
>COG3630 OadG Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, gamma subunit [Energy production and conversion]
Probab=29.77 E-value=1e+02 Score=22.05 Aligned_cols=21 Identities=14% Similarity=0.516 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 025541 27 AFIFSVPIFFTFILLLLFYLF 47 (251)
Q Consensus 27 ~~~~~v~i~~~~i~~~~~~~~ 47 (251)
+.+..+++.|.|++++++++.
T Consensus 13 L~vlGmg~VflfL~iLi~~~~ 33 (84)
T COG3630 13 LMVLGMGFVFLFLSILIYAMR 33 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334445554444444444443
No 251
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=29.72 E-value=43 Score=32.44 Aligned_cols=36 Identities=22% Similarity=0.617 Sum_probs=23.7
Q ss_pred CCcccccccccccccC-----C-----ceeEcCCCCCcccHhhHHHH
Q 025541 99 IRDTQCSVCLADYQAE-----D-----KLQQIPACGHAFHMDCIDHW 135 (251)
Q Consensus 99 ~~~~~C~IC~~~~~~~-----~-----~~~~~~~C~H~fh~~Ci~~w 135 (251)
.....|+||.+.|..- + ..+.+. =|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec-cCceeeccccchH
Confidence 3456799999998531 0 112221 5889999998764
No 252
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=29.72 E-value=14 Score=33.03 Aligned_cols=46 Identities=20% Similarity=0.314 Sum_probs=28.3
Q ss_pred cccccccccccccCCceeEc---CCCCCcccHhhHHHHHhcCCCCccccC
Q 025541 101 DTQCSVCLADYQAEDKLQQI---PACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~---~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
...||||-..-.... ++.. .+=.|.+|.-|-..|-.....||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 347999987632110 1110 012355666788888888888999964
No 253
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.54 E-value=10 Score=33.26 Aligned_cols=48 Identities=29% Similarity=0.661 Sum_probs=35.6
Q ss_pred cccccccccccccCC---ceeEcCC-------CCCcccHhhHHHHHhc-CCCCccccCc
Q 025541 101 DTQCSVCLADYQAED---KLQQIPA-------CGHAFHMDCIDHWLTT-HTTCPLCRLS 148 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~---~~~~~~~-------C~H~fh~~Ci~~wl~~-~~~CP~Cr~~ 148 (251)
+..|.||...|.... ..+++.. |||..+..|+..-+.. ...||.|+..
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 457999999988432 2233323 9999999999998765 3589999875
No 254
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.44 E-value=17 Score=34.10 Aligned_cols=36 Identities=17% Similarity=0.456 Sum_probs=25.6
Q ss_pred cccccccccccCCce----eEcCCCCCcccHhhHHHHHhc
Q 025541 103 QCSVCLADYQAEDKL----QQIPACGHAFHMDCIDHWLTT 138 (251)
Q Consensus 103 ~C~IC~~~~~~~~~~----~~~~~C~H~fh~~Ci~~wl~~ 138 (251)
.||.|...+.....- .....|.|.||..|+..|...
T Consensus 228 ~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 228 ECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred cCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 499999888765421 111139999999998888764
No 255
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=29.27 E-value=21 Score=36.01 Aligned_cols=35 Identities=23% Similarity=0.604 Sum_probs=24.8
Q ss_pred CcccccccccccccCCceeEcCCCCCcccHhhHHHHH
Q 025541 100 RDTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWL 136 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl 136 (251)
....|..|...... ..-+.+.|+|.||..|++.|.
T Consensus 228 ~~~mC~~C~~tlfn--~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 228 IREMCDRCETTLFN--IHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred cchhhhhhcccccc--eeEEccccCCeeeecchhhcc
Confidence 34568888766432 222344699999999999995
No 256
>PF13268 DUF4059: Protein of unknown function (DUF4059)
Probab=29.25 E-value=1.8e+02 Score=20.13 Aligned_cols=30 Identities=13% Similarity=0.247 Sum_probs=15.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 025541 24 VYQAFIFSVPIFFTFILLLLFYLFYLRRRR 53 (251)
Q Consensus 24 ~~~~~~~~v~i~~~~i~~~~~~~~~~~~~~ 53 (251)
++..++-...+..+++.++..+++.+|..+
T Consensus 5 if~lYlqgL~ls~i~V~~~~~~wi~~Ra~~ 34 (72)
T PF13268_consen 5 IFSLYLQGLLLSSILVLLVSGIWILWRALR 34 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555555555555443
No 257
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=29.14 E-value=76 Score=22.53 Aligned_cols=8 Identities=25% Similarity=0.077 Sum_probs=0.0
Q ss_pred HHHHHHHh
Q 025541 44 FYLFYLRR 51 (251)
Q Consensus 44 ~~~~~~~~ 51 (251)
.|.-..+.
T Consensus 29 eYrk~~rq 36 (81)
T PF00558_consen 29 EYRKIKRQ 36 (81)
T ss_dssp --------
T ss_pred HHHHHHHH
Confidence 33333333
No 258
>PF03229 Alpha_GJ: Alphavirus glycoprotein J; InterPro: IPR004913 The exact function of the herpesvirus glycoprotein J is unknown, but it appears to play a role in the inhibition of apotosis of the host cell [].; GO: 0019050 suppression by virus of host apoptosis
Probab=28.64 E-value=76 Score=24.10 Aligned_cols=33 Identities=15% Similarity=-0.054 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccchhhhh
Q 025541 29 IFSVPIFFTFILLLLFYLFYLRRRRVDWSSLRM 61 (251)
Q Consensus 29 ~~~v~i~~~~i~~~~~~~~~~~~~~~~~~~~~~ 61 (251)
-++|+.+..+.+..+..+.+++|++.+|.+.|.
T Consensus 87 p~VIGGLcaL~LaamGA~~LLrR~cRr~arrR~ 119 (126)
T PF03229_consen 87 PLVIGGLCALTLAAMGAGALLRRCCRRAARRRQ 119 (126)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345555555555666666666666555544443
No 259
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=28.35 E-value=33 Score=22.83 Aligned_cols=15 Identities=27% Similarity=0.906 Sum_probs=11.2
Q ss_pred CCCCccccCcccCCC
Q 025541 139 HTTCPLCRLSLLAPA 153 (251)
Q Consensus 139 ~~~CP~Cr~~~~~~~ 153 (251)
...||+|..+.....
T Consensus 39 ~p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGT 53 (59)
T ss_pred CccCCCcCCccccce
Confidence 457999998876543
No 260
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=27.98 E-value=97 Score=24.03 Aligned_cols=23 Identities=13% Similarity=0.038 Sum_probs=10.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Q 025541 25 YQAFIFSVPIFFTFILLLLFYLF 47 (251)
Q Consensus 25 ~~~~~~~v~i~~~~i~~~~~~~~ 47 (251)
|..+.+++++++++++....+++
T Consensus 100 Yia~~~il~il~~i~is~~~~~~ 122 (139)
T PHA03099 100 YIPSPGIVLVLVGIIITCCLLSV 122 (139)
T ss_pred hhhhhHHHHHHHHHHHHHHHHhh
Confidence 44444445555544444444433
No 261
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=27.70 E-value=1.1e+02 Score=21.99 Aligned_cols=7 Identities=0% Similarity=0.496 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 025541 44 FYLFYLR 50 (251)
Q Consensus 44 ~~~~~~~ 50 (251)
++++-..
T Consensus 20 y~~~k~~ 26 (87)
T PF10883_consen 20 YLWWKVK 26 (87)
T ss_pred HHHHHHH
Confidence 3333333
No 262
>COG3771 Predicted membrane protein [Function unknown]
Probab=27.52 E-value=1.5e+02 Score=21.32 Aligned_cols=26 Identities=23% Similarity=0.320 Sum_probs=15.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Q 025541 25 YQAFIFSVPIFFTFILLLLFYLFYLR 50 (251)
Q Consensus 25 ~~~~~~~v~i~~~~i~~~~~~~~~~~ 50 (251)
+.-.+|.+++.+++++..+||+-...
T Consensus 44 Lla~lF~~G~~lgwli~g~fy~k~~l 69 (97)
T COG3771 44 LLATLFAAGFALGWLICGLFYLKVRL 69 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666666665554433
No 263
>PHA02844 putative transmembrane protein; Provisional
Probab=26.94 E-value=73 Score=22.15 Aligned_cols=14 Identities=21% Similarity=0.498 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHH
Q 025541 31 SVPIFFTFILLLLF 44 (251)
Q Consensus 31 ~v~i~~~~i~~~~~ 44 (251)
++.++++.++++++
T Consensus 55 i~~v~~~~~~~flY 68 (75)
T PHA02844 55 IIFVVFATFLTFLY 68 (75)
T ss_pred HHHHHHHHHHHHHH
Confidence 44444444444444
No 264
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=26.89 E-value=18 Score=31.93 Aligned_cols=31 Identities=19% Similarity=0.588 Sum_probs=23.8
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHH
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCID 133 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~ 133 (251)
...|+-|.+-+-+.+.++.. =.|+||..|+.
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~ 122 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA 122 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhhh
Confidence 45799999888776666654 68999999874
No 265
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=26.88 E-value=30 Score=31.01 Aligned_cols=44 Identities=27% Similarity=0.663 Sum_probs=27.0
Q ss_pred cccccccccccccC-----------CceeEcCCCCCcccHhhHHHHHhc------CCCCccccCc
Q 025541 101 DTQCSVCLADYQAE-----------DKLQQIPACGHAFHMDCIDHWLTT------HTTCPLCRLS 148 (251)
Q Consensus 101 ~~~C~IC~~~~~~~-----------~~~~~~~~C~H~fh~~Ci~~wl~~------~~~CP~Cr~~ 148 (251)
-..|++=+..+..+ +...++. |||+-.+. .|=.+ ...||+||..
T Consensus 290 RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~-CGHV~G~H---~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 290 RPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLN-CGHVHGYH---NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred CCCCCcccceeecccccccccccccCCeEEEe-cccccccc---ccccccccCcccCcCCeeeee
Confidence 34588877665433 3445665 99864433 56432 3469999863
No 266
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=26.48 E-value=90 Score=21.95 Aligned_cols=9 Identities=33% Similarity=1.135 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q 025541 42 LLFYLFYLR 50 (251)
Q Consensus 42 ~~~~~~~~~ 50 (251)
+++|++..+
T Consensus 13 ~i~yf~~~r 21 (82)
T PF02699_consen 13 VIFYFLMIR 21 (82)
T ss_dssp HHHHHHTHH
T ss_pred HHHhhheec
Confidence 333333333
No 267
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.37 E-value=54 Score=26.09 Aligned_cols=20 Identities=25% Similarity=0.512 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 025541 28 FIFSVPIFFTFILLLLFYLF 47 (251)
Q Consensus 28 ~~~~v~i~~~~i~~~~~~~~ 47 (251)
++.++.++|+.+++..+++|
T Consensus 8 ~i~ii~viflai~~s~~~~~ 27 (161)
T COG5353 8 IIIIILVIFLAIILSIALFF 27 (161)
T ss_pred eehhHHHHHHHHHHHHHHHH
Confidence 33344444444444444444
No 268
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=26.31 E-value=1.2e+02 Score=22.37 Aligned_cols=30 Identities=20% Similarity=0.383 Sum_probs=16.5
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 025541 21 ELKVYQAFIFSVPIFFTFILLLLFYLFYLR 50 (251)
Q Consensus 21 ~l~~~~~~~~~v~i~~~~i~~~~~~~~~~~ 50 (251)
.|+-|-||++.++..++.+-++..++|+.|
T Consensus 14 sL~PWeIfLItLasVvvavGl~aGLfFcvR 43 (106)
T PF14654_consen 14 SLKPWEIFLITLASVVVAVGLFAGLFFCVR 43 (106)
T ss_pred CccchHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 456676666665555554445555555544
No 269
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.31 E-value=16 Score=28.46 Aligned_cols=22 Identities=27% Similarity=0.797 Sum_probs=14.9
Q ss_pred CCcccccccccc-cccCCceeEcCCCCCccc
Q 025541 99 IRDTQCSVCLAD-YQAEDKLQQIPACGHAFH 128 (251)
Q Consensus 99 ~~~~~C~IC~~~-~~~~~~~~~~~~C~H~fh 128 (251)
..+.+|.||+.. |.+ +|||.-|
T Consensus 63 ~ddatC~IC~KTKFAD--------G~GH~C~ 85 (169)
T KOG3799|consen 63 GDDATCGICHKTKFAD--------GCGHNCS 85 (169)
T ss_pred CcCcchhhhhhccccc--------ccCcccc
Confidence 457889999974 333 4887644
No 270
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=26.19 E-value=37 Score=25.40 Aligned_cols=11 Identities=27% Similarity=0.845 Sum_probs=7.4
Q ss_pred ccccccccccc
Q 025541 103 QCSVCLADYQA 113 (251)
Q Consensus 103 ~C~IC~~~~~~ 113 (251)
.||-|..+|..
T Consensus 4 ~CP~C~seytY 14 (109)
T TIGR00686 4 PCPKCNSEYTY 14 (109)
T ss_pred cCCcCCCcceE
Confidence 48878777653
No 271
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=26.04 E-value=40 Score=23.66 Aligned_cols=33 Identities=27% Similarity=0.602 Sum_probs=21.6
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHH
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDH 134 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~ 134 (251)
...|.+|.........-. .+.|.-.||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~-~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCS-HPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEe-CCCCCcEEChHHHcc
Confidence 346999997632221222 235999999999865
No 272
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=25.68 E-value=2e+02 Score=20.45 Aligned_cols=18 Identities=11% Similarity=0.045 Sum_probs=10.2
Q ss_pred hhhhcCCCHHHHhhCCce
Q 025541 74 SRAELGLKKELREMLPIV 91 (251)
Q Consensus 74 ~~~~~~~~~~~~~~lp~~ 91 (251)
...+..++...++.|-.+
T Consensus 46 s~F~D~lTpDQVrAlHRl 63 (92)
T PHA02681 46 SSFEDKMTDDQVRAFHAL 63 (92)
T ss_pred chhhccCCHHHHHHHHHH
Confidence 344555666666665544
No 273
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.30 E-value=71 Score=22.12 Aligned_cols=21 Identities=19% Similarity=0.410 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 025541 28 FIFSVPIFFTFILLLLFYLFY 48 (251)
Q Consensus 28 ~~~~v~i~~~~i~~~~~~~~~ 48 (251)
+++..++|+.+++.+.+-+++
T Consensus 4 ~lltFg~Fllvi~gMsiG~I~ 24 (77)
T COG2991 4 FLLTFGIFLLVIAGMSIGYIF 24 (77)
T ss_pred HHHHHHHHHHHHHHHhHhhhe
Confidence 344444444444444333333
No 274
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=25.27 E-value=47 Score=24.38 Aligned_cols=34 Identities=32% Similarity=0.574 Sum_probs=21.4
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHH
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHW 135 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~w 135 (251)
...|.||......-.+-.. +.|...||..|....
T Consensus 55 ~~~C~iC~~~~G~~i~C~~-~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSGGACIKCSH-PGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCCceeEEcCC-CCCCcCCCHHHHHHC
Confidence 4679999987321111111 138889999998763
No 275
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=24.67 E-value=42 Score=33.60 Aligned_cols=27 Identities=33% Similarity=0.636 Sum_probs=18.9
Q ss_pred cCCCCCcccHhhHHHHHhcCCCCccccCccc
Q 025541 120 IPACGHAFHMDCIDHWLTTHTTCPLCRLSLL 150 (251)
Q Consensus 120 ~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 150 (251)
.|.|.|..|..=|.+ .+.||+|...+.
T Consensus 1159 C~~CkH~a~~~EIs~----y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1159 CPRCKHRAHQHEISK----YNCCPLCHSMES 1185 (1189)
T ss_pred ccccccccccccccc----cccCccccChhh
Confidence 346899888765544 467999976553
No 276
>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=24.61 E-value=55 Score=21.77 Aligned_cols=14 Identities=36% Similarity=0.899 Sum_probs=9.1
Q ss_pred CCCCccccCcccCC
Q 025541 139 HTTCPLCRLSLLAP 152 (251)
Q Consensus 139 ~~~CP~Cr~~~~~~ 152 (251)
+..||+|+..+...
T Consensus 2 k~~CPlCkt~~n~g 15 (61)
T PF05715_consen 2 KSLCPLCKTTLNVG 15 (61)
T ss_pred CccCCcccchhhcC
Confidence 35688887776433
No 277
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=24.61 E-value=41 Score=33.37 Aligned_cols=33 Identities=27% Similarity=0.580 Sum_probs=24.9
Q ss_pred eEcCCCCCcccHhhHHHHHhcCCCCccccCccc
Q 025541 118 QQIPACGHAFHMDCIDHWLTTHTTCPLCRLSLL 150 (251)
Q Consensus 118 ~~~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 150 (251)
.+.|.|.-+||.+=+.--..++..||.||..-.
T Consensus 1045 t~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1045 TMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred hhCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 344467888888877776678889999998653
No 278
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=24.52 E-value=28 Score=31.19 Aligned_cols=47 Identities=17% Similarity=0.311 Sum_probs=29.2
Q ss_pred CcccccccccccccCCceeE--cCCCCCcccHhhHHHHHhcCCCCccccC
Q 025541 100 RDTQCSVCLADYQAEDKLQQ--IPACGHAFHMDCIDHWLTTHTTCPLCRL 147 (251)
Q Consensus 100 ~~~~C~IC~~~~~~~~~~~~--~~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 147 (251)
....||+|-..-.... ++. ..+=.|.+|.-|-..|-.....||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s~-v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSV-VQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhhe-eeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 3567999987632210 000 0112356677788888888888999964
No 279
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=24.24 E-value=1.1e+02 Score=28.22 Aligned_cols=23 Identities=22% Similarity=0.540 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 025541 28 FIFSVPIFFTFILLLLFYLFYLR 50 (251)
Q Consensus 28 ~~~~v~i~~~~i~~~~~~~~~~~ 50 (251)
|+|+++.++-+++++.+++|+.+
T Consensus 27 yfFlF~SLIQ~LIIlgLVLFmVY 49 (442)
T PF06637_consen 27 YFFLFVSLIQFLIILGLVLFMVY 49 (442)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 33333333334444333444333
No 280
>PF15179 Myc_target_1: Myc target protein 1
Probab=24.15 E-value=1.4e+02 Score=24.56 Aligned_cols=18 Identities=6% Similarity=0.187 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 025541 29 IFSVPIFFTFILLLLFYL 46 (251)
Q Consensus 29 ~~~v~i~~~~i~~~~~~~ 46 (251)
-.+|+++++.++.+++.+
T Consensus 28 Sm~iGLviG~li~~Lltw 45 (197)
T PF15179_consen 28 SMAIGLVIGALIWALLTW 45 (197)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333443334343333333
No 281
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.97 E-value=77 Score=23.19 Aligned_cols=36 Identities=17% Similarity=0.337 Sum_probs=28.2
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhc
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTT 138 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~ 138 (251)
...|.||-.++..++.....+ .-..|++|+..-...
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~~ 41 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKRK 41 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHhc
Confidence 457999999999998777765 456899999875543
No 282
>PF14979 TMEM52: Transmembrane 52
Probab=23.83 E-value=1.5e+02 Score=23.55 Aligned_cols=14 Identities=7% Similarity=0.202 Sum_probs=5.9
Q ss_pred hhhhhHHHHHHHHH
Q 025541 22 LKVYQAFIFSVPIF 35 (251)
Q Consensus 22 l~~~~~~~~~v~i~ 35 (251)
..+|.|.+++++++
T Consensus 17 ~~LWyIwLill~~~ 30 (154)
T PF14979_consen 17 SSLWYIWLILLIGF 30 (154)
T ss_pred ehhhHHHHHHHHHH
Confidence 33444444444433
No 283
>PF05434 Tmemb_9: TMEM9; InterPro: IPR008853 This family contains several eukaryotic transmembrane proteins which are homologous to Homo sapiens transmembrane protein 9 Q9P0T7 from SWISSPROT. The TMEM9 gene encodes a 183 amino-acid protein that contains an N-terminal signal peptide, a single transmembrane region, three potential N-glycosylation sites and three conserved cys-rich domains in the N terminus, but no known functional domains. The protein is highly conserved between species from Caenorhabditis elegans to H. sapiens and belongs to a novel family of transmembrane proteins. The exact function of TMEM9 is unknown although it has been found to be widely expressed and localised to the late endosomes and lysosomes []. Members of this family contain CXCXC repeats IPR004153 from INTERPRO in their N-terminal region.; GO: 0016021 integral to membrane
Probab=23.73 E-value=70 Score=25.41 Aligned_cols=24 Identities=13% Similarity=0.330 Sum_probs=10.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 025541 26 QAFIFSVPIFFTFILLLLFYLFYL 49 (251)
Q Consensus 26 ~~~~~~v~i~~~~i~~~~~~~~~~ 49 (251)
+++++++++|++.+++++++=-++
T Consensus 59 Iivl~Vi~lLvlYM~fL~~ldPll 82 (149)
T PF05434_consen 59 IIVLWVIGLLVLYMLFLMCLDPLL 82 (149)
T ss_pred EEeHHHHHHHHHHHHHHHHHhHHH
Confidence 344444444444444444443344
No 284
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=23.69 E-value=36 Score=29.14 Aligned_cols=41 Identities=24% Similarity=0.426 Sum_probs=29.9
Q ss_pred cccccccccccccCCceeEcCCCCCcccHhhHHHHHhcCC--CCcc
Q 025541 101 DTQCSVCLADYQAEDKLQQIPACGHAFHMDCIDHWLTTHT--TCPL 144 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~~~~~~~~C~H~fh~~Ci~~wl~~~~--~CP~ 144 (251)
+..|+|=+..+..+ ....+|+|.|-.+-|...|+... .||.
T Consensus 189 ~nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 56799987776543 23336999999999999998544 4663
No 285
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=23.58 E-value=2.1e+02 Score=20.99 Aligned_cols=14 Identities=29% Similarity=1.103 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHHH
Q 025541 34 IFFTFILLLLFYLF 47 (251)
Q Consensus 34 i~~~~i~~~~~~~~ 47 (251)
+||.++.+++|+++
T Consensus 17 ~~FA~L~i~~FiIL 30 (121)
T PF10669_consen 17 MFFAFLFIVVFIIL 30 (121)
T ss_pred HHHHHHHHHHHHHH
Confidence 33344333333333
No 286
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=23.21 E-value=61 Score=20.26 Aligned_cols=33 Identities=24% Similarity=0.472 Sum_probs=22.7
Q ss_pred ccccccccccc--ccCCceeEcCCCCCcccHhhHHH
Q 025541 101 DTQCSVCLADY--QAEDKLQQIPACGHAFHMDCIDH 134 (251)
Q Consensus 101 ~~~C~IC~~~~--~~~~~~~~~~~C~H~fh~~Ci~~ 134 (251)
...|.+|.+.+ .....++-. .|+-.+|.+|+..
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~-~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCS-WCGLVCHKKCLSK 45 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEET-TTT-EEETTGGCT
T ss_pred CCCCcccCcccCCCCCCeEEEC-CCCChHhhhhhhh
Confidence 45799999988 344455555 4999999999865
No 287
>PHA03255 BDLF3; Provisional
Probab=22.95 E-value=1.3e+02 Score=24.47 Aligned_cols=20 Identities=15% Similarity=0.303 Sum_probs=12.6
Q ss_pred CCCCcccchhhhhHHHHHHH
Q 025541 14 KSSSVSAELKVYQAFIFSVP 33 (251)
Q Consensus 14 ~~~~~~~~l~~~~~~~~~v~ 33 (251)
+-+++.+.|.+|.++++.+.
T Consensus 174 kqps~~~glplwtlvfvglt 193 (234)
T PHA03255 174 RQPSLSYGLPLWTLVFVGLT 193 (234)
T ss_pred cCcccccCchHHHHHHHHHH
Confidence 44566777887766555444
No 288
>PF04689 S1FA: DNA binding protein S1FA; InterPro: IPR006779 S1FA is an unusual small plant peptide of only 70 amino acids with a basic domain which contains a nuclear localization signal and a putative DNA binding helix. S1FA is highly conserved between dicotyledonous and monocotyledonous plants and may be a DNA-binding protein that specifically recognises the negative promoter element S1F [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=22.90 E-value=79 Score=21.35 Aligned_cols=23 Identities=13% Similarity=0.243 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 025541 28 FIFSVPIFFTFILLLLFYLFYLR 50 (251)
Q Consensus 28 ~~~~v~i~~~~i~~~~~~~~~~~ 50 (251)
++++|+-++.++++..|+++++.
T Consensus 16 VLlvV~g~ll~flvGnyvlY~Ya 38 (69)
T PF04689_consen 16 VLLVVAGLLLVFLVGNYVLYVYA 38 (69)
T ss_pred EeehHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444433
No 289
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=22.32 E-value=82 Score=24.69 Aligned_cols=15 Identities=33% Similarity=0.556 Sum_probs=11.5
Q ss_pred CCCCccccCcccCCC
Q 025541 139 HTTCPLCRLSLLAPA 153 (251)
Q Consensus 139 ~~~CP~Cr~~~~~~~ 153 (251)
...||.|...+....
T Consensus 123 ~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 123 TFTCPRCGEELEEDD 137 (147)
T ss_pred cEECCCCCCEEEEcC
Confidence 367999998886643
No 290
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=22.13 E-value=85 Score=27.30 Aligned_cols=7 Identities=29% Similarity=0.795 Sum_probs=3.5
Q ss_pred CccCC-CC
Q 025541 2 SYYTP-SC 8 (251)
Q Consensus 2 ~~~~~-~~ 8 (251)
++.+| .|
T Consensus 164 ~~~t~~aC 171 (268)
T PF09451_consen 164 EWKTKYAC 171 (268)
T ss_pred EEeccccc
Confidence 34566 44
No 291
>PF15339 Afaf: Acrosome formation-associated factor
Probab=21.84 E-value=1.8e+02 Score=23.76 Aligned_cols=20 Identities=20% Similarity=0.404 Sum_probs=7.8
Q ss_pred chhhhhHHHHHHHHHHHHHH
Q 025541 21 ELKVYQAFIFSVPIFFTFIL 40 (251)
Q Consensus 21 ~l~~~~~~~~~v~i~~~~i~ 40 (251)
++++.+-|.++..++|+.++
T Consensus 129 KlkLmLGIsLmTl~lfv~Ll 148 (200)
T PF15339_consen 129 KLKLMLGISLMTLFLFVILL 148 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444444333333333333
No 292
>PHA03048 IMV membrane protein; Provisional
Probab=21.73 E-value=1.2e+02 Score=21.99 Aligned_cols=21 Identities=29% Similarity=0.300 Sum_probs=11.1
Q ss_pred CCcCCCCCCCCcccchhhhhH
Q 025541 7 SCCSSPPKSSSVSAELKVYQA 27 (251)
Q Consensus 7 ~~~~~~~~~~~~~~~l~~~~~ 27 (251)
+|++..+-+.-.+.....|-.
T Consensus 25 aCIfAfidfsK~k~~~~~wRa 45 (93)
T PHA03048 25 SCIFAFVDFSKNKATVTVWRA 45 (93)
T ss_pred HHHHhhhhhhcCCCcchhHHH
Confidence 577776655444444444433
No 293
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=21.71 E-value=1.2e+02 Score=22.27 Aligned_cols=30 Identities=17% Similarity=0.357 Sum_probs=15.2
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 025541 21 ELKVYQAFIFSVPIFFTFILLLLFYLFYLR 50 (251)
Q Consensus 21 ~l~~~~~~~~~v~i~~~~i~~~~~~~~~~~ 50 (251)
.-.+|..+.+++++++.++++.+++.-+++
T Consensus 45 ~sh~WRN~GIli~f~i~f~~~~~~~~e~~~ 74 (103)
T PF06422_consen 45 YSHRWRNFGILIAFWIFFIVLTLLATEFIK 74 (103)
T ss_pred ccchhhhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344566665555555555554444443333
No 294
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=21.39 E-value=75 Score=27.81 Aligned_cols=43 Identities=16% Similarity=0.386 Sum_probs=23.6
Q ss_pred ccccccccccccCCceeEcC-CCCCcccHhhHHHHH-hcCCCCcc
Q 025541 102 TQCSVCLADYQAEDKLQQIP-ACGHAFHMDCIDHWL-TTHTTCPL 144 (251)
Q Consensus 102 ~~C~IC~~~~~~~~~~~~~~-~C~H~fh~~Ci~~wl-~~~~~CP~ 144 (251)
.-|.||++---.+..-.-+. .=.=.=|++|+.+|- ..++.||.
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPR 75 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCc
Confidence 34777776543332221111 001134799999994 46888983
No 295
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=21.26 E-value=47 Score=31.68 Aligned_cols=14 Identities=21% Similarity=0.536 Sum_probs=9.7
Q ss_pred cccccccccccccC
Q 025541 101 DTQCSVCLADYQAE 114 (251)
Q Consensus 101 ~~~C~IC~~~~~~~ 114 (251)
..-|+-||+++...
T Consensus 26 ~~yCp~CL~~~p~~ 39 (483)
T PF05502_consen 26 SYYCPNCLFEVPSS 39 (483)
T ss_pred eeECccccccCChh
Confidence 34588888887544
No 296
>PRK10220 hypothetical protein; Provisional
Probab=21.21 E-value=66 Score=24.17 Aligned_cols=11 Identities=27% Similarity=0.887 Sum_probs=7.3
Q ss_pred ccccccccccc
Q 025541 103 QCSVCLADYQA 113 (251)
Q Consensus 103 ~C~IC~~~~~~ 113 (251)
-||-|-.+|.-
T Consensus 5 ~CP~C~seytY 15 (111)
T PRK10220 5 HCPKCNSEYTY 15 (111)
T ss_pred cCCCCCCcceE
Confidence 37777777654
No 297
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=21.12 E-value=26 Score=27.89 Aligned_cols=24 Identities=29% Similarity=0.931 Sum_probs=16.3
Q ss_pred CCCcccHhhHHHHHhc-----------CCCCccccCcccC
Q 025541 123 CGHAFHMDCIDHWLTT-----------HTTCPLCRLSLLA 151 (251)
Q Consensus 123 C~H~fh~~Ci~~wl~~-----------~~~CP~Cr~~~~~ 151 (251)
|+|.| ..|+.. --+||+|-..-+.
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~V~ 44 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTEVS 44 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCeEe
Confidence 67887 578853 2379999665443
No 298
>PF15122 TMEM206: TMEM206 protein family
Probab=20.86 E-value=2.5e+02 Score=24.39 Aligned_cols=14 Identities=36% Similarity=0.631 Sum_probs=9.4
Q ss_pred ceeEcCCCCCcccHh
Q 025541 116 KLQQIPACGHAFHMD 130 (251)
Q Consensus 116 ~~~~~~~C~H~fh~~ 130 (251)
....+. |.|.||..
T Consensus 69 ~a~lls-Ckhhyyd~ 82 (298)
T PF15122_consen 69 KAQLLS-CKHHYYDD 82 (298)
T ss_pred cchhcc-cccccccc
Confidence 444565 99988854
No 299
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=20.73 E-value=1.4e+02 Score=23.62 Aligned_cols=25 Identities=8% Similarity=0.131 Sum_probs=12.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHH
Q 025541 23 KVYQAFIFSVPIFFTFILLLLFYLF 47 (251)
Q Consensus 23 ~~~~~~~~~v~i~~~~i~~~~~~~~ 47 (251)
.++..++.+++.++++|..++|+.+
T Consensus 116 ~~~~~i~~~i~g~ll~i~~giy~~~ 140 (145)
T PF10661_consen 116 PISPTILLSIGGILLAICGGIYVVL 140 (145)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555555554443
No 300
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=20.61 E-value=54 Score=32.27 Aligned_cols=26 Identities=35% Similarity=1.044 Sum_probs=20.2
Q ss_pred CCCCcccHhhHHHHHhc-----CCCCccccC
Q 025541 122 ACGHAFHMDCIDHWLTT-----HTTCPLCRL 147 (251)
Q Consensus 122 ~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~ 147 (251)
.|+-.+|..|+..|+.. ...||-||.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 48999999999999863 345777765
No 301
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=20.34 E-value=36 Score=29.80 Aligned_cols=50 Identities=20% Similarity=0.523 Sum_probs=28.5
Q ss_pred cccccccccccccCC------ceeEcCCCCCcccHhhH-HHHHhcC----------CCCccccCcccC
Q 025541 101 DTQCSVCLADYQAED------KLQQIPACGHAFHMDCI-DHWLTTH----------TTCPLCRLSLLA 151 (251)
Q Consensus 101 ~~~C~IC~~~~~~~~------~~~~~~~C~H~fh~~Ci-~~wl~~~----------~~CP~Cr~~~~~ 151 (251)
-..|.+|-..|..-- .+-.++ |...||.+-+ ++||.+. +.||.|.+.+-.
T Consensus 161 a~~C~~C~K~YvSmpALkMHirTH~l~-c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFAD 227 (279)
T KOG2462|consen 161 AFSCKYCGKVYVSMPALKMHIRTHTLP-CECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFAD 227 (279)
T ss_pred cccCCCCCceeeehHHHhhHhhccCCC-cccccccccccchHHhhcccccccCCCCccCCcccchhcc
Confidence 345777766653210 111244 6666665555 5898632 469999887643
No 302
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=20.26 E-value=1e+02 Score=23.61 Aligned_cols=12 Identities=17% Similarity=0.257 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHH
Q 025541 27 AFIFSVPIFFTF 38 (251)
Q Consensus 27 ~~~~~v~i~~~~ 38 (251)
++.++||+++++
T Consensus 3 ~i~lvvG~iiG~ 14 (128)
T PF06295_consen 3 IIGLVVGLIIGF 14 (128)
T ss_pred HHHHHHHHHHHH
Confidence 344444443333
No 303
>PHA02655 hypothetical protein; Provisional
Probab=20.15 E-value=52 Score=22.67 Aligned_cols=21 Identities=24% Similarity=0.352 Sum_probs=7.9
Q ss_pred cchhhhhHHHHHHHHHHHHHH
Q 025541 20 AELKVYQAFIFSVPIFFTFIL 40 (251)
Q Consensus 20 ~~l~~~~~~~~~v~i~~~~i~ 40 (251)
+.+++..+-++++.+.++.+.
T Consensus 58 tmlkfvvftiylipfvivmis 78 (94)
T PHA02655 58 TMLKFVVFTIYLIPFVIVMIS 78 (94)
T ss_pred heehheeehhhHHHHHHHHHH
Confidence 334443333333333333333
Done!