Query 044489
Match_columns 207
No_of_seqs 182 out of 1690
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 03:43:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044489.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044489hhsearch_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 4.5E-21 9.7E-26 163.4 9.4 115 49-181 173-288 (348)
2 PF13639 zf-RING_2: Ring finge 99.7 2E-17 4.3E-22 101.6 2.1 44 123-167 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.5 4.7E-15 1E-19 121.5 5.0 76 96-171 148-227 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.5 3.2E-14 6.9E-19 96.7 4.5 45 122-167 19-73 (73)
5 COG5540 RING-finger-containing 99.5 1.6E-14 3.4E-19 119.8 3.5 52 120-172 321-373 (374)
6 KOG0317 Predicted E3 ubiquitin 99.4 2.7E-13 5.9E-18 112.0 6.4 53 120-176 237-289 (293)
7 PLN03208 E3 ubiquitin-protein 99.3 2E-12 4.3E-17 102.3 6.3 56 119-178 15-86 (193)
8 KOG0823 Predicted E3 ubiquitin 99.3 1.8E-12 3.8E-17 104.4 4.3 56 119-178 44-102 (230)
9 COG5243 HRD1 HRD ubiquitin lig 99.3 2E-12 4.4E-17 110.0 4.7 50 120-170 285-344 (491)
10 PF13920 zf-C3HC4_3: Zinc fing 99.2 9.9E-12 2.2E-16 78.2 3.3 46 122-171 2-48 (50)
11 cd00162 RING RING-finger (Real 99.2 1.2E-11 2.6E-16 75.0 3.5 44 124-170 1-45 (45)
12 PF13923 zf-C3HC4_2: Zinc fing 99.2 1.6E-11 3.5E-16 73.2 3.3 39 125-166 1-39 (39)
13 PF12861 zf-Apc11: Anaphase-pr 99.2 1.3E-11 2.9E-16 85.0 3.1 51 122-172 21-83 (85)
14 PHA02926 zinc finger-like prot 99.1 4.8E-11 1E-15 95.6 3.5 52 120-171 168-230 (242)
15 KOG0320 Predicted E3 ubiquitin 99.1 9.7E-11 2.1E-15 90.7 3.5 55 119-175 128-182 (187)
16 PF14634 zf-RING_5: zinc-RING 99.0 1.9E-10 4.1E-15 70.4 3.4 44 124-168 1-44 (44)
17 PF00097 zf-C3HC4: Zinc finger 99.0 3.7E-10 8E-15 67.8 2.7 39 125-166 1-41 (41)
18 KOG0802 E3 ubiquitin ligase [P 99.0 2E-10 4.3E-15 105.4 2.0 53 121-174 290-344 (543)
19 smart00504 Ubox Modified RING 99.0 8.8E-10 1.9E-14 72.3 4.2 51 123-177 2-52 (63)
20 smart00184 RING Ring finger. E 98.9 9.7E-10 2.1E-14 64.2 3.2 38 125-166 1-39 (39)
21 PF15227 zf-C3HC4_4: zinc fing 98.9 9.4E-10 2E-14 66.6 2.4 38 125-166 1-42 (42)
22 COG5194 APC11 Component of SCF 98.8 3.8E-09 8.2E-14 71.2 3.3 30 143-172 53-82 (88)
23 KOG0828 Predicted E3 ubiquitin 98.8 8E-09 1.7E-13 91.1 5.4 51 121-172 570-635 (636)
24 KOG1493 Anaphase-promoting com 98.8 1.9E-09 4E-14 72.1 0.8 49 122-171 20-81 (84)
25 KOG1734 Predicted RING-contain 98.8 2.6E-09 5.7E-14 87.7 1.6 56 119-175 221-285 (328)
26 TIGR00599 rad18 DNA repair pro 98.7 1.4E-08 3.1E-13 89.1 4.1 51 121-175 25-75 (397)
27 smart00744 RINGv The RING-vari 98.7 2.2E-08 4.8E-13 62.6 3.4 42 124-167 1-49 (49)
28 COG5574 PEX10 RING-finger-cont 98.6 1.6E-08 3.4E-13 83.1 2.3 51 121-175 214-266 (271)
29 KOG2164 Predicted E3 ubiquitin 98.6 2.6E-08 5.7E-13 88.4 2.9 54 122-179 186-244 (513)
30 PF13445 zf-RING_UBOX: RING-ty 98.5 1.4E-07 3E-12 57.2 3.1 38 125-164 1-43 (43)
31 KOG2930 SCF ubiquitin ligase, 98.5 6.8E-08 1.5E-12 68.3 2.0 51 121-172 45-109 (114)
32 PF11793 FANCL_C: FANCL C-term 98.4 4.3E-08 9.3E-13 65.9 0.0 51 122-172 2-67 (70)
33 TIGR00570 cdk7 CDK-activating 98.4 2.3E-07 4.9E-12 78.7 4.3 53 122-175 3-58 (309)
34 COG5219 Uncharacterized conser 98.4 7.2E-08 1.6E-12 90.7 -0.1 52 120-171 1467-1523(1525)
35 PF04564 U-box: U-box domain; 98.3 2.4E-07 5.2E-12 62.8 1.6 52 122-177 4-56 (73)
36 KOG0827 Predicted E3 ubiquitin 98.3 3.6E-07 7.9E-12 78.7 1.9 55 122-176 4-61 (465)
37 KOG2177 Predicted E3 ubiquitin 98.2 6E-07 1.3E-11 74.8 1.7 45 120-168 11-55 (386)
38 KOG0287 Postreplication repair 98.2 4.6E-07 9.9E-12 76.9 0.9 51 122-176 23-73 (442)
39 KOG1039 Predicted E3 ubiquitin 98.1 1.5E-06 3.4E-11 75.0 3.4 51 120-170 159-220 (344)
40 KOG4265 Predicted E3 ubiquitin 98.1 1.8E-06 4E-11 73.9 3.0 53 120-176 288-341 (349)
41 KOG0804 Cytoplasmic Zn-finger 98.1 1.8E-06 3.9E-11 75.7 2.6 50 119-171 172-222 (493)
42 KOG4172 Predicted E3 ubiquitin 98.1 7.4E-07 1.6E-11 55.9 0.1 46 122-171 7-54 (62)
43 COG5432 RAD18 RING-finger-cont 98.0 2.2E-06 4.8E-11 71.4 2.3 50 122-175 25-74 (391)
44 PF14835 zf-RING_6: zf-RING of 98.0 1.3E-06 2.8E-11 56.9 0.4 48 123-175 8-55 (65)
45 KOG0978 E3 ubiquitin ligase in 98.0 1.8E-06 3.9E-11 80.2 1.4 52 122-177 643-695 (698)
46 KOG0311 Predicted E3 ubiquitin 97.9 1.1E-06 2.4E-11 74.9 -1.6 53 121-176 42-95 (381)
47 KOG0825 PHD Zn-finger protein 97.9 1.6E-06 3.5E-11 80.5 -1.0 56 121-177 122-177 (1134)
48 KOG1785 Tyrosine kinase negati 97.9 7.2E-06 1.6E-10 71.2 2.8 47 122-172 369-417 (563)
49 KOG0824 Predicted E3 ubiquitin 97.9 8.8E-06 1.9E-10 68.2 2.6 57 121-181 6-63 (324)
50 KOG1645 RING-finger-containing 97.8 1E-05 2.2E-10 70.4 2.9 54 121-174 3-59 (463)
51 KOG4445 Uncharacterized conser 97.8 7.6E-06 1.6E-10 68.6 0.9 50 121-171 114-186 (368)
52 KOG3970 Predicted E3 ubiquitin 97.6 6.3E-05 1.4E-09 60.8 4.1 48 122-171 50-105 (299)
53 KOG1428 Inhibitor of type V ad 97.4 0.0001 2.2E-09 72.6 2.9 56 119-175 3483-3548(3738)
54 KOG0297 TNF receptor-associate 97.4 9.9E-05 2.1E-09 65.4 2.6 55 120-177 19-73 (391)
55 KOG1941 Acetylcholine receptor 97.4 5.4E-05 1.2E-09 65.7 0.9 48 122-170 365-415 (518)
56 PF05883 Baculo_RING: Baculovi 97.4 6.6E-05 1.4E-09 56.2 1.0 35 122-157 26-66 (134)
57 PF11789 zf-Nse: Zinc-finger o 97.3 0.00012 2.6E-09 47.1 1.5 42 121-165 10-53 (57)
58 KOG3039 Uncharacterized conser 97.2 0.00026 5.7E-09 58.0 3.2 61 122-182 221-281 (303)
59 KOG1952 Transcription factor N 97.2 0.00027 5.8E-09 66.6 3.4 50 120-169 189-245 (950)
60 PHA02862 5L protein; Provision 97.2 0.00022 4.7E-09 53.9 2.3 52 122-178 2-60 (156)
61 PHA02825 LAP/PHD finger-like p 97.2 0.00037 8.1E-09 53.5 3.4 55 120-178 6-66 (162)
62 KOG4159 Predicted E3 ubiquitin 97.2 0.00022 4.7E-09 63.0 2.3 49 120-172 82-130 (398)
63 PF12906 RINGv: RING-variant d 97.1 0.00038 8.3E-09 42.9 2.2 40 125-166 1-47 (47)
64 KOG0826 Predicted E3 ubiquitin 97.0 0.0014 3.1E-08 55.8 5.4 55 114-171 292-346 (357)
65 KOG2660 Locus-specific chromos 96.9 0.00018 3.8E-09 61.2 -0.4 51 121-174 14-64 (331)
66 KOG0801 Predicted E3 ubiquitin 96.9 0.00036 7.7E-09 53.7 0.8 30 120-150 175-204 (205)
67 COG5152 Uncharacterized conser 96.8 0.00048 1E-08 54.7 1.2 45 122-170 196-240 (259)
68 PF14570 zf-RING_4: RING/Ubox 96.7 0.0018 3.9E-08 40.0 3.0 45 125-170 1-47 (48)
69 PHA03096 p28-like protein; Pro 96.7 0.00093 2E-08 56.6 1.8 47 123-169 179-232 (284)
70 KOG2879 Predicted E3 ubiquitin 96.6 0.0031 6.7E-08 52.6 4.6 51 119-172 236-288 (298)
71 KOG1814 Predicted E3 ubiquitin 96.5 0.0011 2.5E-08 57.9 1.7 48 120-168 182-237 (445)
72 PF10367 Vps39_2: Vacuolar sor 96.5 0.0012 2.7E-08 47.3 1.4 32 121-154 77-108 (109)
73 PF04641 Rtf2: Rtf2 RING-finge 96.4 0.0045 9.6E-08 51.9 4.3 60 119-179 110-169 (260)
74 KOG1002 Nucleotide excision re 96.3 0.0022 4.7E-08 58.0 1.9 53 119-175 533-590 (791)
75 KOG1813 Predicted E3 ubiquitin 96.2 0.0021 4.5E-08 54.1 1.3 47 122-172 241-287 (313)
76 KOG4739 Uncharacterized protei 96.0 0.0026 5.7E-08 52.1 0.9 44 124-171 5-48 (233)
77 COG5236 Uncharacterized conser 95.9 0.013 2.9E-07 50.4 5.0 50 119-172 58-109 (493)
78 KOG1571 Predicted E3 ubiquitin 95.9 0.0055 1.2E-07 52.9 2.7 44 121-171 304-347 (355)
79 PF14447 Prok-RING_4: Prokaryo 95.9 0.0042 9.1E-08 39.3 1.2 47 122-174 7-53 (55)
80 KOG4692 Predicted E3 ubiquitin 95.9 0.0092 2E-07 51.5 3.7 52 117-172 417-468 (489)
81 PF08746 zf-RING-like: RING-li 95.8 0.0069 1.5E-07 36.6 2.1 41 125-166 1-43 (43)
82 KOG4185 Predicted E3 ubiquitin 95.8 0.0061 1.3E-07 51.8 2.5 48 122-170 3-54 (296)
83 PF03854 zf-P11: P-11 zinc fin 95.7 0.0058 1.3E-07 37.4 1.5 43 124-172 4-47 (50)
84 KOG0827 Predicted E3 ubiquitin 95.7 0.00053 1.2E-08 59.5 -4.3 54 122-176 196-250 (465)
85 KOG2114 Vacuolar assembly/sort 95.4 0.0069 1.5E-07 57.5 1.5 43 122-170 840-882 (933)
86 PF10272 Tmpp129: Putative tra 95.2 0.018 3.9E-07 50.3 3.3 32 144-175 311-355 (358)
87 KOG3268 Predicted E3 ubiquitin 95.2 0.013 2.8E-07 46.0 2.1 30 143-172 189-229 (234)
88 PF14446 Prok-RING_1: Prokaryo 95.0 0.036 7.8E-07 35.0 3.3 45 121-169 4-50 (54)
89 COG5222 Uncharacterized conser 94.9 0.019 4E-07 48.6 2.4 43 123-168 275-318 (427)
90 KOG1940 Zn-finger protein [Gen 94.8 0.013 2.8E-07 49.4 1.3 50 121-172 157-207 (276)
91 PF07800 DUF1644: Protein of u 94.7 0.021 4.6E-07 43.9 2.1 56 122-180 2-100 (162)
92 COG5175 MOT2 Transcriptional r 94.2 0.04 8.7E-07 47.4 2.9 55 121-176 13-69 (480)
93 KOG1001 Helicase-like transcri 94.1 0.014 3.1E-07 55.1 0.0 50 123-177 455-506 (674)
94 KOG2932 E3 ubiquitin ligase in 94.0 0.024 5.2E-07 48.2 1.2 43 123-170 91-133 (389)
95 COG5183 SSM4 Protein involved 94.0 0.057 1.2E-06 51.4 3.6 59 120-178 10-73 (1175)
96 KOG4275 Predicted E3 ubiquitin 93.8 0.012 2.7E-07 49.5 -1.0 41 122-170 300-341 (350)
97 KOG2034 Vacuolar sorting prote 93.7 0.032 7E-07 53.4 1.5 35 121-157 816-850 (911)
98 KOG3053 Uncharacterized conser 93.3 0.037 7.9E-07 45.9 1.1 51 120-171 18-82 (293)
99 KOG0298 DEAD box-containing he 93.1 0.021 4.6E-07 56.6 -0.7 45 122-169 1153-1197(1394)
100 KOG1609 Protein involved in mR 92.9 0.068 1.5E-06 45.5 2.3 51 122-173 78-136 (323)
101 KOG3161 Predicted E3 ubiquitin 92.6 0.031 6.7E-07 51.8 -0.3 44 123-169 12-55 (861)
102 PF02439 Adeno_E3_CR2: Adenovi 92.6 0.27 5.8E-06 28.6 3.7 24 44-67 7-30 (38)
103 KOG2817 Predicted E3 ubiquitin 92.5 0.52 1.1E-05 41.5 7.1 49 121-170 333-384 (394)
104 KOG3800 Predicted E3 ubiquitin 92.2 0.14 2.9E-06 43.3 3.0 51 124-174 2-54 (300)
105 KOG3002 Zn finger protein [Gen 92.1 0.098 2.1E-06 44.8 2.2 45 120-172 46-92 (299)
106 KOG0309 Conserved WD40 repeat- 90.9 0.12 2.7E-06 48.8 1.7 23 143-165 1047-1069(1081)
107 KOG1812 Predicted E3 ubiquitin 90.3 0.13 2.8E-06 45.6 1.2 37 121-158 145-182 (384)
108 COG5220 TFB3 Cdk activating ki 90.2 0.13 2.8E-06 42.3 1.0 50 121-170 9-63 (314)
109 KOG3899 Uncharacterized conser 90.1 0.13 2.8E-06 43.5 1.0 32 144-175 325-369 (381)
110 KOG1100 Predicted E3 ubiquitin 90.1 0.19 4.1E-06 40.8 1.9 39 125-171 161-200 (207)
111 KOG0802 E3 ubiquitin ligase [P 88.9 0.2 4.2E-06 46.5 1.3 55 120-182 477-531 (543)
112 KOG4362 Transcriptional regula 87.3 0.15 3.2E-06 48.0 -0.5 52 122-177 21-75 (684)
113 PF13901 DUF4206: Domain of un 87.1 0.51 1.1E-05 38.1 2.6 41 122-168 152-197 (202)
114 PF05290 Baculo_IE-1: Baculovi 86.6 0.67 1.5E-05 34.8 2.7 53 121-173 79-134 (140)
115 PF07975 C1_4: TFIIH C1-like d 86.6 0.69 1.5E-05 28.9 2.4 42 125-167 2-50 (51)
116 KOG1829 Uncharacterized conser 86.5 0.27 5.9E-06 45.6 0.7 44 121-168 510-558 (580)
117 PF01102 Glycophorin_A: Glycop 85.3 1.6 3.4E-05 32.5 4.1 20 38-57 62-81 (122)
118 PF13908 Shisa: Wnt and FGF in 82.8 1.4 3.1E-05 34.6 3.3 24 42-65 77-100 (179)
119 TIGR00622 ssl1 transcription f 82.5 2.5 5.4E-05 30.9 4.1 47 122-168 55-111 (112)
120 KOG0269 WD40 repeat-containing 81.8 1.5 3.3E-05 41.7 3.5 45 123-169 780-826 (839)
121 KOG3113 Uncharacterized conser 80.6 1.6 3.4E-05 36.4 2.8 59 121-181 110-168 (293)
122 KOG2066 Vacuolar assembly/sort 80.5 0.62 1.4E-05 44.4 0.5 43 122-166 784-830 (846)
123 smart00132 LIM Zinc-binding do 79.5 1.3 2.9E-05 24.8 1.6 37 125-171 2-38 (39)
124 KOG0825 PHD Zn-finger protein 78.6 1.6 3.5E-05 41.9 2.5 49 122-170 96-153 (1134)
125 PF02891 zf-MIZ: MIZ/SP-RING z 77.7 2.7 5.8E-05 26.0 2.6 42 124-169 4-50 (50)
126 KOG4718 Non-SMC (structural ma 77.7 1 2.2E-05 36.4 0.9 43 122-167 181-223 (235)
127 PF14569 zf-UDP: Zinc-binding 77.3 5.2 0.00011 27.2 4.0 53 120-172 7-63 (80)
128 PF10571 UPF0547: Uncharacteri 76.9 1.6 3.4E-05 23.3 1.2 23 124-148 2-24 (26)
129 KOG3005 GIY-YIG type nuclease 76.3 2.5 5.4E-05 35.5 2.8 49 123-171 183-243 (276)
130 PF15050 SCIMP: SCIMP protein 76.2 4.2 9.1E-05 30.0 3.6 24 43-66 8-31 (133)
131 TIGR01478 STEVOR variant surfa 74.2 4.4 9.6E-05 34.3 3.8 18 41-58 259-276 (295)
132 KOG1815 Predicted E3 ubiquitin 74.2 2.3 5E-05 38.4 2.3 37 120-159 68-104 (444)
133 PF11980 DUF3481: Domain of un 74.2 5.3 0.00011 27.5 3.5 32 35-67 10-42 (87)
134 smart00249 PHD PHD zinc finger 73.7 2.9 6.3E-05 24.2 2.0 31 124-155 1-31 (47)
135 PF01363 FYVE: FYVE zinc finge 73.3 1.5 3.2E-05 28.7 0.6 38 120-157 7-44 (69)
136 PF07204 Orthoreo_P10: Orthore 73.0 2.1 4.5E-05 30.1 1.3 27 38-67 39-65 (98)
137 KOG2807 RNA polymerase II tran 72.6 3.8 8.2E-05 35.4 3.0 60 107-168 315-375 (378)
138 PF13719 zinc_ribbon_5: zinc-r 72.6 2.2 4.9E-05 24.6 1.2 26 124-149 4-36 (37)
139 PTZ00370 STEVOR; Provisional 71.8 5.2 0.00011 34.0 3.7 19 41-59 255-273 (296)
140 PLN02189 cellulose synthase 71.7 6.9 0.00015 38.9 5.0 52 120-171 32-87 (1040)
141 KOG2068 MOT2 transcription fac 71.7 7.4 0.00016 33.6 4.6 54 122-176 249-303 (327)
142 PF06676 DUF1178: Protein of u 71.4 2.2 4.7E-05 32.8 1.2 37 144-185 10-57 (148)
143 PF00412 LIM: LIM domain; Int 71.1 2.1 4.5E-05 26.6 0.9 40 125-174 1-40 (58)
144 PF04478 Mid2: Mid2 like cell 70.3 0.9 1.9E-05 34.9 -1.1 26 42-67 51-76 (154)
145 PF00628 PHD: PHD-finger; Int 69.7 3.4 7.3E-05 25.1 1.6 43 125-168 2-50 (51)
146 KOG4367 Predicted Zn-finger pr 69.1 2.3 4.9E-05 38.2 1.0 34 121-158 3-36 (699)
147 PF01102 Glycophorin_A: Glycop 69.0 7.5 0.00016 28.9 3.6 25 44-68 64-88 (122)
148 PF12877 DUF3827: Domain of un 68.8 8.8 0.00019 36.2 4.7 12 55-66 283-294 (684)
149 PLN02436 cellulose synthase A 68.1 9.3 0.0002 38.2 5.0 52 120-171 34-89 (1094)
150 PF05624 LSR: Lipolysis stimul 67.8 5.4 0.00012 24.2 2.1 20 41-60 2-21 (49)
151 PF15176 LRR19-TM: Leucine-ric 66.9 12 0.00025 26.8 4.0 39 38-76 14-54 (102)
152 PF06844 DUF1244: Protein of u 66.6 3.5 7.6E-05 27.1 1.3 12 147-158 11-22 (68)
153 smart00064 FYVE Protein presen 66.3 7.5 0.00016 25.1 2.9 37 121-157 9-45 (68)
154 PF15102 TMEM154: TMEM154 prot 64.7 3.4 7.3E-05 31.6 1.1 6 152-157 129-134 (146)
155 cd00065 FYVE FYVE domain; Zinc 64.6 6.1 0.00013 24.5 2.1 35 123-157 3-37 (57)
156 KOG3842 Adaptor protein Pellin 63.4 8.3 0.00018 33.3 3.2 50 122-172 341-415 (429)
157 COG5109 Uncharacterized conser 62.2 34 0.00073 29.7 6.6 47 121-168 335-384 (396)
158 KOG1812 Predicted E3 ubiquitin 61.7 4.3 9.3E-05 36.1 1.3 46 122-168 306-353 (384)
159 PHA02819 hypothetical protein; 61.3 13 0.00029 24.6 3.3 7 21-27 27-33 (71)
160 PF15048 OSTbeta: Organic solu 61.2 17 0.00036 27.0 4.1 27 38-64 32-58 (125)
161 PF05961 Chordopox_A13L: Chord 60.3 23 0.00051 23.3 4.2 21 47-67 2-22 (68)
162 PF06906 DUF1272: Protein of u 59.2 21 0.00045 22.7 3.7 44 124-172 7-53 (57)
163 cd00350 rubredoxin_like Rubred 58.8 5.4 0.00012 22.3 1.0 21 143-169 6-26 (33)
164 PF02009 Rifin_STEVOR: Rifin/s 58.5 13 0.00028 32.0 3.6 10 57-66 271-280 (299)
165 PF06937 EURL: EURL protein; 57.9 8.9 0.00019 32.3 2.5 51 122-174 30-82 (285)
166 PF01299 Lamp: Lysosome-associ 56.9 6.9 0.00015 33.4 1.8 18 45-62 275-292 (306)
167 PF04423 Rad50_zn_hook: Rad50 56.5 4.1 8.9E-05 25.4 0.2 12 161-172 21-32 (54)
168 KOG0824 Predicted E3 ubiquitin 56.4 6.1 0.00013 33.8 1.3 67 103-172 86-152 (324)
169 PF11023 DUF2614: Protein of u 56.0 11 0.00023 27.6 2.3 29 142-176 73-101 (114)
170 PF04710 Pellino: Pellino; In 55.5 3.9 8.4E-05 36.3 0.0 50 122-172 328-402 (416)
171 PLN02915 cellulose synthase A 55.1 17 0.00037 36.3 4.2 52 120-171 13-68 (1044)
172 PF05568 ASFV_J13L: African sw 54.5 19 0.0004 27.6 3.5 11 43-53 32-42 (189)
173 PF05399 EVI2A: Ectropic viral 53.6 28 0.00061 28.3 4.6 27 38-64 126-152 (227)
174 PTZ00208 65 kDa invariant surf 53.6 14 0.0003 32.9 3.1 23 44-66 387-410 (436)
175 PF08114 PMP1_2: ATPase proteo 53.4 13 0.00028 22.0 2.0 14 54-67 19-32 (43)
176 PF13717 zinc_ribbon_4: zinc-r 53.4 7.3 0.00016 22.3 0.9 26 124-149 4-36 (36)
177 PF08374 Protocadherin: Protoc 52.8 8.5 0.00018 31.3 1.5 9 22-30 14-22 (221)
178 PF10497 zf-4CXXC_R1: Zinc-fin 50.7 19 0.00041 25.9 3.0 25 145-169 37-70 (105)
179 KOG2041 WD40 repeat protein [G 49.7 16 0.00034 35.3 2.9 30 138-171 1156-1185(1189)
180 PF05715 zf-piccolo: Piccolo Z 49.7 12 0.00027 24.0 1.6 15 160-174 2-16 (61)
181 smart00647 IBR In Between Ring 49.6 4.8 0.0001 25.4 -0.3 21 136-156 38-58 (64)
182 PLN02638 cellulose synthase A 49.5 24 0.00053 35.4 4.3 52 120-171 15-70 (1079)
183 KOG3579 Predicted E3 ubiquitin 48.4 10 0.00022 32.3 1.4 40 122-161 268-307 (352)
184 PHA03049 IMV membrane protein; 48.1 41 0.00088 22.1 3.8 21 47-67 2-22 (68)
185 PF14311 DUF4379: Domain of un 48.1 12 0.00026 23.3 1.4 23 143-166 33-55 (55)
186 KOG3039 Uncharacterized conser 47.7 15 0.00032 30.7 2.2 32 122-157 43-74 (303)
187 PF05393 Hum_adeno_E3A: Human 47.6 57 0.0012 22.7 4.7 10 59-68 48-57 (94)
188 PLN02400 cellulose synthase 47.2 27 0.00058 35.1 4.2 52 120-171 34-89 (1085)
189 PF07649 C1_3: C1-like domain; 47.2 19 0.00041 19.4 2.0 29 124-153 2-30 (30)
190 PHA02975 hypothetical protein; 46.4 41 0.00089 22.3 3.7 6 38-43 41-46 (69)
191 PF01034 Syndecan: Syndecan do 45.4 6.9 0.00015 25.6 -0.0 20 45-64 14-33 (64)
192 PLN02248 cellulose synthase-li 45.2 32 0.00069 34.7 4.4 33 143-175 149-181 (1135)
193 PF02318 FYVE_2: FYVE-type zin 45.2 16 0.00035 26.6 1.9 47 121-168 53-102 (118)
194 PF14169 YdjO: Cold-inducible 44.8 12 0.00026 24.1 1.0 14 159-172 38-51 (59)
195 PLN02195 cellulose synthase A 44.8 30 0.00065 34.4 4.1 52 121-172 5-60 (977)
196 PF05454 DAG1: Dystroglycan (D 44.4 7.4 0.00016 33.2 0.0 23 45-67 149-171 (290)
197 PRK05978 hypothetical protein; 43.7 15 0.00033 28.2 1.6 24 145-173 42-65 (148)
198 KOG4185 Predicted E3 ubiquitin 43.2 3.9 8.5E-05 34.6 -1.9 49 122-170 207-266 (296)
199 PF14147 Spore_YhaL: Sporulati 43.0 25 0.00054 21.9 2.2 13 40-52 3-15 (52)
200 PF07191 zinc-ribbons_6: zinc- 42.9 6.3 0.00014 26.3 -0.5 41 123-172 2-42 (70)
201 PF07406 NICE-3: NICE-3 protei 42.6 33 0.00072 27.3 3.5 26 38-63 6-31 (186)
202 TIGR00686 phnA alkylphosphonat 42.4 13 0.00029 26.8 1.1 23 124-146 4-27 (109)
203 KOG1729 FYVE finger containing 42.1 5.5 0.00012 34.0 -1.1 39 122-161 214-252 (288)
204 PF09723 Zn-ribbon_8: Zinc rib 42.0 5.5 0.00012 23.6 -0.8 25 143-168 10-34 (42)
205 PF07282 OrfB_Zn_ribbon: Putat 41.7 32 0.00069 22.2 2.8 34 121-154 27-62 (69)
206 PRK11827 hypothetical protein; 41.0 8.8 0.00019 24.8 -0.0 19 154-172 2-20 (60)
207 PF10873 DUF2668: Protein of u 40.9 53 0.0011 25.1 4.1 28 31-58 52-79 (155)
208 PF03229 Alpha_GJ: Alphavirus 40.2 63 0.0014 23.7 4.2 33 45-77 88-120 (126)
209 COG3492 Uncharacterized protei 40.0 15 0.00032 25.8 0.9 12 147-158 42-53 (104)
210 PRK00523 hypothetical protein; 39.8 55 0.0012 21.9 3.6 9 97-105 39-47 (72)
211 KOG1356 Putative transcription 39.5 15 0.00033 35.7 1.2 61 121-183 228-294 (889)
212 COG1545 Predicted nucleic-acid 39.3 16 0.00035 27.6 1.1 22 141-170 32-53 (140)
213 PF11770 GAPT: GRB2-binding ad 38.7 12 0.00026 28.8 0.3 23 45-67 12-34 (158)
214 PTZ00382 Variant-specific surf 38.2 10 0.00022 26.8 -0.1 8 42-49 68-75 (96)
215 PF13832 zf-HC5HC2H_2: PHD-zin 38.2 27 0.00058 24.8 2.1 33 121-155 54-87 (110)
216 PF06750 DiS_P_DiS: Bacterial 37.9 38 0.00082 23.7 2.8 40 122-174 33-72 (92)
217 PF15183 MRAP: Melanocortin-2 37.8 1.1E+02 0.0023 21.2 4.8 22 43-64 36-57 (90)
218 PF15069 FAM163: FAM163 family 37.5 56 0.0012 24.9 3.8 7 160-166 91-97 (143)
219 PHA03099 epidermal growth fact 37.4 47 0.001 24.9 3.3 33 35-67 92-125 (139)
220 KOG4577 Transcription factor L 37.3 10 0.00022 32.3 -0.2 39 122-170 92-130 (383)
221 PRK10220 hypothetical protein; 36.5 24 0.00052 25.6 1.6 13 124-136 5-17 (111)
222 cd04718 BAH_plant_2 BAH, or Br 36.5 12 0.00025 28.8 -0.0 31 148-178 2-36 (148)
223 PTZ00046 rifin; Provisional 36.4 45 0.00097 29.4 3.6 19 45-63 317-335 (358)
224 PRK01343 zinc-binding protein; 36.2 27 0.00059 22.3 1.6 12 160-171 9-20 (57)
225 KOG1538 Uncharacterized conser 36.1 17 0.00036 34.8 0.9 34 138-171 1044-1077(1081)
226 KOG2231 Predicted E3 ubiquitin 35.9 35 0.00076 32.5 3.0 50 124-177 2-58 (669)
227 PF14979 TMEM52: Transmembrane 35.4 94 0.002 23.8 4.7 21 44-64 23-43 (154)
228 TIGR01477 RIFIN variant surfac 35.3 48 0.001 29.1 3.6 16 45-60 312-327 (353)
229 KOG2979 Protein involved in DN 35.2 20 0.00043 30.0 1.1 45 122-169 176-222 (262)
230 TIGR00627 tfb4 transcription f 34.5 27 0.00059 29.6 1.9 10 160-169 269-278 (279)
231 PF02009 Rifin_STEVOR: Rifin/s 33.0 59 0.0013 27.9 3.7 26 45-70 256-281 (299)
232 PF10083 DUF2321: Uncharacteri 32.5 21 0.00046 27.6 0.9 49 126-177 8-56 (158)
233 PHA02844 putative transmembran 32.5 1.1E+02 0.0024 20.5 4.2 7 24-30 27-33 (75)
234 PF12768 Rax2: Cortical protei 32.5 96 0.0021 26.3 4.9 20 45-64 234-253 (281)
235 PRK01844 hypothetical protein; 32.0 85 0.0018 21.0 3.5 9 97-105 38-46 (72)
236 KOG4080 Mitochondrial ribosoma 31.6 19 0.00041 28.1 0.4 14 133-146 88-101 (176)
237 PF14991 MLANA: Protein melan- 31.6 9.7 0.00021 27.8 -1.1 7 60-66 42-48 (118)
238 PF06024 DUF912: Nucleopolyhed 31.5 32 0.00069 24.4 1.6 10 52-61 69-78 (101)
239 PF04834 Adeno_E3_14_5: Early 31.4 50 0.0011 23.4 2.5 14 34-47 17-30 (97)
240 smart00734 ZnF_Rad18 Rad18-lik 31.2 22 0.00048 18.7 0.6 9 162-170 3-11 (26)
241 PF07423 DUF1510: Protein of u 30.9 36 0.00077 27.9 2.0 7 45-51 18-24 (217)
242 KOG2071 mRNA cleavage and poly 30.3 26 0.00057 32.7 1.2 34 121-156 512-556 (579)
243 PF15353 HECA: Headcase protei 30.3 32 0.0007 24.8 1.4 13 144-156 40-52 (107)
244 PRK00418 DNA gyrase inhibitor; 30.1 25 0.00054 22.9 0.7 11 161-171 7-17 (62)
245 PF09943 DUF2175: Uncharacteri 29.8 43 0.00093 24.0 2.0 32 124-157 4-35 (101)
246 KOG3352 Cytochrome c oxidase, 29.2 32 0.0007 26.4 1.3 8 123-131 112-119 (153)
247 COG3763 Uncharacterized protei 29.0 1.3E+02 0.0027 20.1 3.9 9 97-105 38-46 (71)
248 COG1592 Rubrerythrin [Energy p 28.7 33 0.00072 26.8 1.4 25 138-169 134-158 (166)
249 PF02060 ISK_Channel: Slow vol 28.7 1.3E+02 0.0027 22.5 4.3 22 45-66 47-68 (129)
250 PF08274 PhnA_Zn_Ribbon: PhnA 28.6 21 0.00046 19.6 0.2 24 124-147 4-28 (30)
251 PHA03265 envelope glycoprotein 28.0 35 0.00075 30.0 1.5 25 43-68 350-374 (402)
252 PF13771 zf-HC5HC2H: PHD-like 27.9 43 0.00092 22.7 1.7 33 122-155 36-68 (90)
253 PF13908 Shisa: Wnt and FGF in 27.3 64 0.0014 25.1 2.8 17 45-62 84-100 (179)
254 PF11694 DUF3290: Protein of u 27.3 31 0.00068 26.4 1.0 19 25-43 2-20 (149)
255 PF04216 FdhE: Protein involve 27.2 8.5 0.00018 32.6 -2.4 49 120-169 170-220 (290)
256 PF10886 DUF2685: Protein of u 27.1 26 0.00056 22.1 0.4 15 162-176 3-17 (54)
257 smart00834 CxxC_CXXC_SSSS Puta 27.0 18 0.00038 20.7 -0.3 26 143-170 10-36 (41)
258 TIGR03521 GldG gliding-associa 26.9 63 0.0014 30.1 3.1 15 2-16 486-500 (552)
259 smart00531 TFIIE Transcription 26.8 59 0.0013 24.6 2.5 15 160-174 123-137 (147)
260 PRK14471 F0F1 ATP synthase sub 26.2 92 0.002 23.8 3.5 28 43-70 8-35 (164)
261 PF02038 ATP1G1_PLM_MAT8: ATP1 25.9 1.3E+02 0.0027 18.7 3.3 22 46-67 16-37 (50)
262 COG5627 MMS21 DNA repair prote 25.8 36 0.00078 28.2 1.1 52 122-176 189-244 (275)
263 COG4847 Uncharacterized protei 25.7 70 0.0015 22.7 2.4 35 122-158 6-40 (103)
264 PF06679 DUF1180: Protein of u 25.6 87 0.0019 24.4 3.2 18 50-67 99-116 (163)
265 PRK11901 hypothetical protein; 24.7 71 0.0015 27.7 2.8 18 45-62 38-55 (327)
266 PF10577 UPF0560: Uncharacteri 24.6 82 0.0018 30.7 3.4 21 46-66 278-298 (807)
267 PF05191 ADK_lid: Adenylate ki 24.6 36 0.00079 19.4 0.7 29 140-170 3-31 (36)
268 PF14851 FAM176: FAM176 family 24.2 90 0.002 24.1 3.0 15 29-43 11-25 (153)
269 PF15065 NCU-G1: Lysosomal tra 24.2 45 0.00097 29.3 1.5 19 45-63 323-341 (350)
270 TIGR02300 FYDLN_acid conserved 23.9 68 0.0015 24.0 2.2 30 140-175 11-41 (129)
271 PHA02610 uvsY.-2 hypothetical 23.9 30 0.00065 21.6 0.3 16 161-176 2-17 (53)
272 KOG1815 Predicted E3 ubiquitin 23.8 24 0.00053 31.8 -0.2 38 122-159 226-267 (444)
273 PF12191 stn_TNFRSF12A: Tumour 23.7 36 0.00077 25.4 0.7 13 43-55 79-91 (129)
274 PF06422 PDR_CDR: CDR ABC tran 23.6 1.2E+02 0.0026 21.5 3.4 24 39-62 47-71 (103)
275 KOG1245 Chromatin remodeling c 23.5 28 0.00062 36.2 0.2 49 121-170 1107-1159(1404)
276 PF03884 DUF329: Domain of unk 23.4 23 0.0005 22.6 -0.3 11 162-172 4-14 (57)
277 PF09889 DUF2116: Uncharacteri 23.4 49 0.0011 21.2 1.2 15 159-173 2-16 (59)
278 KOG1729 FYVE finger containing 23.3 29 0.00064 29.6 0.2 57 116-172 162-226 (288)
279 TIGR01478 STEVOR variant surfa 22.9 99 0.0021 26.4 3.2 10 53-62 267-276 (295)
280 PTZ00303 phosphatidylinositol 22.9 66 0.0014 31.6 2.4 35 123-157 461-500 (1374)
281 PF05399 EVI2A: Ectropic viral 22.7 1.1E+02 0.0024 25.0 3.3 26 43-68 128-153 (227)
282 PF06716 DUF1201: Protein of u 22.6 1.9E+02 0.0042 17.6 4.1 19 46-64 10-28 (54)
283 PRK11088 rrmA 23S rRNA methylt 22.6 59 0.0013 27.0 1.9 25 123-148 3-27 (272)
284 PF02480 Herpes_gE: Alphaherpe 22.4 29 0.00063 31.5 0.0 14 53-66 363-376 (439)
285 TIGR02605 CxxC_CxxC_SSSS putat 22.3 32 0.00069 20.9 0.2 21 143-168 10-34 (52)
286 PF04210 MtrG: Tetrahydrometha 22.3 92 0.002 20.7 2.3 13 43-55 51-63 (70)
287 KOG0289 mRNA splicing factor [ 22.2 93 0.002 28.3 3.0 57 124-183 2-58 (506)
288 PF05545 FixQ: Cbb3-type cytoc 22.1 1.4E+02 0.0031 17.9 3.1 11 55-65 20-30 (49)
289 PF05502 Dynactin_p62: Dynacti 22.0 46 0.00099 30.6 1.2 15 122-136 26-40 (483)
290 PRK01026 tetrahydromethanopter 22.0 1.5E+02 0.0032 20.1 3.3 16 43-58 54-69 (77)
291 COG5319 Uncharacterized protei 21.7 15 0.00032 27.5 -1.6 22 162-183 34-55 (142)
292 PF01299 Lamp: Lysosome-associ 21.7 98 0.0021 26.4 3.1 23 45-67 271-293 (306)
293 PF11353 DUF3153: Protein of u 21.4 1.1E+02 0.0025 24.5 3.3 21 46-66 184-204 (209)
294 PF14914 LRRC37AB_C: LRRC37A/B 21.3 2.1E+02 0.0046 22.0 4.4 12 45-56 121-132 (154)
295 PF14584 DUF4446: Protein of u 21.2 1.3E+02 0.0028 23.1 3.3 12 120-131 95-106 (151)
296 COG2835 Uncharacterized conser 21.1 42 0.00091 21.7 0.5 10 162-171 10-19 (60)
297 PF09356 Phage_BR0599: Phage c 21.0 1E+02 0.0022 20.9 2.5 24 132-156 41-64 (80)
298 COG3357 Predicted transcriptio 21.0 27 0.00059 24.5 -0.3 24 143-170 63-86 (97)
299 COG3813 Uncharacterized protei 21.0 1.1E+02 0.0023 20.6 2.4 47 125-174 8-55 (84)
300 PF04277 OAD_gamma: Oxaloaceta 20.8 2.6E+02 0.0056 18.3 6.1 6 46-51 9-14 (79)
301 COG0675 Transposase and inacti 20.7 87 0.0019 26.2 2.6 31 120-153 307-337 (364)
302 PF10164 DUF2367: Uncharacteri 20.6 1.2E+02 0.0026 21.5 2.8 28 45-72 65-92 (98)
303 PF10779 XhlA: Haemolysin XhlA 20.5 74 0.0016 20.9 1.7 21 38-58 49-69 (71)
304 PF15347 PAG: Phosphoprotein a 20.2 2E+02 0.0044 25.6 4.6 33 35-67 10-42 (428)
305 PF14316 DUF4381: Domain of un 20.2 1E+02 0.0022 23.1 2.7 8 36-43 16-23 (146)
306 PRK03564 formate dehydrogenase 20.1 60 0.0013 28.0 1.4 43 121-169 186-235 (309)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.84 E-value=4.5e-21 Score=163.43 Aligned_cols=115 Identities=29% Similarity=0.550 Sum_probs=82.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhccccccccccCCCCCCCCCCCCCCCCCHHHHhhCCCeecCCCCCCCCCCCCccccc
Q 044489 49 VGIPGLLCIIGLGCYLCGRFRACYQHRNSDAELGTSITPQLQPAFVPTGLDKPTIESYPKTILGDSGRLPKPNDSTCPIC 128 (207)
Q Consensus 49 i~i~~~i~~i~i~~~~~~~~r~~~r~r~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~p~~~~~~~~~~~~~~~~~C~IC 128 (207)
++.++.+..+...+++.++++++.+.|++ .....+.+..++++|...|......... ..|+||
T Consensus 173 ~i~~l~v~~il~~~f~i~~~~~~~~~r~~---------------~~~~r~~k~~l~~~p~~~f~~~~~~~~~--~~CaIC 235 (348)
T KOG4628|consen 173 LISLLTVVAILVTCFFIYRIRRLIRARNR---------------LRRNRLIKRLLKKLPVRTFTKGDDEDAT--DTCAIC 235 (348)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhH---------------hhhhhhHHHHHhhCCcEEeccccccCCC--ceEEEe
Confidence 44445555555555555554443333221 2234677889999999999876644333 699999
Q ss_pred CccCCCCCceeecCCCCCcccHHHHHHHhhcC-CCCccccCcCCCCCCCCCCcc
Q 044489 129 LCEYHPKETLRSIPKCNHYFHAICIDEWLKIN-ATCPLCRNSRENSSVVTPSSS 181 (207)
Q Consensus 129 L~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-~~CP~CR~~~~~~~~~~~~~~ 181 (207)
||+|+.+|++|+|| |+|.||..|||+||.++ ..||+||+++......++.++
T Consensus 236 lEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~~~~~e 288 (348)
T KOG4628|consen 236 LEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGSEPVSE 288 (348)
T ss_pred ecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCCCCCCccC
Confidence 99999999999999 99999999999999655 569999999876655554444
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.67 E-value=2e-17 Score=101.59 Aligned_cols=44 Identities=52% Similarity=1.251 Sum_probs=40.3
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCcccc
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 167 (207)
++|+||+++|..++.+..++ |+|.||.+||.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 37999999999999999998 999999999999999899999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.54 E-value=4.7e-15 Score=121.52 Aligned_cols=76 Identities=29% Similarity=0.556 Sum_probs=58.3
Q ss_pred CCCCHHHHhhCCCeecCCCCCCCCCCCCcccccCccCCCCC----ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489 96 TGLDKPTIESYPKTILGDSGRLPKPNDSTCPICLCEYHPKE----TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 96 ~~~~~~~i~~~p~~~~~~~~~~~~~~~~~C~ICL~~~~~~~----~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
.+..+..+.++|..............+.+|+||++++.+++ .+.+++.|+|.||.+||.+|++.+.+||+||.++.
T Consensus 148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 45577888888887654433333445789999999987654 23455569999999999999999999999999875
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=99.49 E-value=3.2e-14 Score=96.66 Aligned_cols=45 Identities=47% Similarity=0.979 Sum_probs=35.8
Q ss_pred CCcccccCccCCCC----------CceeecCCCCCcccHHHHHHHhhcCCCCcccc
Q 044489 122 DSTCPICLCEYHPK----------ETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167 (207)
Q Consensus 122 ~~~C~ICL~~~~~~----------~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 167 (207)
++.|+||++++.+. -.+...+ |||.||..||.+||+.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 55699999999332 2344455 999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.48 E-value=1.6e-14 Score=119.80 Aligned_cols=52 Identities=35% Similarity=0.973 Sum_probs=47.5
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSREN 172 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~ 172 (207)
..+.+|+|||++|..+|+++++| |+|.||..|+++|+. .+..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 34689999999999999999999 999999999999995 77789999999865
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.42 E-value=2.7e-13 Score=112.04 Aligned_cols=53 Identities=36% Similarity=0.783 Sum_probs=45.4
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV 176 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~ 176 (207)
.....|.+||+...++. -+| |||+||+.||..|...+..||+||.+..++.++
T Consensus 237 ~a~~kC~LCLe~~~~pS---aTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPS---ATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCceEEEecCCCCCC---cCc-CcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence 34679999999876653 566 999999999999999999999999999887664
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.34 E-value=2e-12 Score=102.25 Aligned_cols=56 Identities=27% Similarity=0.635 Sum_probs=44.6
Q ss_pred CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc----------------CCCCccccCcCCCCCCCCC
Q 044489 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI----------------NATCPLCRNSRENSSVVTP 178 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~----------------~~~CP~CR~~~~~~~~~~~ 178 (207)
..++.+|+||++.+.+. .+++ |||.||+.||.+|+.. ...||+||+++....+++.
T Consensus 15 ~~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi 86 (193)
T PLN03208 15 SGGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI 86 (193)
T ss_pred CCCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence 34578999999988654 2455 9999999999999842 3479999999988777664
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=1.8e-12 Score=104.36 Aligned_cols=56 Identities=27% Similarity=0.581 Sum_probs=45.3
Q ss_pred CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC---CCCccccCcCCCCCCCCC
Q 044489 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN---ATCPLCRNSRENSSVVTP 178 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~~~~~~~~~~ 178 (207)
.....+|.||||.-+++ | ++. |||+||+.||.+||..+ +.||+||..+..+.+++.
T Consensus 44 ~~~~FdCNICLd~akdP--V-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPl 102 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP--V-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPL 102 (230)
T ss_pred CCCceeeeeeccccCCC--E-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccceEEee
Confidence 35679999999985444 4 343 99999999999999543 369999999999998875
No 9
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=2e-12 Score=110.00 Aligned_cols=50 Identities=38% Similarity=0.968 Sum_probs=42.2
Q ss_pred CCCCcccccCccCCCCC----------ceeecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489 120 PNDSTCPICLCEYHPKE----------TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR 170 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~----------~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~ 170 (207)
.++..|.||+|++...+ +-..|| |||+||.+|+..|++++.+||+||.|+
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence 46789999999943333 234687 999999999999999999999999994
No 10
>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=99.21 E-value=9.9e-12 Score=78.16 Aligned_cols=46 Identities=37% Similarity=0.902 Sum_probs=38.5
Q ss_pred CCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
+..|.||++... .+..+| |||. |+.+|+.+|++.+..||+||+++.
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 468999999854 356777 9999 999999999999999999999875
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.21 E-value=1.2e-11 Score=74.96 Aligned_cols=44 Identities=52% Similarity=1.215 Sum_probs=36.7
Q ss_pred cccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcC
Q 044489 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSR 170 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~ 170 (207)
+|+||++.+ .+.+...+ |+|.||.+|+..|++. +..||+||+++
T Consensus 1 ~C~iC~~~~--~~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999998 34455555 9999999999999976 77899999864
No 12
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.19 E-value=1.6e-11 Score=73.21 Aligned_cols=39 Identities=44% Similarity=1.081 Sum_probs=32.4
Q ss_pred ccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccc
Q 044489 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLC 166 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~C 166 (207)
|+||++.+.+ .+..++ |||.||.+||.+|++.+..||+|
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 8999998765 455676 99999999999999888999998
No 13
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.18 E-value=1.3e-11 Score=84.95 Aligned_cols=51 Identities=35% Similarity=0.853 Sum_probs=37.9
Q ss_pred CCcccccCccCC--------CCCc-eeecCCCCCcccHHHHHHHhhc---CCCCccccCcCCC
Q 044489 122 DSTCPICLCEYH--------PKET-LRSIPKCNHYFHAICIDEWLKI---NATCPLCRNSREN 172 (207)
Q Consensus 122 ~~~C~ICL~~~~--------~~~~-v~~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~~~~ 172 (207)
++.|.||...|+ ++|. -.+...|+|.||..||.+|+++ +..||+||+++..
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 678888888875 2221 1123359999999999999964 4689999998754
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=99.11 E-value=4.8e-11 Score=95.61 Aligned_cols=52 Identities=29% Similarity=0.735 Sum_probs=40.2
Q ss_pred CCCCcccccCccCCCC-----CceeecCCCCCcccHHHHHHHhhcC------CCCccccCcCC
Q 044489 120 PNDSTCPICLCEYHPK-----ETLRSIPKCNHYFHAICIDEWLKIN------ATCPLCRNSRE 171 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~-----~~v~~lp~C~H~FH~~CI~~Wl~~~------~~CP~CR~~~~ 171 (207)
+.+.+|+||+|..-+. ....+|++|+|.||..||..|.+.+ .+||+||....
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 3568999999976322 2345677899999999999999643 46999999864
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=9.7e-11 Score=90.71 Aligned_cols=55 Identities=35% Similarity=0.699 Sum_probs=46.0
Q ss_pred CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV 175 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~ 175 (207)
..+...|+|||+.+.....+ -.+|||+||..||..-++....||+|++.+..+..
T Consensus 128 ~~~~~~CPiCl~~~sek~~v--sTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPV--STKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF 182 (187)
T ss_pred cccccCCCceecchhhcccc--ccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence 44568999999998765543 33699999999999999999999999999877654
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.04 E-value=1.9e-10 Score=70.37 Aligned_cols=44 Identities=30% Similarity=0.798 Sum_probs=38.0
Q ss_pred cccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN 168 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 168 (207)
+|.||+++|.+....++++ |||+|+.+|+..+......||+||+
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 5999999996566677776 9999999999999867779999985
No 17
>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=98.97 E-value=3.7e-10 Score=67.85 Aligned_cols=39 Identities=41% Similarity=1.079 Sum_probs=32.8
Q ss_pred ccccCccCCCCCceeecCCCCCcccHHHHHHHhh--cCCCCccc
Q 044489 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK--INATCPLC 166 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~--~~~~CP~C 166 (207)
|+||++.+.+.. ..++ |||.||.+||.+|++ ....||+|
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 899999976554 4565 999999999999997 55679998
No 18
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=2e-10 Score=105.44 Aligned_cols=53 Identities=36% Similarity=0.871 Sum_probs=45.7
Q ss_pred CCCcccccCccCCCCCc--eeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489 121 NDSTCPICLCEYHPKET--LRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS 174 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~--v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~ 174 (207)
.+..|+||+|++..++. ...++ |+|+||..|+..|++++.+||+||..+....
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~ 344 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDYV 344 (543)
T ss_pred cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhccc
Confidence 47899999999988765 66787 9999999999999999999999999554433
No 19
>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=98.95 E-value=8.8e-10 Score=72.25 Aligned_cols=51 Identities=20% Similarity=0.441 Sum_probs=42.7
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT 177 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~ 177 (207)
..|+||++.+.++ + .++ |||+|++.||.+|++.+..||+|++++..+.+..
T Consensus 2 ~~Cpi~~~~~~~P--v-~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~ 52 (63)
T smart00504 2 FLCPISLEVMKDP--V-ILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIP 52 (63)
T ss_pred cCCcCCCCcCCCC--E-ECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChhhcee
Confidence 4699999998765 3 456 9999999999999988889999999986655544
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.92 E-value=9.7e-10 Score=64.18 Aligned_cols=38 Identities=53% Similarity=1.186 Sum_probs=31.9
Q ss_pred ccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccc
Q 044489 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLC 166 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~C 166 (207)
|+||++. ......++ |+|.||..|++.|++ .+..||+|
T Consensus 1 C~iC~~~---~~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE---LKDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC---CCCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899988 34555676 999999999999997 66789987
No 21
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.89 E-value=9.4e-10 Score=66.58 Aligned_cols=38 Identities=39% Similarity=0.961 Sum_probs=27.9
Q ss_pred ccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC----CCCccc
Q 044489 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN----ATCPLC 166 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----~~CP~C 166 (207)
|+||++.|.++- .++ |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~Pv---~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPV---SLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEE---E-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcc---ccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999997663 455 99999999999999543 369988
No 22
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.81 E-value=3.8e-09 Score=71.18 Aligned_cols=30 Identities=43% Similarity=0.896 Sum_probs=27.7
Q ss_pred CCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 143 KCNHYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
.|+|.||.+||.+||.++..||++|+++..
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 499999999999999999999999998753
No 23
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=8e-09 Score=91.09 Aligned_cols=51 Identities=29% Similarity=0.801 Sum_probs=38.9
Q ss_pred CCCcccccCccCCCCCc--------------eeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCC
Q 044489 121 NDSTCPICLCEYHPKET--------------LRSIPKCNHYFHAICIDEWLK-INATCPLCRNSREN 172 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~--------------v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~ 172 (207)
...+|+||+.+..--.+ -..+| |+|+||..|+.+|.. .+-.||+||.++++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 35789999997532111 12356 999999999999997 55599999999865
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=1.9e-09 Score=72.05 Aligned_cols=49 Identities=39% Similarity=0.887 Sum_probs=35.3
Q ss_pred CCcccccCccCCC--------CC--ceeecCCCCCcccHHHHHHHhhc---CCCCccccCcCC
Q 044489 122 DSTCPICLCEYHP--------KE--TLRSIPKCNHYFHAICIDEWLKI---NATCPLCRNSRE 171 (207)
Q Consensus 122 ~~~C~ICL~~~~~--------~~--~v~~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~~~ 171 (207)
++.|-||...|.. +| .+ ++-.|.|.||..||.+|+.. +.-||+||+.+.
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPL-v~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPL-VWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCcc-HHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 4578888887742 22 12 12249999999999999943 446999999874
No 25
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=2.6e-09 Score=87.72 Aligned_cols=56 Identities=29% Similarity=0.708 Sum_probs=45.3
Q ss_pred CCCCCcccccCccCCCCC-------ceeecCCCCCcccHHHHHHHh--hcCCCCccccCcCCCCCC
Q 044489 119 KPNDSTCPICLCEYHPKE-------TLRSIPKCNHYFHAICIDEWL--KINATCPLCRNSRENSSV 175 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~-------~v~~lp~C~H~FH~~CI~~Wl--~~~~~CP~CR~~~~~~~~ 175 (207)
..++..|+||-..+.... ++-.|. |+|+||+.||.-|. .++++||.||+.++.+..
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rm 285 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRM 285 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhhh
Confidence 345789999998886665 556676 99999999999996 778899999998865443
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=98.69 E-value=1.4e-08 Score=89.09 Aligned_cols=51 Identities=29% Similarity=0.673 Sum_probs=42.7
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV 175 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~ 175 (207)
....|+||++.|...- +++ |||.||..||..|+.....||+||.++....+
T Consensus 25 ~~l~C~IC~d~~~~Pv---itp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~L 75 (397)
T TIGR00599 25 TSLRCHICKDFFDVPV---LTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQESKL 75 (397)
T ss_pred cccCCCcCchhhhCcc---CCC-CCCchhHHHHHHHHhCCCCCCCCCCccccccC
Confidence 4679999999986552 466 99999999999999888899999999875533
No 27
>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=98.66 E-value=2.2e-08 Score=62.56 Aligned_cols=42 Identities=31% Similarity=0.842 Sum_probs=32.4
Q ss_pred cccccCccCCCCCceeecCCCC-----CcccHHHHHHHhhc--CCCCcccc
Q 044489 124 TCPICLCEYHPKETLRSIPKCN-----HYFHAICIDEWLKI--NATCPLCR 167 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~-----H~FH~~CI~~Wl~~--~~~CP~CR 167 (207)
.|.||++ ...++...+.| |. |.+|.+|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 33444555777 85 99999999999943 45899995
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=1.6e-08 Score=83.09 Aligned_cols=51 Identities=35% Similarity=0.711 Sum_probs=41.4
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHH-HhhcCCC-CccccCcCCCCCC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDE-WLKINAT-CPLCRNSRENSSV 175 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~-Wl~~~~~-CP~CR~~~~~~~~ 175 (207)
.+..|+||++..... ..++ |||+||..||.. |-+++.- ||+||+...++.+
T Consensus 214 ~d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred cccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 478999999886544 3565 999999999999 9866665 9999999877665
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=2.6e-08 Score=88.42 Aligned_cols=54 Identities=28% Similarity=0.645 Sum_probs=42.5
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC-----CCCccccCcCCCCCCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN-----ATCPLCRNSRENSSVVTPS 179 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~-----~~CP~CR~~~~~~~~~~~~ 179 (207)
+..|+|||++..... +..|||+||..||.+++... ..||+||..+..+++.+.-
T Consensus 186 ~~~CPICL~~~~~p~----~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~ 244 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPV----RTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVF 244 (513)
T ss_pred CCcCCcccCCCCccc----ccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeee
Confidence 678999999865442 22499999999999988543 4799999999887776543
No 30
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.48 E-value=1.4e-07 Score=57.24 Aligned_cols=38 Identities=34% Similarity=0.838 Sum_probs=22.2
Q ss_pred ccccCccCCCCC-ceeecCCCCCcccHHHHHHHhhcC----CCCc
Q 044489 125 CPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLKIN----ATCP 164 (207)
Q Consensus 125 C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~----~~CP 164 (207)
|+||.+ |...+ .-.+|+ |||.|+++||.++++.+ ..||
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 75544 456788 99999999999999643 3576
No 31
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=6.8e-08 Score=68.30 Aligned_cols=51 Identities=35% Similarity=0.637 Sum_probs=38.1
Q ss_pred CCCcccccCccC-------------CCCC-ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 121 NDSTCPICLCEY-------------HPKE-TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 121 ~~~~C~ICL~~~-------------~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
..+.|+||..-+ ..++ .|.-- .|+|.||..||.+||+++..||+|.+++..
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG-~CNHaFH~hCisrWlktr~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWG-VCNHAFHFHCISRWLKTRNVCPLDNKEWVF 109 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEee-ecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence 357899987632 1112 23333 599999999999999999999999998753
No 32
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.43 E-value=4.3e-08 Score=65.91 Aligned_cols=51 Identities=25% Similarity=0.660 Sum_probs=24.2
Q ss_pred CCcccccCccCCCCCc--eeec--CCCCCcccHHHHHHHhhc---C--------CCCccccCcCCC
Q 044489 122 DSTCPICLCEYHPKET--LRSI--PKCNHYFHAICIDEWLKI---N--------ATCPLCRNSREN 172 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~--v~~l--p~C~H~FH~~CI~~Wl~~---~--------~~CP~CR~~~~~ 172 (207)
+.+|.||.+...+++. ..+- ++|++.||..||.+||.. . ..||.|++++.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 4589999998763332 2222 269999999999999842 1 159999998753
No 33
>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=98.42 E-value=2.3e-07 Score=78.68 Aligned_cols=53 Identities=25% Similarity=0.606 Sum_probs=39.7
Q ss_pred CCcccccCcc-CCCCC-ceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCC
Q 044489 122 DSTCPICLCE-YHPKE-TLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSV 175 (207)
Q Consensus 122 ~~~C~ICL~~-~~~~~-~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~ 175 (207)
+..|++|..+ +...+ .+.+.+ |||.||..||+..+ .....||.|++++.....
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 5689999996 44444 333334 99999999999976 555689999999876553
No 34
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.36 E-value=7.2e-08 Score=90.71 Aligned_cols=52 Identities=25% Similarity=0.735 Sum_probs=38.2
Q ss_pred CCCCcccccCccCCCCC---ceeecCCCCCcccHHHHHHHhhc--CCCCccccCcCC
Q 044489 120 PNDSTCPICLCEYHPKE---TLRSIPKCNHYFHAICIDEWLKI--NATCPLCRNSRE 171 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~---~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~~~ 171 (207)
.+.+||+||......-| .-...+.|.|.||..|+.+|+++ +.+||+||.+++
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 45799999988654111 11123469999999999999954 457999998764
No 35
>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=98.31 E-value=2.4e-07 Score=62.78 Aligned_cols=52 Identities=23% Similarity=0.482 Sum_probs=38.8
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-CCCCccccCcCCCCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-NATCPLCRNSRENSSVVT 177 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-~~~CP~CR~~~~~~~~~~ 177 (207)
...|+|+.+-+.++ | +++ +||.|.+.||..|++. +.+||+|++++..+.+++
T Consensus 4 ~f~CpIt~~lM~dP--V-i~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~p 56 (73)
T PF04564_consen 4 EFLCPITGELMRDP--V-ILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIP 56 (73)
T ss_dssp GGB-TTTSSB-SSE--E-EET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE
T ss_pred ccCCcCcCcHhhCc--e-eCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceE
Confidence 56899999998655 3 466 9999999999999977 889999999988765543
No 36
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=3.6e-07 Score=78.70 Aligned_cols=55 Identities=27% Similarity=0.733 Sum_probs=39.9
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC---CCCccccCcCCCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN---ATCPLCRNSRENSSVV 176 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~~~~~~~~ 176 (207)
..+|.||.+-+.....+.-.-.|||+||..|+..|+..- ..||+||-.+....+.
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~ 61 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA 61 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence 458999954444444555544599999999999999653 5799999666555554
No 37
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=6e-07 Score=74.85 Aligned_cols=45 Identities=33% Similarity=0.825 Sum_probs=39.3
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN 168 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 168 (207)
.+...|+||++.|... .+++ |+|.||..||..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 3567999999999888 5777 9999999999999885568999993
No 38
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.18 E-value=4.6e-07 Score=76.92 Aligned_cols=51 Identities=27% Similarity=0.654 Sum_probs=43.1
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV 176 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~ 176 (207)
--.|-||.+-|..+- ++| |+|.||.-||..+|..+..||.|+.++....+-
T Consensus 23 lLRC~IC~eyf~ip~---itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 23 LLRCGICFEYFNIPM---ITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR 73 (442)
T ss_pred HHHHhHHHHHhcCce---ecc-ccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence 457999999886652 556 999999999999999999999999998665543
No 39
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=1.5e-06 Score=75.00 Aligned_cols=51 Identities=31% Similarity=0.833 Sum_probs=40.4
Q ss_pred CCCCcccccCccCCCCC----ceeecCCCCCcccHHHHHHHh--hc-----CCCCccccCcC
Q 044489 120 PNDSTCPICLCEYHPKE----TLRSIPKCNHYFHAICIDEWL--KI-----NATCPLCRNSR 170 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~----~v~~lp~C~H~FH~~CI~~Wl--~~-----~~~CP~CR~~~ 170 (207)
..+.+|.||++...+.. ...++|+|.|.||.+||..|- .+ .++||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 45789999999754333 245678899999999999997 44 46899999875
No 40
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.8e-06 Score=73.88 Aligned_cols=53 Identities=26% Similarity=0.608 Sum_probs=41.7
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRENSSVV 176 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~ 176 (207)
.+..+|.|||++- ..+.+|| |.|. .|..|-+..--+++.||+||+++...-.+
T Consensus 288 ~~gkeCVIClse~---rdt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i 341 (349)
T KOG4265|consen 288 ESGKECVICLSES---RDTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEI 341 (349)
T ss_pred cCCCeeEEEecCC---cceEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhhee
Confidence 4468999999984 3445898 9998 78999988666788999999998664443
No 41
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.09 E-value=1.8e-06 Score=75.74 Aligned_cols=50 Identities=36% Similarity=0.927 Sum_probs=38.9
Q ss_pred CCCCCcccccCccCCCCCc-eeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489 119 KPNDSTCPICLCEYHPKET-LRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~~-v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
..+...|+||||-+...-. ++... |.|.||..|+..|. ..+||+||--..
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhcC
Confidence 3456789999999866553 44454 99999999999995 467999997654
No 42
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.08 E-value=7.4e-07 Score=55.87 Aligned_cols=46 Identities=22% Similarity=0.522 Sum_probs=33.8
Q ss_pred CCcccccCccCCCCCceeecCCCCCc-ccHHHHHH-HhhcCCCCccccCcCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHY-FHAICIDE-WLKINATCPLCRNSRE 171 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~-Wl~~~~~CP~CR~~~~ 171 (207)
..||.||.|.-.+. ++..|||+ .|.+|-.+ |-..+..||+||+++.
T Consensus 7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 37999999875433 33349997 67888544 4457889999999874
No 43
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.05 E-value=2.2e-06 Score=71.43 Aligned_cols=50 Identities=30% Similarity=0.687 Sum_probs=40.7
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV 175 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~ 175 (207)
-..|-||-+-|... .+..|||-||.-||...|..+..||+||.+...+.+
T Consensus 25 ~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrl 74 (391)
T COG5432 25 MLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRL 74 (391)
T ss_pred HHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHHhhhc
Confidence 45799998776554 333499999999999999999999999998655443
No 44
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.03 E-value=1.3e-06 Score=56.91 Aligned_cols=48 Identities=23% Similarity=0.598 Sum_probs=23.6
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSV 175 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~ 175 (207)
-.|++|.+-+..+- . +..|.|+|+..||..-+.. .||+|+.|....++
T Consensus 8 LrCs~C~~~l~~pv--~-l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~ 55 (65)
T PF14835_consen 8 LRCSICFDILKEPV--C-LGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDI 55 (65)
T ss_dssp TS-SSS-S--SS-B------SSS--B-TTTGGGGTTT--B-SSS--B-S-SS-
T ss_pred cCCcHHHHHhcCCc--e-eccCccHHHHHHhHHhcCC--CCCCcCChHHHHHH
Confidence 46999998876553 2 3369999999999886553 49999998755443
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=1.8e-06 Score=80.20 Aligned_cols=52 Identities=23% Similarity=0.556 Sum_probs=41.5
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSVVT 177 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~~~ 177 (207)
--.|+.|-+-+.+. ++++|+|+||..||..-+ .+++.||.|.+++...++.+
T Consensus 643 ~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR 695 (698)
T ss_pred ceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence 45799998665433 344699999999999999 67889999999998777653
No 46
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=1.1e-06 Score=74.93 Aligned_cols=53 Identities=30% Similarity=0.552 Sum_probs=41.6
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCCC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSVV 176 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~~ 176 (207)
.+..|+|||+-+...- ..+.|.|.||.+||..=+ ..+++||.||+.+..+-.+
T Consensus 42 ~~v~c~icl~llk~tm---ttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL 95 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTM---TTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL 95 (381)
T ss_pred hhhccHHHHHHHHhhc---ccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence 4678999999875543 444799999999999988 5677999999998544433
No 47
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.91 E-value=1.6e-06 Score=80.49 Aligned_cols=56 Identities=25% Similarity=0.560 Sum_probs=46.0
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT 177 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~ 177 (207)
....|++||..+.++.....-+ |+|.||..||+.|-+.-.+||+||..+..-.+..
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~e 177 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLE 177 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheeeeec
Confidence 3577899998887776655565 9999999999999999999999999986554443
No 48
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.90 E-value=7.2e-06 Score=71.15 Aligned_cols=47 Identities=28% Similarity=0.753 Sum_probs=38.5
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh--cCCCCccccCcCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK--INATCPLCRNSREN 172 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~--~~~~CP~CR~~~~~ 172 (207)
-+.|.||-|. +..|++.| |||..|..|+..|-. ...+||.||.++..
T Consensus 369 FeLCKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 4679999764 45688888 999999999999973 36789999998743
No 49
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.86 E-value=8.8e-06 Score=68.24 Aligned_cols=57 Identities=28% Similarity=0.487 Sum_probs=44.0
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-cCCCCccccCcCCCCCCCCCCcc
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSRENSSVVTPSSS 181 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~~~~~~~~~~~~ 181 (207)
...+|+||+..-..+ ..++ |+|.||.-||.-=.+ ...+|++||.+++..-...++..
T Consensus 6 ~~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~psl~ 63 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEPSLK 63 (324)
T ss_pred cCCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchhcchhhh
Confidence 467999999886554 3566 999999999987764 45579999999987766665443
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=1e-05 Score=70.36 Aligned_cols=54 Identities=35% Similarity=0.850 Sum_probs=39.9
Q ss_pred CCCcccccCccCCCCCcee-ecCCCCCcccHHHHHHHhh--cCCCCccccCcCCCCC
Q 044489 121 NDSTCPICLCEYHPKETLR-SIPKCNHYFHAICIDEWLK--INATCPLCRNSRENSS 174 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~-~lp~C~H~FH~~CI~~Wl~--~~~~CP~CR~~~~~~~ 174 (207)
....|+|||+.+...-+.+ +.+.|||.|-.+||++||. ....||.|..+-....
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~ 59 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ 59 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence 3568999999987655333 3335999999999999993 3346999987754443
No 51
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.77 E-value=7.6e-06 Score=68.55 Aligned_cols=50 Identities=30% Similarity=0.845 Sum_probs=42.6
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-----------------------CCCCccccCcCC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-----------------------NATCPLCRNSRE 171 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-----------------------~~~CP~CR~~~~ 171 (207)
....|.|||--|.+++...+++ |.|.||..|+.+.|.. +..||+||..+.
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 4578999999999999888898 9999999999888631 236999999874
No 52
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=6.3e-05 Score=60.76 Aligned_cols=48 Identities=27% Similarity=0.634 Sum_probs=40.7
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--------CCCCccccCcCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--------NATCPLCRNSRE 171 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~~~~ 171 (207)
...|..|-..+..+|.+|.. |-|+||++|+++|-.. ...||.|..++-
T Consensus 50 ~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 56799999999999999854 9999999999999632 337999999984
No 53
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.39 E-value=0.0001 Score=72.64 Aligned_cols=56 Identities=27% Similarity=0.638 Sum_probs=43.8
Q ss_pred CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC----------CCCccccCcCCCCCC
Q 044489 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN----------ATCPLCRNSRENSSV 175 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----------~~CP~CR~~~~~~~~ 175 (207)
...++.|.||+.+-........|- |+|+||..|...-|+++ .+||+|+.++.+..+
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~L 3548 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVL 3548 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHH
Confidence 455789999998877777777786 99999999997655432 279999999876543
No 54
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.39 E-value=9.9e-05 Score=65.39 Aligned_cols=55 Identities=27% Similarity=0.610 Sum_probs=45.6
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT 177 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~ 177 (207)
..+..|++|...+.++-.. . .|||.||..|+..|+..+..||.|+..+.....+.
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELP 73 (391)
T ss_pred cccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhccC
Confidence 3567899999998777432 3 49999999999999988999999999987666654
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.39 E-value=5.4e-05 Score=65.68 Aligned_cols=48 Identities=38% Similarity=0.827 Sum_probs=38.7
Q ss_pred CCcccccCccCCCCC-ceeecCCCCCcccHHHHHHHhhcC--CCCccccCcC
Q 044489 122 DSTCPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLKIN--ATCPLCRNSR 170 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~--~~CP~CR~~~ 170 (207)
+--|-.|-+.+...+ .+.-|| |.|+||..|+.+.|.++ .+||-||+-.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crklr 415 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLR 415 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence 567999998876555 577788 99999999999999544 4899999543
No 56
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=97.36 E-value=6.6e-05 Score=56.19 Aligned_cols=35 Identities=20% Similarity=0.474 Sum_probs=29.6
Q ss_pred CCcccccCccCCCCCceeecCCCC------CcccHHHHHHHh
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCN------HYFHAICIDEWL 157 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~------H~FH~~CI~~Wl 157 (207)
..||+||++...+.+-+..++ || |+||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence 579999999998855666666 76 999999999994
No 57
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.30 E-value=0.00012 Score=47.10 Aligned_cols=42 Identities=29% Similarity=0.644 Sum_probs=27.3
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--CCCCcc
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPL 165 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~ 165 (207)
-...|+|.+..|+++ |+-. .|+|.|-++.|.+|+++ ...||+
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 357899999998755 5444 49999999999999943 446998
No 58
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.24 E-value=0.00026 Score=57.97 Aligned_cols=61 Identities=8% Similarity=0.232 Sum_probs=55.0
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCCccc
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSI 182 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~~~~ 182 (207)
.+.|++|.+.+.+...+..|.+|||+|+.+|+++..+....||+|-+++.+.+++....+.
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrGG 281 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRGG 281 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeeccc
Confidence 4789999999999998888888999999999999999999999999999999998765544
No 59
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.21 E-value=0.00027 Score=66.63 Aligned_cols=50 Identities=28% Similarity=0.674 Sum_probs=40.6
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-------CCCCccccCc
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-------NATCPLCRNS 169 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-------~~~CP~CR~~ 169 (207)
....+|.||.+.+...+.+.--..|-|+||..||.+|-++ .-.||.|...
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 3468999999999888877766679999999999999743 2269999843
No 60
>PHA02862 5L protein; Provisional
Probab=97.21 E-value=0.00022 Score=53.86 Aligned_cols=52 Identities=19% Similarity=0.461 Sum_probs=37.9
Q ss_pred CCcccccCccCCCCCceeecCCCC-----CcccHHHHHHHhh--cCCCCccccCcCCCCCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCN-----HYFHAICIDEWLK--INATCPLCRNSRENSSVVTP 178 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~CR~~~~~~~~~~~ 178 (207)
...|-||+++-++ .+ -| |. ...|++|+.+|++ ++..||+|+.+..-+....|
T Consensus 2 ~diCWIC~~~~~e--~~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~yKp 60 (156)
T PHA02862 2 SDICWICNDVCDE--RN--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKKTYVS 60 (156)
T ss_pred CCEEEEecCcCCC--Cc--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEEcccc
Confidence 3579999998432 22 34 54 6789999999994 44579999999866555544
No 61
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.18 E-value=0.00037 Score=53.53 Aligned_cols=55 Identities=25% Similarity=0.582 Sum_probs=38.4
Q ss_pred CCCCcccccCccCCCCCceeecC-CCCC---cccHHHHHHHhh--cCCCCccccCcCCCCCCCCC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIP-KCNH---YFHAICIDEWLK--INATCPLCRNSRENSSVVTP 178 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp-~C~H---~FH~~CI~~Wl~--~~~~CP~CR~~~~~~~~~~~ 178 (207)
..+.+|-||.++-. +.. .| .|.. ..|.+|+.+|+. +..+|++|+++........|
T Consensus 6 ~~~~~CRIC~~~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~~kp 66 (162)
T PHA02825 6 LMDKCCWICKDEYD--VVT--NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKKNYKK 66 (162)
T ss_pred CCCCeeEecCCCCC--Ccc--CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEEecCC
Confidence 45679999998843 222 34 2444 569999999994 34579999999865544433
No 62
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=0.00022 Score=63.02 Aligned_cols=49 Identities=31% Similarity=0.706 Sum_probs=41.2
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
..+.+|.||..-+.+.- .+| |||.||..||++-+.....||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~pv---~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPV---VTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCc---ccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 45789999988876553 456 99999999999988888899999999865
No 63
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.08 E-value=0.00038 Score=42.93 Aligned_cols=40 Identities=38% Similarity=1.006 Sum_probs=26.9
Q ss_pred ccccCccCCCCCceeecCCCC-----CcccHHHHHHHhh--cCCCCccc
Q 044489 125 CPICLCEYHPKETLRSIPKCN-----HYFHAICIDEWLK--INATCPLC 166 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~C 166 (207)
|-||+++-...+.+ +.| |+ ...|.+|+.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~~l-i~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPL-ISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-E-E-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCce-ecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 77999987666533 455 54 4789999999994 45679987
No 64
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.98 E-value=0.0014 Score=55.79 Aligned_cols=55 Identities=22% Similarity=0.461 Sum_probs=41.6
Q ss_pred CCCCCCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489 114 SGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 114 ~~~~~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
+..........|++|+..-.++..+- .-|-+||..||...+..++.||+=..|..
T Consensus 292 e~e~l~~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 292 ESELLPPDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred ccccCCCccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 33333445689999998876664332 26999999999999999999998766654
No 65
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.94 E-value=0.00018 Score=61.25 Aligned_cols=51 Identities=25% Similarity=0.519 Sum_probs=43.0
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS 174 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~ 174 (207)
....|.+|-.-|.+...+. .|-|.||+.||.+.|.....||+|...+-...
T Consensus 14 ~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKTH 64 (331)
T ss_pred cceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCcc
Confidence 4678999998887776554 59999999999999999999999998875543
No 66
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.00036 Score=53.70 Aligned_cols=30 Identities=27% Similarity=0.729 Sum_probs=27.3
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccH
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHA 150 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~ 150 (207)
....||.||||+++.++++..|| |--+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 34679999999999999999999 9999996
No 67
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.82 E-value=0.00048 Score=54.72 Aligned_cols=45 Identities=22% Similarity=0.569 Sum_probs=38.1
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR 170 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~ 170 (207)
...|.||-.+|+.+- ++ +|||.||..|...-.+....|-+|-+.-
T Consensus 196 PF~C~iCKkdy~spv---vt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESPV---VT-ECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccchh---hh-hcchhHHHHHHHHHhccCCcceecchhh
Confidence 458999999997763 23 5999999999999889999999998764
No 68
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.72 E-value=0.0018 Score=39.98 Aligned_cols=45 Identities=24% Similarity=0.662 Sum_probs=22.7
Q ss_pred ccccCccCCCCC-ceeecCCCCCcccHHHHHHHhh-cCCCCccccCcC
Q 044489 125 CPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLK-INATCPLCRNSR 170 (207)
Q Consensus 125 C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~ 170 (207)
|++|.+++...+ ...-- +|++..+..|...-++ .+..||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999985444 33333 4899999999888775 577999999875
No 69
>PHA03096 p28-like protein; Provisional
Probab=96.65 E-value=0.00093 Score=56.62 Aligned_cols=47 Identities=28% Similarity=0.543 Sum_probs=34.2
Q ss_pred CcccccCccCCCC----CceeecCCCCCcccHHHHHHHhhc---CCCCccccCc
Q 044489 123 STCPICLCEYHPK----ETLRSIPKCNHYFHAICIDEWLKI---NATCPLCRNS 169 (207)
Q Consensus 123 ~~C~ICL~~~~~~----~~v~~lp~C~H~FH~~CI~~Wl~~---~~~CP~CR~~ 169 (207)
-+|.||++..... ..-..|++|.|.|+..||..|-.. ...||.||.-
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~ 232 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL 232 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence 5899999965432 245578899999999999999732 2346666554
No 70
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.62 E-value=0.0031 Score=52.56 Aligned_cols=51 Identities=29% Similarity=0.546 Sum_probs=38.2
Q ss_pred CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--CCCCccccCcCCC
Q 044489 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPLCRNSREN 172 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~~~~ 172 (207)
.+.+.+|++|-+.-..+.. .. +|+|+||.-||..=+.. ..+||.|-.++.+
T Consensus 236 ~t~~~~C~~Cg~~PtiP~~--~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIPHV--IG-KCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred ccCCceeeccCCCCCCCee--ec-cccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 3457899999887544432 34 49999999999886643 4689999888753
No 71
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.54 E-value=0.0011 Score=57.93 Aligned_cols=48 Identities=25% Similarity=0.607 Sum_probs=37.7
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--------CCCCccccC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--------NATCPLCRN 168 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--------~~~CP~CR~ 168 (207)
....+|.||+++..-.+....+| |+|+||+.|+...+.. .-.||-++-
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 34679999999987667888888 9999999999999742 125876554
No 72
>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=96.49 E-value=0.0012 Score=47.28 Aligned_cols=32 Identities=25% Similarity=0.648 Sum_probs=26.4
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHH
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICID 154 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~ 154 (207)
++..|++|-..+.. ....+.| |||+||..|+.
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 46789999999877 4566777 99999999975
No 73
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.39 E-value=0.0045 Score=51.94 Aligned_cols=60 Identities=18% Similarity=0.449 Sum_probs=47.8
Q ss_pred CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCC
Q 044489 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPS 179 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~ 179 (207)
......|+|...+|........+-+|||+|-.++|.+- .....||+|-+++...++++..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~DiI~Ln 169 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEEDIIPLN 169 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCCEEEec
Confidence 45578999999999665555555459999999999996 3356799999999988888643
No 74
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.27 E-value=0.0022 Score=57.98 Aligned_cols=53 Identities=25% Similarity=0.567 Sum_probs=39.3
Q ss_pred CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh-----cCCCCccccCcCCCCCC
Q 044489 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK-----INATCPLCRNSRENSSV 175 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~-----~~~~CP~CR~~~~~~~~ 175 (207)
..++.+|.+|-++-++.- .. .|.|.||.-||.++.. .+-+||.|...+.-+..
T Consensus 533 nk~~~~C~lc~d~aed~i---~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDYI---ES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred ccCceeecccCChhhhhH---hh-hhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 445789999998754432 23 4999999999988863 24589999998876533
No 75
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.19 E-value=0.0021 Score=54.06 Aligned_cols=47 Identities=23% Similarity=0.556 Sum_probs=39.2
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
...|-||...|..+- ..+|+|.||..|-..=++....|++|-+....
T Consensus 241 Pf~c~icr~~f~~pV----vt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPV----VTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred Cccccccccccccch----hhcCCceeehhhhccccccCCcceeccccccc
Confidence 356999999998763 22599999999999988999999999987643
No 76
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.97 E-value=0.0026 Score=52.08 Aligned_cols=44 Identities=25% Similarity=0.623 Sum_probs=32.2
Q ss_pred cccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
.|-.|.-- ..++....+. |+|+||..|...- ....||+||+++-
T Consensus 5 hCn~C~~~-~~~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRF-PSQDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIR 48 (233)
T ss_pred Eecccccc-CCCCceeeee-chhhhhhhhcccC--Cccccccccceee
Confidence 46767643 3477787776 9999999997642 2238999999863
No 77
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.94 E-value=0.013 Score=50.44 Aligned_cols=50 Identities=28% Similarity=0.631 Sum_probs=38.4
Q ss_pred CCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHH--hhcCCCCccccCcCCC
Q 044489 119 KPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEW--LKINATCPLCRNSREN 172 (207)
Q Consensus 119 ~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~W--l~~~~~CP~CR~~~~~ 172 (207)
+++...|.||-+.. ..+..+| |+|..|--|-.+- |-.++.||+||.+...
T Consensus 58 DEen~~C~ICA~~~---TYs~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 58 DEENMNCQICAGST---TYSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred ccccceeEEecCCc---eEEEecc-CCchHHHHHHHHHHHHHhccCCCccccccce
Confidence 45567899998764 3556788 9999999997654 3467799999998754
No 78
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.93 E-value=0.0055 Score=52.92 Aligned_cols=44 Identities=30% Similarity=0.604 Sum_probs=32.0
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
....|.||+++..+ ...+| |||+-+ |..-- +....||+||+.+.
T Consensus 304 ~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 45789999999766 34566 999966 65542 33456999999763
No 79
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.85 E-value=0.0042 Score=39.28 Aligned_cols=47 Identities=21% Similarity=0.526 Sum_probs=33.3
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS 174 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~ 174 (207)
...|-.|... +.+-.++| |+|+.+..|.+- .+-+.||+|-+++...+
T Consensus 7 ~~~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFV---GTKGTVLP-CGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEcccc---cccccccc-ccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 4456666543 23334677 999999999764 56678999999987654
No 80
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.85 E-value=0.0092 Score=51.50 Aligned_cols=52 Identities=29% Similarity=0.597 Sum_probs=42.1
Q ss_pred CCCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 117 LPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 117 ~~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
.+..++..|+||... +-.....| |+|.=|..||.+-+...+.|=.|+..+..
T Consensus 417 lp~sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CCCcccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 345678899999754 23344566 99999999999999999999999998764
No 81
>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=95.82 E-value=0.0069 Score=36.57 Aligned_cols=41 Identities=22% Similarity=0.613 Sum_probs=23.2
Q ss_pred ccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC--CCccc
Q 044489 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA--TCPLC 166 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~--~CP~C 166 (207)
|.+|-+-...+...... .|+=.+|..|+..+++.+. .||.|
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 66777776666544322 4888999999999996655 79987
No 82
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.81 E-value=0.0061 Score=51.80 Aligned_cols=48 Identities=29% Similarity=0.697 Sum_probs=38.4
Q ss_pred CCcccccCccCCCCCc---eeecCCCCCcccHHHHHHHhh-cCCCCccccCcC
Q 044489 122 DSTCPICLCEYHPKET---LRSIPKCNHYFHAICIDEWLK-INATCPLCRNSR 170 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~---v~~lp~C~H~FH~~CI~~Wl~-~~~~CP~CR~~~ 170 (207)
..+|-||-++|...+. -+.| +|||.|+..|+.+-+. ....||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 3579999999988753 3445 4999999999998774 445799999985
No 83
>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=95.73 E-value=0.0058 Score=37.35 Aligned_cols=43 Identities=26% Similarity=0.754 Sum_probs=25.8
Q ss_pred cccccCccCCCCCceeecCCCC-CcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 124 TCPICLCEYHPKETLRSIPKCN-HYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~-H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
.|.-|+ |++..-+. |. |..+..|+..-|.+...||+|..+++.
T Consensus 4 nCKsCW--f~~k~Li~----C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCW--FANKGLIK----CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS---S--SSEEE-----SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhh--hcCCCeee----ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 466676 44444343 75 999999999999999999999998864
No 84
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.00053 Score=59.54 Aligned_cols=54 Identities=20% Similarity=0.513 Sum_probs=45.0
Q ss_pred CCcccccCccCCCC-CceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489 122 DSTCPICLCEYHPK-ETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV 176 (207)
Q Consensus 122 ~~~C~ICL~~~~~~-~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~ 176 (207)
...|+||.+.+... +++..+- |||.+|.+||.+||.....||.|+++++.....
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~~e 250 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNGFE 250 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhhHH
Confidence 56899999988766 5666665 999999999999998888999999998765443
No 85
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.42 E-value=0.0069 Score=57.50 Aligned_cols=43 Identities=23% Similarity=0.571 Sum_probs=32.7
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR 170 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~ 170 (207)
...|..|-..++-+-. .- .|||.||.+|++ .....||-|+.+.
T Consensus 840 ~skCs~C~~~LdlP~V--hF-~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFV--HF-LCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeeecccCCcccccee--ee-ecccHHHHHhhc---cCcccCCccchhh
Confidence 3689999877755532 22 399999999999 5566899999843
No 86
>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=95.20 E-value=0.018 Score=50.32 Aligned_cols=32 Identities=25% Similarity=0.690 Sum_probs=23.6
Q ss_pred CCCcccHHHHHHHhhc-------------CCCCccccCcCCCCCC
Q 044489 144 CNHYFHAICIDEWLKI-------------NATCPLCRNSRENSSV 175 (207)
Q Consensus 144 C~H~FH~~CI~~Wl~~-------------~~~CP~CR~~~~~~~~ 175 (207)
|.-++|.+|+-+|+.+ +-.||+||+.....++
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV 355 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV 355 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence 4566789999999832 2279999999765543
No 87
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.17 E-value=0.013 Score=45.97 Aligned_cols=30 Identities=33% Similarity=0.997 Sum_probs=24.4
Q ss_pred CCCCcccHHHHHHHhhc-----C------CCCccccCcCCC
Q 044489 143 KCNHYFHAICIDEWLKI-----N------ATCPLCRNSREN 172 (207)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~-----~------~~CP~CR~~~~~ 172 (207)
.||.-||.-|+..||+. + ..||.|..|+..
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 49999999999999953 1 169999998753
No 88
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.96 E-value=0.036 Score=35.02 Aligned_cols=45 Identities=20% Similarity=0.650 Sum_probs=35.6
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCcc--ccCc
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPL--CRNS 169 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~--CR~~ 169 (207)
....|.+|-+.|.+++.+.+-|.|+-.+|.+|-+. ...|-. |.++
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 45689999999999999999999999999999554 445544 5443
No 89
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.90 E-value=0.019 Score=48.62 Aligned_cols=43 Identities=33% Similarity=0.780 Sum_probs=34.2
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccC
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRN 168 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~ 168 (207)
..|+.|-.-..+.- .++.|+|.||.+||..=| .....||.|.+
T Consensus 275 LkCplc~~Llrnp~---kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPM---KTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcc---cCccccchHHHHHHhhhhhhccccCCCccc
Confidence 57999877665543 235799999999998776 77889999976
No 90
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.82 E-value=0.013 Score=49.38 Aligned_cols=50 Identities=28% Similarity=0.688 Sum_probs=39.6
Q ss_pred CCCcccccCccCCCCC-ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 121 NDSTCPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
....|+||.+.+-... .+..++ |||.-|..|+......+.+||+|.+ +.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~-~~d 207 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK-PGD 207 (276)
T ss_pred ccCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc-hHH
Confidence 3455999999766665 455666 9999999999999877799999999 433
No 91
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=94.70 E-value=0.021 Score=43.93 Aligned_cols=56 Identities=38% Similarity=0.820 Sum_probs=36.0
Q ss_pred CCcccccCccCCCCCceeecC-----------CCC-CcccHHHHHHHhhc------------------------------
Q 044489 122 DSTCPICLCEYHPKETLRSIP-----------KCN-HYFHAICIDEWLKI------------------------------ 159 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp-----------~C~-H~FH~~CI~~Wl~~------------------------------ 159 (207)
+..|+||||---+. ..|. -|+ -.-|..|++++-+.
T Consensus 2 d~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (162)
T PF07800_consen 2 DVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ 78 (162)
T ss_pred CccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence 56899999863222 2232 033 22489999998531
Q ss_pred -CCCCccccCcCCCCCCCCCCc
Q 044489 160 -NATCPLCRNSRENSSVVTPSS 180 (207)
Q Consensus 160 -~~~CP~CR~~~~~~~~~~~~~ 180 (207)
+..||+||-++..=.++.+..
T Consensus 79 ~~L~CPLCRG~V~GWtvve~AR 100 (162)
T PF07800_consen 79 PELACPLCRGEVKGWTVVEPAR 100 (162)
T ss_pred ccccCccccCceeceEEchHHH
Confidence 226999999997777766533
No 92
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.19 E-value=0.04 Score=47.41 Aligned_cols=55 Identities=22% Similarity=0.651 Sum_probs=40.0
Q ss_pred CCCcccccCccCCCCCc-eeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCCC
Q 044489 121 NDSTCPICLCEYHPKET-LRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSVV 176 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~-v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~~ 176 (207)
+++-|+.|++++...|+ ..-.| ||-..|.-|...-- .-+..||-||+...+..+-
T Consensus 13 eed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred ccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 45569999999988874 44455 99888888855433 2356899999998766554
No 93
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.09 E-value=0.014 Score=55.10 Aligned_cols=50 Identities=30% Similarity=0.680 Sum_probs=38.5
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--CCCCccccCcCCCCCCCC
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPLCRNSRENSSVVT 177 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~~~~~~~~~ 177 (207)
..|.||++ .+.....+ |+|.||.+|+..-+.. ...||.||..+..+.+..
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 79999998 34444565 9999999999888733 336999999987666654
No 94
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.02 E-value=0.024 Score=48.18 Aligned_cols=43 Identities=30% Similarity=0.705 Sum_probs=31.2
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR 170 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~ 170 (207)
--|--| +|-..-.-|+.| |.|+||.+|-.. ...+.||.|--.+
T Consensus 91 HfCd~C--d~PI~IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRC--DFPIAIYGRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred Eeeccc--CCcceeeecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 346666 344445667888 999999999654 5567999997665
No 95
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.96 E-value=0.057 Score=51.35 Aligned_cols=59 Identities=24% Similarity=0.578 Sum_probs=44.0
Q ss_pred CCCCcccccCccCCCCCceeecCCCC---CcccHHHHHHHhh--cCCCCccccCcCCCCCCCCC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCN---HYFHAICIDEWLK--INATCPLCRNSRENSSVVTP 178 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~---H~FH~~CI~~Wl~--~~~~CP~CR~~~~~~~~~~~ 178 (207)
.++..|.||..+=..++.+-.-.+|. ...|++|+.+|+. ....|-+|+.++.-+.+..+
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e 73 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKE 73 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeeccc
Confidence 34589999999877777654322343 5689999999995 34579999999987777654
No 96
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.76 E-value=0.012 Score=49.51 Aligned_cols=41 Identities=24% Similarity=0.573 Sum_probs=28.8
Q ss_pred CCcccccCccCCCCCceeecCCCCCcc-cHHHHHHHhhcCCCCccccCcC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYF-HAICIDEWLKINATCPLCRNSR 170 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~F-H~~CI~~Wl~~~~~CP~CR~~~ 170 (207)
...|+||++.- -....|+ |||.. |.+|-. +-..||+||+.+
T Consensus 300 ~~LC~ICmDaP---~DCvfLe-CGHmVtCt~CGk----rm~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFLE-CGHMVTCTKCGK----RMNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCC---cceEEee-cCcEEeehhhcc----ccccCchHHHHH
Confidence 67899999863 3455676 99974 455532 234899999875
No 97
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.66 E-value=0.032 Score=53.38 Aligned_cols=35 Identities=26% Similarity=0.567 Sum_probs=27.1
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL 157 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl 157 (207)
.++.|.+|.-.+... ...+-| |||.||++||.+-.
T Consensus 816 p~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 467999998877555 444566 99999999998764
No 98
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.28 E-value=0.037 Score=45.87 Aligned_cols=51 Identities=22% Similarity=0.655 Sum_probs=35.1
Q ss_pred CCCCcccccCccCCCCCce-eecCCCC-----CcccHHHHHHHhhc-CC-------CCccccCcCC
Q 044489 120 PNDSTCPICLCEYHPKETL-RSIPKCN-----HYFHAICIDEWLKI-NA-------TCPLCRNSRE 171 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v-~~lp~C~-----H~FH~~CI~~Wl~~-~~-------~CP~CR~~~~ 171 (207)
+.+..|-||+..=++...- -+-| |. |=.|..|+..|+.. +. +||.|+.+..
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 4567899999864333221 2444 63 78999999999922 11 6999999864
No 99
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.09 E-value=0.021 Score=56.56 Aligned_cols=45 Identities=27% Similarity=0.672 Sum_probs=37.6
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCc
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 169 (207)
...|.||++......-+. .|||.++..|+..|+..+..||+|+..
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 458999999887444333 399999999999999999999999854
No 100
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.95 E-value=0.068 Score=45.49 Aligned_cols=51 Identities=31% Similarity=0.713 Sum_probs=37.7
Q ss_pred CCcccccCccCCCCCc-eeecCCCC-----CcccHHHHHHHhh--cCCCCccccCcCCCC
Q 044489 122 DSTCPICLCEYHPKET-LRSIPKCN-----HYFHAICIDEWLK--INATCPLCRNSRENS 173 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~-v~~lp~C~-----H~FH~~CI~~Wl~--~~~~CP~CR~~~~~~ 173 (207)
+..|-||.++...... ....| |. +..|..|++.|+. .+..|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 5789999997654432 23444 54 7789999999995 566899999976554
No 101
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.62 E-value=0.031 Score=51.80 Aligned_cols=44 Identities=25% Similarity=0.536 Sum_probs=33.2
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCc
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 169 (207)
..|.||+..|......-+.+.|||..|..|+.. ..+.+|| |+.+
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~--lyn~scp-~~~D 55 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQL--LYNASCP-TKRD 55 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHh--HhhccCC-CCcc
Confidence 579999998877663333334999999999986 5677899 6654
No 102
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=92.59 E-value=0.27 Score=28.64 Aligned_cols=24 Identities=25% Similarity=0.379 Sum_probs=19.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhh
Q 044489 44 GIVIGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 44 ~iil~i~i~~~i~~i~i~~~~~~~ 67 (207)
+|+.++.+.+++.+++++++.|++
T Consensus 7 aIIv~V~vg~~iiii~~~~YaCcy 30 (38)
T PF02439_consen 7 AIIVAVVVGMAIIIICMFYYACCY 30 (38)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477888888888888888888875
No 103
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.53 E-value=0.52 Score=41.48 Aligned_cols=49 Identities=16% Similarity=0.367 Sum_probs=39.7
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC---CCccccCcC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA---TCPLCRNSR 170 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~---~CP~CR~~~ 170 (207)
....|+|=.++-.+.+.-..|. |||+..++-|.+--+... .||.|=.+-
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred ceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 4678999888887778777887 999999999999775443 699995543
No 104
>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=92.15 E-value=0.14 Score=43.27 Aligned_cols=51 Identities=25% Similarity=0.565 Sum_probs=37.0
Q ss_pred cccccCcc-CCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCC
Q 044489 124 TCPICLCE-YHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSS 174 (207)
Q Consensus 124 ~C~ICL~~-~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~ 174 (207)
.|++|-.+ |.+++-+.+...|+|..|.+|++.-+ .....||.|-+.+-...
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNN 54 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence 58888874 45555333333599999999999998 45568999988765443
No 105
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=92.11 E-value=0.098 Score=44.78 Aligned_cols=45 Identities=29% Similarity=0.702 Sum_probs=35.0
Q ss_pred CCCCcccccCccCCCCCceeecCCC--CCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKC--NHYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C--~H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
..-.+|+||.+.+..+ +.. | ||+-|.+|=. +....||.||.++.+
T Consensus 46 ~~lleCPvC~~~l~~P----i~Q-C~nGHlaCssC~~---~~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP----IFQ-CDNGHLACSSCRT---KVSNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCccc----cee-cCCCcEehhhhhh---hhcccCCcccccccc
Confidence 3568999999998777 343 7 5999988854 457789999999863
No 106
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.87 E-value=0.12 Score=48.79 Aligned_cols=23 Identities=35% Similarity=0.963 Sum_probs=21.3
Q ss_pred CCCCcccHHHHHHHhhcCCCCcc
Q 044489 143 KCNHYFHAICIDEWLKINATCPL 165 (207)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CP~ 165 (207)
.|+|+-|.+|...|++.+.+||.
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 49999999999999999999985
No 107
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.32 E-value=0.13 Score=45.64 Aligned_cols=37 Identities=24% Similarity=0.653 Sum_probs=28.1
Q ss_pred CCCcccccCccCCCC-CceeecCCCCCcccHHHHHHHhh
Q 044489 121 NDSTCPICLCEYHPK-ETLRSIPKCNHYFHAICIDEWLK 158 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~-~~v~~lp~C~H~FH~~CI~~Wl~ 158 (207)
...+|.||..+.... +...+. .|+|.||.+|+.+.++
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhh
Confidence 467999999555444 444444 5999999999998875
No 108
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=90.15 E-value=0.13 Score=42.34 Aligned_cols=50 Identities=26% Similarity=0.698 Sum_probs=37.8
Q ss_pred CCCcccccCcc-CCCCC-ceeecCCCCCcccHHHHHHHhhcCC-CCc--cccCcC
Q 044489 121 NDSTCPICLCE-YHPKE-TLRSIPKCNHYFHAICIDEWLKINA-TCP--LCRNSR 170 (207)
Q Consensus 121 ~~~~C~ICL~~-~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~-~CP--~CR~~~ 170 (207)
.+..|+||..+ |.+++ ++-+-|.|-|..|..|+++-+...+ -|| -|-+-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 46689999986 44444 4455667999999999999995554 799 786654
No 109
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.09 E-value=0.13 Score=43.46 Aligned_cols=32 Identities=25% Similarity=0.559 Sum_probs=24.0
Q ss_pred CCCcccHHHHHHHhh-------------cCCCCccccCcCCCCCC
Q 044489 144 CNHYFHAICIDEWLK-------------INATCPLCRNSRENSSV 175 (207)
Q Consensus 144 C~H~FH~~CI~~Wl~-------------~~~~CP~CR~~~~~~~~ 175 (207)
|.-++|.+|+.+|+. .+-.||+||+...-.++
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv 369 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDV 369 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeee
Confidence 567789999999972 23379999999765443
No 110
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.07 E-value=0.19 Score=40.80 Aligned_cols=39 Identities=31% Similarity=0.820 Sum_probs=28.1
Q ss_pred ccccCccCCCCCceeecCCCCCc-ccHHHHHHHhhcCCCCccccCcCC
Q 044489 125 CPICLCEYHPKETLRSIPKCNHY-FHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~H~-FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
|-.|-+. .-.|..+| |.|+ +|..|=+. -..||+|+.+..
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 8888654 55688898 9975 66777443 456999998754
No 111
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.92 E-value=0.2 Score=46.48 Aligned_cols=55 Identities=33% Similarity=0.843 Sum_probs=42.9
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCCccc
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSI 182 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~~~~ 182 (207)
.....|.||+++. ..+..+ |. |..|+.+|+..+..||+|++...........+..
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~~~~~~~ 531 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFLSKNSSE 531 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhcccccCccccc
Confidence 3467899999987 455565 88 9999999999999999999988666555444333
No 112
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=87.26 E-value=0.15 Score=47.97 Aligned_cols=52 Identities=31% Similarity=0.724 Sum_probs=40.4
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC---CCCccccCcCCCCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN---ATCPLCRNSRENSSVVT 177 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~~~~~~~~~~ 177 (207)
..+|.||+..+... .+.+|.|.|+.-|+..-+... ..||+|+..++......
T Consensus 21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~E 75 (684)
T KOG4362|consen 21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRE 75 (684)
T ss_pred hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccc
Confidence 56899999988766 333699999999988776443 36999998887766654
No 113
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=87.11 E-value=0.51 Score=38.07 Aligned_cols=41 Identities=32% Similarity=0.805 Sum_probs=30.2
Q ss_pred CCcccccCc-----cCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489 122 DSTCPICLC-----EYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN 168 (207)
Q Consensus 122 ~~~C~ICL~-----~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 168 (207)
+..|-+|-+ .|+. +.+..-++|+-+||.+|.. +..||-|-+
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 678999976 2444 2455566799999999966 267999954
No 114
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=86.62 E-value=0.67 Score=34.78 Aligned_cols=53 Identities=23% Similarity=0.523 Sum_probs=35.9
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHH-HHHh--hcCCCCccccCcCCCC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICI-DEWL--KINATCPLCRNSRENS 173 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI-~~Wl--~~~~~CP~CR~~~~~~ 173 (207)
.-.+|-||.|...+..-+.---.||-..|--|- .-|- ..++.||.|+.+.-.+
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 467999999875444322211138988888885 4453 5577999999987543
No 115
>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=86.56 E-value=0.69 Score=28.90 Aligned_cols=42 Identities=26% Similarity=0.600 Sum_probs=22.3
Q ss_pred ccccCccCCCCC------ceeecCCCCCcccHHHHHHHh-hcCCCCcccc
Q 044489 125 CPICLCEYHPKE------TLRSIPKCNHYFHAICIDEWL-KINATCPLCR 167 (207)
Q Consensus 125 C~ICL~~~~~~~------~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR 167 (207)
|.-|+..|.... ..-.-|+|++.|+.+| |.+. +.=.+||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence 555666666552 3445667999999999 4444 4455899884
No 116
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=86.53 E-value=0.27 Score=45.59 Aligned_cols=44 Identities=23% Similarity=0.682 Sum_probs=28.1
Q ss_pred CCCcccccCc-----cCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489 121 NDSTCPICLC-----EYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRN 168 (207)
Q Consensus 121 ~~~~C~ICL~-----~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 168 (207)
....|.+|-. .|+ .+.++..-.|+++||+.|+. ..+..||-|-+
T Consensus 510 ~gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~---r~s~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLR---RKSPCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHh---ccCCCCCchHH
Confidence 3567888833 244 33333333499999999955 34555999954
No 117
>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=85.27 E-value=1.6 Score=32.45 Aligned_cols=20 Identities=30% Similarity=0.253 Sum_probs=9.4
Q ss_pred CcccchhhhHHHHHHHHHHH
Q 044489 38 PRVARYGIVIGVGIPGLLCI 57 (207)
Q Consensus 38 ~~~~~y~iil~i~i~~~i~~ 57 (207)
+...+.+|++++...++..+
T Consensus 62 s~~~i~~Ii~gv~aGvIg~I 81 (122)
T PF01102_consen 62 SEPAIIGIIFGVMAGVIGII 81 (122)
T ss_dssp S-TCHHHHHHHHHHHHHHHH
T ss_pred cccceeehhHHHHHHHHHHH
Confidence 33344556666555444433
No 118
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=82.84 E-value=1.4 Score=34.58 Aligned_cols=24 Identities=25% Similarity=0.562 Sum_probs=12.3
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHH
Q 044489 42 RYGIVIGVGIPGLLCIIGLGCYLC 65 (207)
Q Consensus 42 ~y~iil~i~i~~~i~~i~i~~~~~ 65 (207)
..+|+++|++++++++++|+++.+
T Consensus 77 ~~~iivgvi~~Vi~Iv~~Iv~~~C 100 (179)
T PF13908_consen 77 ITGIIVGVICGVIAIVVLIVCFCC 100 (179)
T ss_pred eeeeeeehhhHHHHHHHhHhhhee
Confidence 344666665544444554554543
No 119
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=82.45 E-value=2.5 Score=30.87 Aligned_cols=47 Identities=17% Similarity=0.243 Sum_probs=33.3
Q ss_pred CCcccccCccCCCCC----------ceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489 122 DSTCPICLCEYHPKE----------TLRSIPKCNHYFHAICIDEWLKINATCPLCRN 168 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~----------~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 168 (207)
...|--|+..|.... ..-.-++|++.|+.+|=.-+-+.=.+||-|-.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 356999999886531 12235579999999995555566678999963
No 120
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=81.77 E-value=1.5 Score=41.70 Aligned_cols=45 Identities=18% Similarity=0.422 Sum_probs=31.8
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCcc--ccCc
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPL--CRNS 169 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~--CR~~ 169 (207)
..|.+|-... .+..+ ..+.|+|.=|.+|+.+|+....-||. |-..
T Consensus 780 ~~CtVC~~vi-~G~~~-~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~ 826 (839)
T KOG0269|consen 780 AKCTVCDLVI-RGVDV-WCQVCGHGGHDSHLKSWFFKASPCAKSICPHL 826 (839)
T ss_pred cCceeeccee-eeeEe-ecccccccccHHHHHHHHhcCCCCccccCCcc
Confidence 4788885433 23223 34469999999999999988887776 5443
No 121
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.61 E-value=1.6 Score=36.38 Aligned_cols=59 Identities=17% Similarity=0.372 Sum_probs=43.8
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCCcc
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSS 181 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~~~ 181 (207)
....|+|---++........+-.|||+|-..-+.+. ...+|++|.+.+..++++..+..
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg~ 168 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNGT 168 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEeeCCC
Confidence 357899987777666554455569999998887663 36689999999998888765433
No 122
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=80.48 E-value=0.62 Score=44.41 Aligned_cols=43 Identities=23% Similarity=0.550 Sum_probs=30.4
Q ss_pred CCcccccCccCCCC----CceeecCCCCCcccHHHHHHHhhcCCCCccc
Q 044489 122 DSTCPICLCEYHPK----ETLRSIPKCNHYFHAICIDEWLKINATCPLC 166 (207)
Q Consensus 122 ~~~C~ICL~~~~~~----~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~C 166 (207)
+..|.-|++..... +.+.++- |+|+||+.|+..-..++. |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 55899999876533 3566675 999999999987764443 4333
No 123
>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=79.49 E-value=1.3 Score=24.78 Aligned_cols=37 Identities=19% Similarity=0.415 Sum_probs=24.2
Q ss_pred ccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
|+.|-+.+...+..... =+..||.+|+ .|..|+.++.
T Consensus 2 C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcCc
Confidence 77888877665333222 4678998775 4788877663
No 124
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.56 E-value=1.6 Score=41.86 Aligned_cols=49 Identities=14% Similarity=0.285 Sum_probs=33.6
Q ss_pred CCcccccCccCCCCC---ceeecCCCCCcccHHHHHHHhhc------CCCCccccCcC
Q 044489 122 DSTCPICLCEYHPKE---TLRSIPKCNHYFHAICIDEWLKI------NATCPLCRNSR 170 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~---~v~~lp~C~H~FH~~CI~~Wl~~------~~~CP~CR~~~ 170 (207)
...|.+|.-++.+++ ..-.+.+|+|.||..||..|+.+ +-.|++|..-+
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 456777777776633 22233369999999999999732 23589988765
No 125
>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=77.74 E-value=2.7 Score=25.98 Aligned_cols=42 Identities=21% Similarity=0.606 Sum_probs=18.1
Q ss_pred cccccCccCCCCCceeecCCCCCcccHHHHHHHhhc-----CCCCccccCc
Q 044489 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI-----NATCPLCRNS 169 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~-----~~~CP~CR~~ 169 (207)
.|+|....+.. .+|... |.|.-+.| ++.||.. .-.||+|.++
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 57777766543 456554 99984321 4456532 2369999874
No 126
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=77.67 E-value=1 Score=36.44 Aligned_cols=43 Identities=28% Similarity=0.670 Sum_probs=34.9
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCcccc
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCR 167 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR 167 (207)
-..|.+|-.-...+.... +|+-.+|..|+...+++...||.|.
T Consensus 181 lk~Cn~Ch~LvIqg~rCg---~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCG---SCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHHhHhHHHhheeeccC---cccchhhhHHHHHHhcccCcCCchh
Confidence 468999987765554332 5889999999999999999999994
No 127
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=77.29 E-value=5.2 Score=27.18 Aligned_cols=53 Identities=21% Similarity=0.392 Sum_probs=21.8
Q ss_pred CCCCcccccCccCC---CCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCC
Q 044489 120 PNDSTCPICLCEYH---PKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSREN 172 (207)
Q Consensus 120 ~~~~~C~ICL~~~~---~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~ 172 (207)
.+...|-||-++.. +++...-.-.|+--.++.|.+-=. ..++.||.|+++...
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 35678999998763 333322223577778999987655 556789999988754
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=76.88 E-value=1.6 Score=23.28 Aligned_cols=23 Identities=39% Similarity=0.764 Sum_probs=12.9
Q ss_pred cccccCccCCCCCceeecCCCCCcc
Q 044489 124 TCPICLCEYHPKETLRSIPKCNHYF 148 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~H~F 148 (207)
.|+-|-.+.. ...+.-|.|||.|
T Consensus 2 ~CP~C~~~V~--~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVP--ESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCch--hhcCcCCCCCCCC
Confidence 4666665542 2334455677776
No 129
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=76.35 E-value=2.5 Score=35.48 Aligned_cols=49 Identities=27% Similarity=0.608 Sum_probs=35.9
Q ss_pred CcccccCccCCCCCceee---cCCCCCcccHHHHHHHh-hc--------CCCCccccCcCC
Q 044489 123 STCPICLCEYHPKETLRS---IPKCNHYFHAICIDEWL-KI--------NATCPLCRNSRE 171 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~---lp~C~H~FH~~CI~~Wl-~~--------~~~CP~CR~~~~ 171 (207)
.+|.+|.+++...+..+. -+.|+-.+|..|+..-+ .. ...||.|++-+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 699999999965554443 23588899999998843 32 337999999653
No 130
>PF15050 SCIMP: SCIMP protein
Probab=76.20 E-value=4.2 Score=29.97 Aligned_cols=24 Identities=25% Similarity=0.375 Sum_probs=14.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHh
Q 044489 43 YGIVIGVGIPGLLCIIGLGCYLCG 66 (207)
Q Consensus 43 y~iil~i~i~~~i~~i~i~~~~~~ 66 (207)
|-||+++.++++-+.++++.|..+
T Consensus 8 FWiiLAVaII~vS~~lglIlyCvc 31 (133)
T PF15050_consen 8 FWIILAVAIILVSVVLGLILYCVC 31 (133)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 447777776666666665555333
No 131
>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=74.18 E-value=4.4 Score=34.34 Aligned_cols=18 Identities=33% Similarity=0.270 Sum_probs=9.1
Q ss_pred cchhhhHHHHHHHHHHHH
Q 044489 41 ARYGIVIGVGIPGLLCII 58 (207)
Q Consensus 41 ~~y~iil~i~i~~~i~~i 58 (207)
.+|||...+.+++.+++|
T Consensus 259 ~Pcgiaalvllil~vvli 276 (295)
T TIGR01478 259 LPYGIAALVLIILTVVLI 276 (295)
T ss_pred cccHHHHHHHHHHHHHHH
Confidence 347776665443333333
No 132
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.17 E-value=2.3 Score=38.43 Aligned_cols=37 Identities=27% Similarity=0.630 Sum_probs=29.4
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI 159 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~ 159 (207)
....+|-||.+.+.. ....+. |+|.|+..|....+.+
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 456799999999866 444555 9999999999998854
No 133
>PF11980 DUF3481: Domain of unknown function (DUF3481); InterPro: IPR022579 This domain of unknown function is located in the C terminus of the eukaryotic neuropilin receptor family of proteins. It is found in association with PF00754 from PFAM, PF00431 from PFAM and PF00629 from PFAM. There are two completely conserved residues (Y and E) that may be functionally important.
Probab=74.17 E-value=5.3 Score=27.52 Aligned_cols=32 Identities=31% Similarity=0.343 Sum_probs=17.4
Q ss_pred CCCCcccchhhhHHHHHHHHHHHHH-HHHHHHhh
Q 044489 35 QGLPRVARYGIVIGVGIPGLLCIIG-LGCYLCGR 67 (207)
Q Consensus 35 ~~~~~~~~y~iil~i~i~~~i~~i~-i~~~~~~~ 67 (207)
+.+|..|.|+|+.+-.+ +++..++ ...+.|.|
T Consensus 10 qplp~~~yyiiA~gga~-llL~~v~l~vvL~C~r 42 (87)
T PF11980_consen 10 QPLPPYWYYIIAMGGAL-LLLVAVCLGVVLYCHR 42 (87)
T ss_pred CCCCceeeHHHhhccHH-HHHHHHHHHHHHhhhh
Confidence 34788888855555544 4444444 33334444
No 134
>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 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=73.33 E-value=1.5 Score=28.71 Aligned_cols=38 Identities=16% Similarity=0.364 Sum_probs=19.8
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL 157 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl 157 (207)
.+...|.+|...|..-..-..-..||++|+.+|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34678999999996554333344699999999986544
No 136
>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=73.03 E-value=2.1 Score=30.12 Aligned_cols=27 Identities=26% Similarity=0.380 Sum_probs=12.8
Q ss_pred CcccchhhhHHHHHHHHHHHHHHHHHHHhh
Q 044489 38 PRVARYGIVIGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 38 ~~~~~y~iil~i~i~~~i~~i~i~~~~~~~ 67 (207)
-+.|+| +..+-++++++++ |..++|++
T Consensus 39 ~ayWpy-LA~GGG~iLilIi--i~Lv~CC~ 65 (98)
T PF07204_consen 39 VAYWPY-LAAGGGLILILII--IALVCCCR 65 (98)
T ss_pred HhhhHH-hhccchhhhHHHH--HHHHHHhh
Confidence 446777 4444444444443 34444444
No 137
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=72.61 E-value=3.8 Score=35.40 Aligned_cols=60 Identities=20% Similarity=0.396 Sum_probs=39.4
Q ss_pred CCeecCCCCCCCCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccC
Q 044489 107 PKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRN 168 (207)
Q Consensus 107 p~~~~~~~~~~~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~ 168 (207)
|...+.+.......+...|-.|.++.......+-- .|.|.||.+| |.++ ++=..||-|..
T Consensus 315 PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldC-Dv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 315 PLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCE-SCKNVFCLDC-DVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcchhhccccccCCCcceeeeccccCCCCcEEch-hccceeeccc-hHHHHhhhhcCCCcCC
Confidence 43344433333344556699998887777666544 4999999999 3344 55568999964
No 138
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=72.59 E-value=2.2 Score=24.56 Aligned_cols=26 Identities=35% Similarity=0.825 Sum_probs=15.9
Q ss_pred cccccCccCCCCCc-------eeecCCCCCccc
Q 044489 124 TCPICLCEYHPKET-------LRSIPKCNHYFH 149 (207)
Q Consensus 124 ~C~ICL~~~~~~~~-------v~~lp~C~H~FH 149 (207)
.|+=|-..|..++. ...-++|+|.|+
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 57777777765553 123446778775
No 139
>PTZ00370 STEVOR; Provisional
Probab=71.81 E-value=5.2 Score=33.96 Aligned_cols=19 Identities=26% Similarity=0.141 Sum_probs=9.5
Q ss_pred cchhhhHHHHHHHHHHHHH
Q 044489 41 ARYGIVIGVGIPGLLCIIG 59 (207)
Q Consensus 41 ~~y~iil~i~i~~~i~~i~ 59 (207)
.+|||...+.+++.+++|+
T Consensus 255 ~Pygiaalvllil~vvlii 273 (296)
T PTZ00370 255 YPYGIAALVLLILAVVLII 273 (296)
T ss_pred cccHHHHHHHHHHHHHHHH
Confidence 3477766654443333333
No 140
>PLN02189 cellulose synthase
Probab=71.74 E-value=6.9 Score=38.93 Aligned_cols=52 Identities=17% Similarity=0.373 Sum_probs=37.4
Q ss_pred CCCCcccccCccCC---CCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCC
Q 044489 120 PNDSTCPICLCEYH---PKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRE 171 (207)
Q Consensus 120 ~~~~~C~ICL~~~~---~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~ 171 (207)
...+.|.||-++.. +++...-...|+--.|..|.+-=- +.+++||.|++...
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 34679999999864 444444444588889999985433 45668999999986
No 141
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=71.66 E-value=7.4 Score=33.64 Aligned_cols=54 Identities=22% Similarity=0.572 Sum_probs=38.9
Q ss_pred CCcccccCccCCCCCc-eeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489 122 DSTCPICLCEYHPKET-LRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV 176 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~-v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~ 176 (207)
...|+||-+.....+. ..-.| |+|.-|..|...-...+.+||.||++.......
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t~~ 303 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYERNTKK 303 (327)
T ss_pred CCCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccccCccc
Confidence 3789999987744443 32333 888888888887778888999999876554443
No 142
>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=71.43 E-value=2.2 Score=32.77 Aligned_cols=37 Identities=22% Similarity=0.685 Sum_probs=24.2
Q ss_pred CCCcccHHHHHHHhhc-----------CCCCccccCcCCCCCCCCCCcccccC
Q 044489 144 CNHYFHAICIDEWLKI-----------NATCPLCRNSRENSSVVTPSSSIKRG 185 (207)
Q Consensus 144 C~H~FH~~CI~~Wl~~-----------~~~CP~CR~~~~~~~~~~~~~~~~~~ 185 (207)
++|.|- .|+.+ --+||+|-..--.+.+-.|.......
T Consensus 10 ~gH~FE-----gWF~ss~~fd~Q~~~glv~CP~Cgs~~V~K~lmAP~v~~~~~ 57 (148)
T PF06676_consen 10 NGHEFE-----GWFRSSAAFDRQQARGLVSCPVCGSTEVSKALMAPAVATSRS 57 (148)
T ss_pred CCCccc-----eecCCHHHHHHHHHcCCccCCCCCCCeEeeecCCCeecCCCC
Confidence 568775 58854 23899998876666666665544433
No 143
>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=71.12 E-value=2.1 Score=26.61 Aligned_cols=40 Identities=18% Similarity=0.500 Sum_probs=27.2
Q ss_pred ccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS 174 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~ 174 (207)
|+-|-..+...+.+.. . -+..||.+|+ .|=.|++++....
T Consensus 1 C~~C~~~I~~~~~~~~-~-~~~~~H~~Cf--------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK-A-MGKFWHPECF--------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEE-E-TTEEEETTTS--------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEE-e-CCcEEEcccc--------ccCCCCCccCCCe
Confidence 6677777765554422 2 6788997774 4888888876654
No 144
>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=70.26 E-value=0.9 Score=34.93 Aligned_cols=26 Identities=46% Similarity=0.704 Sum_probs=16.7
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHhh
Q 044489 42 RYGIVIGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 42 ~y~iil~i~i~~~i~~i~i~~~~~~~ 67 (207)
+.|+++|+++.+++.++++++++|.|
T Consensus 51 VIGvVVGVGg~ill~il~lvf~~c~r 76 (154)
T PF04478_consen 51 VIGVVVGVGGPILLGILALVFIFCIR 76 (154)
T ss_pred EEEEEecccHHHHHHHHHhheeEEEe
Confidence 36677888777776666665555443
No 145
>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=69.68 E-value=3.4 Score=25.10 Aligned_cols=43 Identities=28% Similarity=0.680 Sum_probs=28.2
Q ss_pred ccccCccCCCCCceeecCCCCCcccHHHHHHHhh------cCCCCccccC
Q 044489 125 CPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK------INATCPLCRN 168 (207)
Q Consensus 125 C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~------~~~~CP~CR~ 168 (207)
|.||-+.-..++.+ .--.|+..||..|+..=.. ..-.||.|+.
T Consensus 2 C~vC~~~~~~~~~i-~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDGDMI-QCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTSSEE-EBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCCCeE-EcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 88998844444333 3445999999999865432 2447888863
No 146
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=69.10 E-value=2.3 Score=38.18 Aligned_cols=34 Identities=26% Similarity=0.678 Sum_probs=27.7
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK 158 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~ 158 (207)
++..|+||..-|+++ .+|| |+|..|.-|-..-+.
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 466899999988655 3677 999999999887663
No 147
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=68.98 E-value=7.5 Score=28.85 Aligned_cols=25 Identities=16% Similarity=0.186 Sum_probs=17.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhh
Q 044489 44 GIVIGVGIPGLLCIIGLGCYLCGRF 68 (207)
Q Consensus 44 ~iil~i~i~~~i~~i~i~~~~~~~~ 68 (207)
..+++|++.++.-++++++++.+..
T Consensus 64 ~~i~~Ii~gv~aGvIg~Illi~y~i 88 (122)
T PF01102_consen 64 PAIIGIIFGVMAGVIGIILLISYCI 88 (122)
T ss_dssp TCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cceeehhHHHHHHHHHHHHHHHHHH
Confidence 3667777777777777777655543
No 148
>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=68.78 E-value=8.8 Score=36.19 Aligned_cols=12 Identities=25% Similarity=0.069 Sum_probs=4.7
Q ss_pred HHHHHHHHHHHh
Q 044489 55 LCIIGLGCYLCG 66 (207)
Q Consensus 55 i~~i~i~~~~~~ 66 (207)
+++++|+++.++
T Consensus 283 ~~Iiiil~~~LC 294 (684)
T PF12877_consen 283 LLIIIILYWKLC 294 (684)
T ss_pred HHHHHHHHHHHh
Confidence 333334444434
No 149
>PLN02436 cellulose synthase A
Probab=68.09 E-value=9.3 Score=38.19 Aligned_cols=52 Identities=23% Similarity=0.411 Sum_probs=37.6
Q ss_pred CCCCcccccCccC---CCCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCC
Q 044489 120 PNDSTCPICLCEY---HPKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRE 171 (207)
Q Consensus 120 ~~~~~C~ICL~~~---~~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~ 171 (207)
...+.|.||-|+. .+++...-...|+--.|..|.+-=- ..+++||.|++...
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3467999999985 4555444444577779999985433 45668999999986
No 150
>PF05624 LSR: Lipolysis stimulated receptor (LSR); InterPro: IPR008664 This domain consists of mammalian LISCH7 protein homologues. LISCH7 is a liver-specific BHLH-ZIP transcription factor.
Probab=67.76 E-value=5.4 Score=24.23 Aligned_cols=20 Identities=30% Similarity=0.401 Sum_probs=13.1
Q ss_pred cchhhhHHHHHHHHHHHHHH
Q 044489 41 ARYGIVIGVGIPGLLCIIGL 60 (207)
Q Consensus 41 ~~y~iil~i~i~~~i~~i~i 60 (207)
|.+++.++++.+++++++++
T Consensus 2 Wl~V~~iilg~~ll~~Ligi 21 (49)
T PF05624_consen 2 WLFVVLIILGALLLLLLIGI 21 (49)
T ss_pred eEEEeHHHHHHHHHHHHHHH
Confidence 66666666666666666665
No 151
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=66.87 E-value=12 Score=26.76 Aligned_cols=39 Identities=21% Similarity=0.366 Sum_probs=18.1
Q ss_pred Ccccchh--hhHHHHHHHHHHHHHHHHHHHhhhhhhhcccc
Q 044489 38 PRVARYG--IVIGVGIPGLLCIIGLGCYLCGRFRACYQHRN 76 (207)
Q Consensus 38 ~~~~~y~--iil~i~i~~~i~~i~i~~~~~~~~r~~~r~r~ 76 (207)
..+|.|- ++++.+++.++.++.+-+.+|++.+.-+|.++
T Consensus 14 g~sW~~LVGVv~~al~~SlLIalaaKC~~~~k~~~SY~H~r 54 (102)
T PF15176_consen 14 GRSWPFLVGVVVTALVTSLLIALAAKCPVWYKYLASYRHHR 54 (102)
T ss_pred CcccHhHHHHHHHHHHHHHHHHHHHHhHHHHHHHhcccccc
Confidence 5567652 33344444444444444455555444344333
No 152
>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=66.65 E-value=3.5 Score=27.06 Aligned_cols=12 Identities=25% Similarity=0.866 Sum_probs=8.6
Q ss_pred cccHHHHHHHhh
Q 044489 147 YFHAICIDEWLK 158 (207)
Q Consensus 147 ~FH~~CI~~Wl~ 158 (207)
-||..|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999984
No 153
>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 PF15102 TMEM154: TMEM154 protein family
Probab=64.73 E-value=3.4 Score=31.57 Aligned_cols=6 Identities=33% Similarity=1.259 Sum_probs=3.3
Q ss_pred HHHHHh
Q 044489 152 CIDEWL 157 (207)
Q Consensus 152 CI~~Wl 157 (207)
=||+|.
T Consensus 129 eldkwm 134 (146)
T PF15102_consen 129 ELDKWM 134 (146)
T ss_pred HHHhHH
Confidence 355665
No 155
>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=64.56 E-value=6.1 Score=24.50 Aligned_cols=35 Identities=17% Similarity=0.389 Sum_probs=24.7
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHh
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL 157 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl 157 (207)
..|.+|-..|..-..-..-..||++|+.+|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 57889988776544333333699999999987654
No 156
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=63.40 E-value=8.3 Score=33.29 Aligned_cols=50 Identities=26% Similarity=0.626 Sum_probs=33.3
Q ss_pred CCcccccCccCC---------------CCC-ceeecCCCCCcccHHHHHHHhhc---------CCCCccccCcCCC
Q 044489 122 DSTCPICLCEYH---------------PKE-TLRSIPKCNHYFHAICIDEWLKI---------NATCPLCRNSREN 172 (207)
Q Consensus 122 ~~~C~ICL~~~~---------------~~~-~v~~lp~C~H~FH~~CI~~Wl~~---------~~~CP~CR~~~~~ 172 (207)
+.+|++|+..=. .+. .....| |||+--++-..-|-+. +..||.|-+.+..
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 689999997510 010 111245 9999888888888643 4479999887643
No 157
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=62.20 E-value=34 Score=29.65 Aligned_cols=47 Identities=15% Similarity=0.318 Sum_probs=33.8
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC---CCCccccC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN---ATCPLCRN 168 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~---~~CP~CR~ 168 (207)
....|++=-++-.+.+.-..+- |||+.-++-++.--+.. ..||.|=.
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred ceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 4577888666655556566675 99999999998865433 26999944
No 158
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.72 E-value=4.3 Score=36.06 Aligned_cols=46 Identities=26% Similarity=0.559 Sum_probs=33.0
Q ss_pred CCcccccCccCCCCC--ceeecCCCCCcccHHHHHHHhhcCCCCccccC
Q 044489 122 DSTCPICLCEYHPKE--TLRSIPKCNHYFHAICIDEWLKINATCPLCRN 168 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~--~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~ 168 (207)
-..|+.|.-.++... ...+-. |+|-|+..|...|...+..|..|-.
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~~r 353 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYECCR 353 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCccc
Confidence 467888876554443 444555 9999999999999887777755433
No 159
>PHA02819 hypothetical protein; Provisional
Probab=61.29 E-value=13 Score=24.63 Aligned_cols=7 Identities=14% Similarity=0.211 Sum_probs=2.9
Q ss_pred hhhhhhc
Q 044489 21 ARSLFYL 27 (207)
Q Consensus 21 ~~~l~~~ 27 (207)
.++.+..
T Consensus 27 VksVLtd 33 (71)
T PHA02819 27 VKSVLNN 33 (71)
T ss_pred HHHHHcC
Confidence 3444433
No 160
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=61.18 E-value=17 Score=27.01 Aligned_cols=27 Identities=15% Similarity=0.077 Sum_probs=14.0
Q ss_pred CcccchhhhHHHHHHHHHHHHHHHHHH
Q 044489 38 PRVARYGIVIGVGIPGLLCIIGLGCYL 64 (207)
Q Consensus 38 ~~~~~y~iil~i~i~~~i~~i~i~~~~ 64 (207)
++.|=|.|+.-.+++++|.++++..-+
T Consensus 32 ~tpWNysiL~Ls~vvlvi~~~LLgrsi 58 (125)
T PF15048_consen 32 ATPWNYSILALSFVVLVISFFLLGRSI 58 (125)
T ss_pred CCCcchHHHHHHHHHHHHHHHHHHHHh
Confidence 455778655555444444444444333
No 161
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=60.31 E-value=23 Score=23.31 Aligned_cols=21 Identities=33% Similarity=0.469 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 044489 47 IGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 47 l~i~i~~~i~~i~i~~~~~~~ 67 (207)
++.+++++||++++..+++..
T Consensus 2 I~d~iLi~ICVaii~lIlY~i 22 (68)
T PF05961_consen 2 IGDFILIIICVAIIGLILYGI 22 (68)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666666555553
No 162
>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=59.18 E-value=21 Score=22.72 Aligned_cols=44 Identities=27% Similarity=0.588 Sum_probs=31.1
Q ss_pred cccccCccCCCCC-ceeecCCCC--CcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 124 TCPICLCEYHPKE-TLRSIPKCN--HYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 124 ~C~ICL~~~~~~~-~v~~lp~C~--H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
.|--|-.++..+. ..++ |. ..|+.+|.+.-| +..||.|--.+..
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 4666777776655 3333 44 569999999866 7789999877644
No 163
>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=58.81 E-value=5.4 Score=22.27 Aligned_cols=21 Identities=19% Similarity=0.537 Sum_probs=13.2
Q ss_pred CCCCcccHHHHHHHhhcCCCCccccCc
Q 044489 143 KCNHYFHAICIDEWLKINATCPLCRNS 169 (207)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 169 (207)
.|||++-.+- ....||+|..+
T Consensus 6 ~CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 6 VCGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred CCCCEECCCc------CCCcCcCCCCc
Confidence 3777665432 34589999764
No 164
>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=58.49 E-value=13 Score=31.98 Aligned_cols=10 Identities=10% Similarity=0.046 Sum_probs=3.8
Q ss_pred HHHHHHHHHh
Q 044489 57 IIGLGCYLCG 66 (207)
Q Consensus 57 ~i~i~~~~~~ 66 (207)
+++|++++.+
T Consensus 271 IMvIIYLILR 280 (299)
T PF02009_consen 271 IMVIIYLILR 280 (299)
T ss_pred HHHHHHHHHH
Confidence 3333333433
No 165
>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=57.95 E-value=8.9 Score=32.26 Aligned_cols=51 Identities=24% Similarity=0.367 Sum_probs=29.0
Q ss_pred CCcccccCccCCCCCceeecCCC-CCcccHHHHHHH-hhcCCCCccccCcCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKC-NHYFHAICIDEW-LKINATCPLCRNSRENSS 174 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C-~H~FH~~CI~~W-l~~~~~CP~CR~~~~~~~ 174 (207)
-.-|.||++-...+-.-.-|+.= .=.=|++|+++| |--+..|| |+.+..+.
T Consensus 30 LsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p--rsk~skSt 82 (285)
T PF06937_consen 30 LSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP--RSKLSKST 82 (285)
T ss_pred eeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC--ccccccch
Confidence 35677777755444322111101 113489999999 46778898 55554443
No 166
>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=56.88 E-value=6.9 Score=33.45 Aligned_cols=18 Identities=28% Similarity=0.628 Sum_probs=8.6
Q ss_pred hhHHHHHHHHHHHHHHHH
Q 044489 45 IVIGVGIPGLLCIIGLGC 62 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~ 62 (207)
|++|+++..+++++++.+
T Consensus 275 IaVG~~La~lvlivLiaY 292 (306)
T PF01299_consen 275 IAVGAALAGLVLIVLIAY 292 (306)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 555555544444444433
No 167
>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=56.54 E-value=4.1 Score=25.38 Aligned_cols=12 Identities=33% Similarity=0.991 Sum_probs=6.3
Q ss_pred CCCccccCcCCC
Q 044489 161 ATCPLCRNSREN 172 (207)
Q Consensus 161 ~~CP~CR~~~~~ 172 (207)
..||+|.+++..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999998854
No 168
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.45 E-value=6.1 Score=33.78 Aligned_cols=67 Identities=16% Similarity=0.371 Sum_probs=46.4
Q ss_pred HhhCCCeecCCCCCCCCCCCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 103 IESYPKTILGDSGRLPKPNDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 103 i~~~p~~~~~~~~~~~~~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
+.......+.+.+.........|-||...+...+... .|.|-|+..|-..|......||-|+....+
T Consensus 86 ~n~nqnvp~~~~dA~~~~~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 86 VNGNQNVPYMKEDAGFQQDHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred hhccCCcchhhhhccccCCccceeeeeeeEEeccccc---CceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 3333444443322223445678999988776665433 599999999999999999999999887644
No 169
>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=55.99 E-value=11 Score=27.56 Aligned_cols=29 Identities=17% Similarity=0.427 Sum_probs=19.4
Q ss_pred CCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCC
Q 044489 142 PKCNHYFHAICIDEWLKINATCPLCRNSRENSSVV 176 (207)
Q Consensus 142 p~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~ 176 (207)
|+|+|. .+-+.+...|+.|++|+..+...
T Consensus 73 P~C~K~------TKmLGr~D~CM~C~~pLTLd~~l 101 (114)
T PF11023_consen 73 PNCGKQ------TKMLGRVDACMHCKEPLTLDPSL 101 (114)
T ss_pred CCCCCh------HhhhchhhccCcCCCcCccCchh
Confidence 357763 23456667899999998655443
No 170
>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=55.53 E-value=3.9 Score=36.26 Aligned_cols=50 Identities=28% Similarity=0.603 Sum_probs=0.0
Q ss_pred CCcccccCccC--------------CCC--CceeecCCCCCcccHHHHHHHhhc---------CCCCccccCcCCC
Q 044489 122 DSTCPICLCEY--------------HPK--ETLRSIPKCNHYFHAICIDEWLKI---------NATCPLCRNSREN 172 (207)
Q Consensus 122 ~~~C~ICL~~~--------------~~~--~~v~~lp~C~H~FH~~CI~~Wl~~---------~~~CP~CR~~~~~ 172 (207)
..+|++|+..- .+. -...--| |||+--.+...-|-+. +..||.|-.++..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 67899999741 111 1222355 9999888899989542 3479999998863
No 171
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=55.08 E-value=17 Score=36.32 Aligned_cols=52 Identities=19% Similarity=0.375 Sum_probs=36.6
Q ss_pred CCCCcccccCccCC---CCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCC
Q 044489 120 PNDSTCPICLCEYH---PKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRE 171 (207)
Q Consensus 120 ~~~~~C~ICL~~~~---~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~ 171 (207)
.+.+.|.||=++.. +++...-...|+--.|..|.+-=. +.+++||.|++...
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 35679999998863 333333333577779999985433 45668999999876
No 172
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=54.51 E-value=19 Score=27.61 Aligned_cols=11 Identities=27% Similarity=0.398 Sum_probs=4.7
Q ss_pred hhhhHHHHHHH
Q 044489 43 YGIVIGVGIPG 53 (207)
Q Consensus 43 y~iil~i~i~~ 53 (207)
|.|+++|++++
T Consensus 32 ~tILiaIvVli 42 (189)
T PF05568_consen 32 YTILIAIVVLI 42 (189)
T ss_pred HHHHHHHHHHH
Confidence 33444444433
No 173
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=53.60 E-value=28 Score=28.29 Aligned_cols=27 Identities=15% Similarity=0.159 Sum_probs=14.1
Q ss_pred CcccchhhhHHHHHHHHHHHHHHHHHH
Q 044489 38 PRVARYGIVIGVGIPGLLCIIGLGCYL 64 (207)
Q Consensus 38 ~~~~~y~iil~i~i~~~i~~i~i~~~~ 64 (207)
+.....+-+|+|+++++||.++++.-+
T Consensus 126 ~K~amLIClIIIAVLfLICT~LfLSTV 152 (227)
T PF05399_consen 126 NKMAMLICLIIIAVLFLICTLLFLSTV 152 (227)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444455556666666655543
No 174
>PTZ00208 65 kDa invariant surface glycoprotein; Provisional
Probab=53.59 E-value=14 Score=32.94 Aligned_cols=23 Identities=17% Similarity=0.267 Sum_probs=15.9
Q ss_pred hhhHHHHHHHHHHHHHHH-HHHHh
Q 044489 44 GIVIGVGIPGLLCIIGLG-CYLCG 66 (207)
Q Consensus 44 ~iil~i~i~~~i~~i~i~-~~~~~ 66 (207)
.|++++.+.++|++++.. +|++.
T Consensus 387 ~i~~avl~p~~il~~~~~~~~~~v 410 (436)
T PTZ00208 387 MIILAVLVPAIILAIIAVAFFIMV 410 (436)
T ss_pred HHHHHHHHHHHHHHHHHHHhheee
Confidence 388888888888886655 44443
No 175
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=53.43 E-value=13 Score=22.00 Aligned_cols=14 Identities=14% Similarity=0.209 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHhh
Q 044489 54 LLCIIGLGCYLCGR 67 (207)
Q Consensus 54 ~i~~i~i~~~~~~~ 67 (207)
+..+.++..+++++
T Consensus 19 lv~i~iva~~iYRK 32 (43)
T PF08114_consen 19 LVGIGIVALFIYRK 32 (43)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333444443
No 176
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=53.36 E-value=7.3 Score=22.29 Aligned_cols=26 Identities=35% Similarity=0.782 Sum_probs=16.0
Q ss_pred cccccCccCCCCCce-------eecCCCCCccc
Q 044489 124 TCPICLCEYHPKETL-------RSIPKCNHYFH 149 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v-------~~lp~C~H~FH 149 (207)
+|+=|...|..+|.. ..-++|+|.|+
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 577787777666541 12335788774
No 177
>PF08374 Protocadherin: Protocadherin; InterPro: IPR013585 The structure of protocadherins is similar to that of classic cadherins (IPR002126 from INTERPRO), but they also have some unique features associated with the cytoplasmic domains. They are expressed in a variety of organisms and are found in high concentrations in the brain where they seem to be localised mainly at cell-cell contact sites. Their expression seems to be developmentally regulated [].
Probab=52.80 E-value=8.5 Score=31.33 Aligned_cols=9 Identities=44% Similarity=0.312 Sum_probs=3.9
Q ss_pred hhhhhcccc
Q 044489 22 RSLFYLLNA 30 (207)
Q Consensus 22 ~~l~~~~~~ 30 (207)
|++...++.
T Consensus 14 rs~~tPl~~ 22 (221)
T PF08374_consen 14 RSLETPLDR 22 (221)
T ss_pred hhccCCCcC
Confidence 444444443
No 178
>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=50.67 E-value=19 Score=25.88 Aligned_cols=25 Identities=28% Similarity=0.535 Sum_probs=19.0
Q ss_pred CCcccHHHHHHHhhc---------CCCCccccCc
Q 044489 145 NHYFHAICIDEWLKI---------NATCPLCRNS 169 (207)
Q Consensus 145 ~H~FH~~CI~~Wl~~---------~~~CP~CR~~ 169 (207)
.=.|+..||..+... +-.||.||.-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 677999999888732 3369999873
No 179
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=49.74 E-value=16 Score=35.26 Aligned_cols=30 Identities=30% Similarity=0.679 Sum_probs=21.8
Q ss_pred eeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489 138 LRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 138 v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
.-..|.|.|.-|..=|.+ .+.||+|...+.
T Consensus 1156 fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1156 FWLCPRCKHRAHQHEISK----YNCCPLCHSMES 1185 (1189)
T ss_pred EEEccccccccccccccc----cccCccccChhh
Confidence 445667999988766543 678999988653
No 180
>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=49.73 E-value=12 Score=24.02 Aligned_cols=15 Identities=33% Similarity=0.866 Sum_probs=9.7
Q ss_pred CCCCccccCcCCCCC
Q 044489 160 NATCPLCRNSRENSS 174 (207)
Q Consensus 160 ~~~CP~CR~~~~~~~ 174 (207)
+..||+|+..+...+
T Consensus 2 k~~CPlCkt~~n~gs 16 (61)
T PF05715_consen 2 KSLCPLCKTTLNVGS 16 (61)
T ss_pred CccCCcccchhhcCC
Confidence 456888888764333
No 181
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=49.64 E-value=4.8 Score=25.38 Aligned_cols=21 Identities=29% Similarity=0.566 Sum_probs=15.1
Q ss_pred CceeecCCCCCcccHHHHHHH
Q 044489 136 ETLRSIPKCNHYFHAICIDEW 156 (207)
Q Consensus 136 ~~v~~lp~C~H~FH~~CI~~W 156 (207)
+....-+.|+|.|+..|-..|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 334445469999999888777
No 182
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=49.54 E-value=24 Score=35.40 Aligned_cols=52 Identities=19% Similarity=0.366 Sum_probs=36.0
Q ss_pred CCCCcccccCccCC---CCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCC
Q 044489 120 PNDSTCPICLCEYH---PKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRE 171 (207)
Q Consensus 120 ~~~~~C~ICL~~~~---~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~ 171 (207)
.+.+.|.||=++.. +++...-...|+-=.|..|-+-=- +.+++||.|++...
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 35679999999863 333333333577779999985322 45678999999875
No 183
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.35 E-value=10 Score=32.26 Aligned_cols=40 Identities=18% Similarity=0.277 Sum_probs=29.6
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA 161 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~ 161 (207)
-..|.+|.|.+++..-|.--.-=.|.||..|=.+-++.+.
T Consensus 268 pLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred ceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhc
Confidence 4689999999988876651111259999999998886543
No 184
>PHA03049 IMV membrane protein; Provisional
Probab=48.12 E-value=41 Score=22.12 Aligned_cols=21 Identities=29% Similarity=0.526 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 044489 47 IGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 47 l~i~i~~~i~~i~i~~~~~~~ 67 (207)
++.+++++||++++.++++..
T Consensus 2 I~d~~l~iICVaIi~lIvYgi 22 (68)
T PHA03049 2 IGDIILVIICVVIIGLIVYGI 22 (68)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 344556666666666665554
No 185
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=48.11 E-value=12 Score=23.32 Aligned_cols=23 Identities=35% Similarity=0.754 Sum_probs=13.8
Q ss_pred CCCCcccHHHHHHHhhcCCCCccc
Q 044489 143 KCNHYFHAICIDEWLKINATCPLC 166 (207)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CP~C 166 (207)
.|||.|...=-+ -......||.|
T Consensus 33 ~Cgh~w~~~v~~-R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVND-RTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhh-hccCCCCCCCC
Confidence 577776653222 22456679988
No 186
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.73 E-value=15 Score=30.72 Aligned_cols=32 Identities=19% Similarity=0.241 Sum_probs=26.1
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHh
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL 157 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl 157 (207)
-.-|+.||..+.++. +.| =||+|+.+||.+.+
T Consensus 43 FdcCsLtLqPc~dPv---it~-~GylfdrEaILe~i 74 (303)
T KOG3039|consen 43 FDCCSLTLQPCRDPV---ITP-DGYLFDREAILEYI 74 (303)
T ss_pred cceeeeecccccCCc---cCC-CCeeeeHHHHHHHH
Confidence 457999999987763 344 79999999999886
No 187
>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=47.58 E-value=57 Score=22.73 Aligned_cols=10 Identities=10% Similarity=0.331 Sum_probs=4.7
Q ss_pred HHHHHHHhhh
Q 044489 59 GLGCYLCGRF 68 (207)
Q Consensus 59 ~i~~~~~~~~ 68 (207)
++..++|++.
T Consensus 48 VilwfvCC~k 57 (94)
T PF05393_consen 48 VILWFVCCKK 57 (94)
T ss_pred HHHHHHHHHH
Confidence 3444455543
No 188
>PLN02400 cellulose synthase
Probab=47.24 E-value=27 Score=35.14 Aligned_cols=52 Identities=17% Similarity=0.366 Sum_probs=35.4
Q ss_pred CCCCcccccCccCC---CCCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCC
Q 044489 120 PNDSTCPICLCEYH---PKETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSRE 171 (207)
Q Consensus 120 ~~~~~C~ICL~~~~---~~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~ 171 (207)
...+.|-||=|+.. +++...-...|+-=.|..|-+-=- +.+++||.||....
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 34679999999863 333333333577778999985322 44668999999875
No 189
>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=47.22 E-value=19 Score=19.39 Aligned_cols=29 Identities=17% Similarity=0.400 Sum_probs=9.8
Q ss_pred cccccCccCCCCCceeecCCCCCcccHHHH
Q 044489 124 TCPICLCEYHPKETLRSIPKCNHYFHAICI 153 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI 153 (207)
.|.+|-+.... +..-.-..|+-.+|.+|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47788777654 223333359999999985
No 190
>PHA02975 hypothetical protein; Provisional
Probab=46.41 E-value=41 Score=22.25 Aligned_cols=6 Identities=0% Similarity=0.002 Sum_probs=2.4
Q ss_pred Ccccch
Q 044489 38 PRVARY 43 (207)
Q Consensus 38 ~~~~~y 43 (207)
+..|.+
T Consensus 41 ~~~~~~ 46 (69)
T PHA02975 41 SSLSII 46 (69)
T ss_pred CchHHH
Confidence 333443
No 191
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=45.38 E-value=6.9 Score=25.59 Aligned_cols=20 Identities=15% Similarity=0.198 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q 044489 45 IVIGVGIPGLLCIIGLGCYL 64 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~~ 64 (207)
++.++++.++++++++++++
T Consensus 14 vIaG~Vvgll~ailLIlf~i 33 (64)
T PF01034_consen 14 VIAGGVVGLLFAILLILFLI 33 (64)
T ss_dssp --------------------
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44444443444444343333
No 192
>PLN02248 cellulose synthase-like protein
Probab=45.21 E-value=32 Score=34.75 Aligned_cols=33 Identities=18% Similarity=0.476 Sum_probs=27.5
Q ss_pred CCCCcccHHHHHHHhhcCCCCccccCcCCCCCC
Q 044489 143 KCNHYFHAICIDEWLKINATCPLCRNSRENSSV 175 (207)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~ 175 (207)
+|++..|.+|-..=++....||-|+.+....+.
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 181 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKVTDL 181 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCccccccccc
Confidence 478899999999888888899999999854443
No 193
>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=45.20 E-value=16 Score=26.61 Aligned_cols=47 Identities=19% Similarity=0.328 Sum_probs=28.9
Q ss_pred CCCcccccCccCCCCC-ceeecCCCCCcccHHHHHHHhhcCC--CCccccC
Q 044489 121 NDSTCPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLKINA--TCPLCRN 168 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~--~CP~CR~ 168 (207)
++..|++|...|..-. .-.....|.|.+|..|-.. ..... .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 5679999998874433 2234456999999999554 11112 4888865
No 194
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=44.77 E-value=12 Score=24.06 Aligned_cols=14 Identities=29% Similarity=0.819 Sum_probs=10.4
Q ss_pred cCCCCccccCcCCC
Q 044489 159 INATCPLCRNSREN 172 (207)
Q Consensus 159 ~~~~CP~CR~~~~~ 172 (207)
..+.||+|.++...
T Consensus 38 ~~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 38 EEPVCPLCKSPMVS 51 (59)
T ss_pred CCccCCCcCCcccc
Confidence 35689999988643
No 195
>PLN02195 cellulose synthase A
Probab=44.76 E-value=30 Score=34.41 Aligned_cols=52 Identities=15% Similarity=0.339 Sum_probs=36.2
Q ss_pred CCCcccccCccCCC---CCceeecCCCCCcccHHHHHHHh-hcCCCCccccCcCCC
Q 044489 121 NDSTCPICLCEYHP---KETLRSIPKCNHYFHAICIDEWL-KINATCPLCRNSREN 172 (207)
Q Consensus 121 ~~~~C~ICL~~~~~---~~~v~~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~ 172 (207)
+.+.|.||-++... ++...-...|+--.|+.|-+-=- +.++.||.|++....
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccc
Confidence 45689999987643 33333334588889999985333 446689999998863
No 196
>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=44.38 E-value=7.4 Score=33.24 Aligned_cols=23 Identities=30% Similarity=0.512 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhh
Q 044489 45 IVIGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~~~~~ 67 (207)
++.++++++++++++++.++|+|
T Consensus 149 ~IpaVVI~~iLLIA~iIa~icyr 171 (290)
T PF05454_consen 149 FIPAVVIAAILLIAGIIACICYR 171 (290)
T ss_dssp -----------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Confidence 44455555555555555555554
No 197
>PRK05978 hypothetical protein; Provisional
Probab=43.71 E-value=15 Score=28.16 Aligned_cols=24 Identities=21% Similarity=0.476 Sum_probs=19.6
Q ss_pred CCcccHHHHHHHhhcCCCCccccCcCCCC
Q 044489 145 NHYFHAICIDEWLKINATCPLCRNSRENS 173 (207)
Q Consensus 145 ~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~ 173 (207)
||+|+ .+|+-+..||.|-.++...
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHH 65 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccC
Confidence 48886 6889999999999987554
No 198
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.19 E-value=3.9 Score=34.60 Aligned_cols=49 Identities=27% Similarity=0.535 Sum_probs=36.2
Q ss_pred CCcccccCccCCCCC--c-eeecCC-------CCCcccHHHHHHHh-hcCCCCccccCcC
Q 044489 122 DSTCPICLCEYHPKE--T-LRSIPK-------CNHYFHAICIDEWL-KINATCPLCRNSR 170 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~--~-v~~lp~-------C~H~FH~~CI~~Wl-~~~~~CP~CR~~~ 170 (207)
...|.||...|...+ . -+++.. |+|..+..|++.-+ +....||.|+...
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~~ 266 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCccccee
Confidence 467999999998432 2 222322 99999999999987 4446899999853
No 199
>PF14147 Spore_YhaL: Sporulation protein YhaL
Probab=43.02 E-value=25 Score=21.92 Aligned_cols=13 Identities=15% Similarity=0.166 Sum_probs=8.0
Q ss_pred ccchhhhHHHHHH
Q 044489 40 VARYGIVIGVGIP 52 (207)
Q Consensus 40 ~~~y~iil~i~i~ 52 (207)
+|.|.++++|++.
T Consensus 3 wWvY~vi~gI~~S 15 (52)
T PF14147_consen 3 WWVYFVIAGIIFS 15 (52)
T ss_pred chHHHHHHHHHHH
Confidence 5778666665543
No 200
>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=42.86 E-value=6.3 Score=26.28 Aligned_cols=41 Identities=34% Similarity=0.655 Sum_probs=21.1
Q ss_pred CcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCC
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSREN 172 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~ 172 (207)
..|+.|-.+++... +|.++..|-.. ++....||-|.+++..
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHHH
Confidence 46889987754332 55555666443 3556689999998754
No 201
>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=42.64 E-value=33 Score=27.33 Aligned_cols=26 Identities=8% Similarity=0.102 Sum_probs=11.8
Q ss_pred CcccchhhhHHHHHHHHHHHHHHHHH
Q 044489 38 PRVARYGIVIGVGIPGLLCIIGLGCY 63 (207)
Q Consensus 38 ~~~~~y~iil~i~i~~~i~~i~i~~~ 63 (207)
+.+....+++.++..++++++++++.
T Consensus 6 ~~lsGv~vvlv~a~g~l~~vllfIfa 31 (186)
T PF07406_consen 6 EWLSGVNVVLVIAYGSLVFVLLFIFA 31 (186)
T ss_pred ccccceeeehhhHHHHHHHHHHHHHH
Confidence 33333445555555555554444433
No 202
>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=42.42 E-value=13 Score=26.83 Aligned_cols=23 Identities=35% Similarity=0.678 Sum_probs=12.7
Q ss_pred cccccCccCCCCC-ceeecCCCCC
Q 044489 124 TCPICLCEYHPKE-TLRSIPKCNH 146 (207)
Q Consensus 124 ~C~ICL~~~~~~~-~v~~lp~C~H 146 (207)
.|+-|-++|...+ ..-+.|.|+|
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~ 27 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLY 27 (109)
T ss_pred cCCcCCCcceEecCCeeECccccc
Confidence 5888888765444 2233444444
No 203
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=42.13 E-value=5.5 Score=33.98 Aligned_cols=39 Identities=26% Similarity=0.453 Sum_probs=30.5
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINA 161 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~ 161 (207)
..+|.+|++++..+.....+. |.-+||..|+-.|+....
T Consensus 214 ~rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred ceecHHHHHHHhcccccchhh-cccccccccccccccccc
Confidence 459999999998755555554 666999999999996554
No 204
>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=42.04 E-value=5.5 Score=23.56 Aligned_cols=25 Identities=24% Similarity=0.512 Sum_probs=14.6
Q ss_pred CCCCcccHHHHHHHhhcCCCCccccC
Q 044489 143 KCNHYFHAICIDEWLKINATCPLCRN 168 (207)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CP~CR~ 168 (207)
+|||.|...-=..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 58888875221000 23447999988
No 205
>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=41.72 E-value=32 Score=22.18 Aligned_cols=34 Identities=18% Similarity=0.347 Sum_probs=23.9
Q ss_pred CCCcccccCccCCC--CCceeecCCCCCcccHHHHH
Q 044489 121 NDSTCPICLCEYHP--KETLRSIPKCNHYFHAICID 154 (207)
Q Consensus 121 ~~~~C~ICL~~~~~--~~~v~~lp~C~H~FH~~CI~ 154 (207)
....|+.|-..... ....-..+.||+.+|.|---
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~na 62 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNA 62 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHH
Confidence 35689999887766 44555666788888877543
No 206
>PRK11827 hypothetical protein; Provisional
Probab=40.97 E-value=8.8 Score=24.78 Aligned_cols=19 Identities=26% Similarity=0.440 Sum_probs=14.6
Q ss_pred HHHhhcCCCCccccCcCCC
Q 044489 154 DEWLKINATCPLCRNSREN 172 (207)
Q Consensus 154 ~~Wl~~~~~CP~CR~~~~~ 172 (207)
++||..--.||.|+.++..
T Consensus 2 d~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWY 20 (60)
T ss_pred ChHHHhheECCCCCCcCeE
Confidence 4567777789999998864
No 207
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=40.92 E-value=53 Score=25.12 Aligned_cols=28 Identities=25% Similarity=0.111 Sum_probs=16.9
Q ss_pred ccccCCCCcccchhhhHHHHHHHHHHHH
Q 044489 31 AFCIQGLPRVARYGIVIGVGIPGLLCII 58 (207)
Q Consensus 31 ~~~~~~~~~~~~y~iil~i~i~~~i~~i 58 (207)
.+.++.++..++.||+.+++++..+++.
T Consensus 52 ~yi~~~lsgtAIaGIVfgiVfimgvva~ 79 (155)
T PF10873_consen 52 AYIGDVLSGTAIAGIVFGIVFIMGVVAG 79 (155)
T ss_pred hhhccccccceeeeeehhhHHHHHHHHH
Confidence 4555666777777777766554444433
No 208
>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=40.22 E-value=63 Score=23.74 Aligned_cols=33 Identities=27% Similarity=0.292 Sum_probs=14.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhhhhhhccccc
Q 044489 45 IVIGVGIPGLLCIIGLGCYLCGRFRACYQHRNS 77 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~~~~~~r~~~r~r~~ 77 (207)
.+|+-...+.+..++.+....+..|+|.|||++
T Consensus 88 ~VIGGLcaL~LaamGA~~LLrR~cRr~arrR~~ 120 (126)
T PF03229_consen 88 LVIGGLCALTLAAMGAGALLRRCCRRAARRRQR 120 (126)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 333333333333444444444444455555443
No 209
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.98 E-value=15 Score=25.78 Aligned_cols=12 Identities=25% Similarity=0.858 Sum_probs=10.7
Q ss_pred cccHHHHHHHhh
Q 044489 147 YFHAICIDEWLK 158 (207)
Q Consensus 147 ~FH~~CI~~Wl~ 158 (207)
-||..|+..|.+
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999985
No 210
>PRK00523 hypothetical protein; Provisional
Probab=39.76 E-value=55 Score=21.92 Aligned_cols=9 Identities=11% Similarity=0.239 Sum_probs=4.2
Q ss_pred CCCHHHHhh
Q 044489 97 GLDKPTIES 105 (207)
Q Consensus 97 ~~~~~~i~~ 105 (207)
+++++.++.
T Consensus 39 pine~mir~ 47 (72)
T PRK00523 39 PITENMIRA 47 (72)
T ss_pred CCCHHHHHH
Confidence 444554443
No 211
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=39.50 E-value=15 Score=35.67 Aligned_cols=61 Identities=13% Similarity=0.305 Sum_probs=40.5
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHh-hc-----CCCCccccCcCCCCCCCCCCcccc
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL-KI-----NATCPLCRNSRENSSVVTPSSSIK 183 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl-~~-----~~~CP~CR~~~~~~~~~~~~~~~~ 183 (207)
....|..|.... ....-+.+.|+|.+|.+|+..|. +. -..|++|+..........+...+.
T Consensus 228 ~~~mC~~C~~tl--fn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C~~~q~h~~~~Lm~ 294 (889)
T KOG1356|consen 228 IREMCDRCETTL--FNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKCNKGQCHALSELMP 294 (889)
T ss_pred cchhhhhhcccc--cceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhcCCccccchhhccc
Confidence 356788887542 23345566899999999999994 11 126888887766555555444443
No 212
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=39.34 E-value=16 Score=27.64 Aligned_cols=22 Identities=27% Similarity=0.679 Sum_probs=17.2
Q ss_pred cCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489 141 IPKCNHYFHAICIDEWLKINATCPLCRNSR 170 (207)
Q Consensus 141 lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~ 170 (207)
.++|||+|+. -+.-||.|.++.
T Consensus 32 C~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 32 CKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred cCCCCeEEcC--------CcccCCCCCCCC
Confidence 3479999984 466799999985
No 213
>PF11770 GAPT: GRB2-binding adapter (GAPT); InterPro: IPR021082 This entry represents a family of transmembrane proteins which bind the growth factor receptor-bound protein 2 (GRB2) in B cells []. In contrast to other transmembrane adaptor proteins, GAPT, which this entry represents, is not phosphorylated upon BCR ligation. It associates with GRB2 constitutively through its proline-rich region [].
Probab=38.71 E-value=12 Score=28.76 Aligned_cols=23 Identities=35% Similarity=0.645 Sum_probs=13.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhh
Q 044489 45 IVIGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~~~~~ 67 (207)
+++|+.+++++++.+|.+++.++
T Consensus 12 i~igi~Ll~lLl~cgiGcvwhwk 34 (158)
T PF11770_consen 12 ISIGISLLLLLLLCGIGCVWHWK 34 (158)
T ss_pred HHHHHHHHHHHHHHhcceEEEee
Confidence 55666666655555555555543
No 214
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=38.23 E-value=10 Score=26.82 Aligned_cols=8 Identities=38% Similarity=0.501 Sum_probs=3.1
Q ss_pred chhhhHHH
Q 044489 42 RYGIVIGV 49 (207)
Q Consensus 42 ~y~iil~i 49 (207)
+-+|++++
T Consensus 68 iagi~vg~ 75 (96)
T PTZ00382 68 IAGISVAV 75 (96)
T ss_pred EEEEEeeh
Confidence 33344433
No 215
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=38.22 E-value=27 Score=24.79 Aligned_cols=33 Identities=27% Similarity=0.594 Sum_probs=21.6
Q ss_pred CCCcccccCccCCCCCcee-ecCCCCCcccHHHHHH
Q 044489 121 NDSTCPICLCEYHPKETLR-SIPKCNHYFHAICIDE 155 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~-~lp~C~H~FH~~CI~~ 155 (207)
....|.||... .|-.+. .-+.|...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 35689999877 232221 1113888999999865
No 216
>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=37.94 E-value=38 Score=23.67 Aligned_cols=40 Identities=25% Similarity=0.436 Sum_probs=31.3
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS 174 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~ 174 (207)
...|.-|-....--| ..| |-.|+..+..|..|+++++...
T Consensus 33 rS~C~~C~~~L~~~~---lIP----------i~S~l~lrGrCr~C~~~I~~~y 72 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWD---LIP----------ILSYLLLRGRCRYCGAPIPPRY 72 (92)
T ss_pred CCcCcCCCCcCcccc---cch----------HHHHHHhCCCCcccCCCCChHH
Confidence 457998888776666 345 6789999999999999987543
No 217
>PF15183 MRAP: Melanocortin-2 receptor accessory protein family
Probab=37.80 E-value=1.1e+02 Score=21.23 Aligned_cols=22 Identities=27% Similarity=0.209 Sum_probs=13.1
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH
Q 044489 43 YGIVIGVGIPGLLCIIGLGCYL 64 (207)
Q Consensus 43 y~iil~i~i~~~i~~i~i~~~~ 64 (207)
|.|+|++.+.+..+++.++++.
T Consensus 36 ysIVI~FWv~LA~FV~~lF~iL 57 (90)
T PF15183_consen 36 YSIVIAFWVSLAAFVVFLFLIL 57 (90)
T ss_pred eeeehhHHHHHHHHHHHHHHHH
Confidence 6677777666555555444443
No 218
>PF15069 FAM163: FAM163 family
Probab=37.48 E-value=56 Score=24.89 Aligned_cols=7 Identities=43% Similarity=1.369 Sum_probs=3.7
Q ss_pred CCCCccc
Q 044489 160 NATCPLC 166 (207)
Q Consensus 160 ~~~CP~C 166 (207)
+..||.|
T Consensus 91 ~~~CptC 97 (143)
T PF15069_consen 91 RSYCPTC 97 (143)
T ss_pred CCcCCCC
Confidence 3345666
No 219
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=37.40 E-value=47 Score=24.90 Aligned_cols=33 Identities=9% Similarity=-0.295 Sum_probs=14.6
Q ss_pred CCCCcccchhh-hHHHHHHHHHHHHHHHHHHHhh
Q 044489 35 QGLPRVARYGI-VIGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 35 ~~~~~~~~y~i-il~i~i~~~i~~i~i~~~~~~~ 67 (207)
+..+....|.- -++++++++|.+.+.+++++++
T Consensus 92 ~k~n~~t~Yia~~~il~il~~i~is~~~~~~yr~ 125 (139)
T PHA03099 92 EKPNTTTSYIPSPGIVLVLVGIIITCCLLSVYRF 125 (139)
T ss_pred ccccchhhhhhhhHHHHHHHHHHHHHHHHhhhee
Confidence 33455566742 2233334444444444444443
No 220
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=37.28 E-value=10 Score=32.32 Aligned_cols=39 Identities=21% Similarity=0.631 Sum_probs=29.8
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSR 170 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~ 170 (207)
...|+-|-+-+.+.+.||.- =.|+||.+|+. |-+|++.+
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L 130 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQL 130 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhccc
Confidence 56899999888777777754 57999999976 56666554
No 221
>PRK10220 hypothetical protein; Provisional
Probab=36.50 E-value=24 Score=25.58 Aligned_cols=13 Identities=38% Similarity=0.953 Sum_probs=8.6
Q ss_pred cccccCccCCCCC
Q 044489 124 TCPICLCEYHPKE 136 (207)
Q Consensus 124 ~C~ICL~~~~~~~ 136 (207)
.|+-|-++|...+
T Consensus 5 ~CP~C~seytY~d 17 (111)
T PRK10220 5 HCPKCNSEYTYED 17 (111)
T ss_pred cCCCCCCcceEcC
Confidence 5788877765444
No 222
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=36.48 E-value=12 Score=28.78 Aligned_cols=31 Identities=29% Similarity=0.640 Sum_probs=21.7
Q ss_pred ccHHHHHHHhhcCC----CCccccCcCCCCCCCCC
Q 044489 148 FHAICIDEWLKINA----TCPLCRNSRENSSVVTP 178 (207)
Q Consensus 148 FH~~CI~~Wl~~~~----~CP~CR~~~~~~~~~~~ 178 (207)
||..|+++=|..-+ .||.|+.+-....+..+
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~~~~~ 36 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQSAMPQ 36 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCCccccc
Confidence 78888887774433 79999987655555433
No 223
>PTZ00046 rifin; Provisional
Probab=36.42 E-value=45 Score=29.38 Aligned_cols=19 Identities=16% Similarity=0.207 Sum_probs=8.0
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 044489 45 IVIGVGIPGLLCIIGLGCY 63 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~ 63 (207)
|+.+++.+++|+++.++.|
T Consensus 317 IiaSiiAIvVIVLIMvIIY 335 (358)
T PTZ00046 317 IIASIVAIVVIVLIMVIIY 335 (358)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444444444433333
No 224
>PRK01343 zinc-binding protein; Provisional
Probab=36.20 E-value=27 Score=22.29 Aligned_cols=12 Identities=25% Similarity=0.769 Sum_probs=8.6
Q ss_pred CCCCccccCcCC
Q 044489 160 NATCPLCRNSRE 171 (207)
Q Consensus 160 ~~~CP~CR~~~~ 171 (207)
...||+|+++..
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 446888888764
No 225
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=36.14 E-value=17 Score=34.77 Aligned_cols=34 Identities=26% Similarity=0.684 Sum_probs=25.4
Q ss_pred eeecCCCCCcccHHHHHHHhhcCCCCccccCcCC
Q 044489 138 LRSIPKCNHYFHAICIDEWLKINATCPLCRNSRE 171 (207)
Q Consensus 138 v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~ 171 (207)
+...|.|.-+||.+=++.-..++.-||.||.+-.
T Consensus 1044 it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1044 ITMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred hhhCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 3345567888888777766677889999998754
No 226
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.89 E-value=35 Score=32.55 Aligned_cols=50 Identities=26% Similarity=0.517 Sum_probs=34.1
Q ss_pred cccccCccCCCCCceeecCCCCC-cccHHHHHHHh--hc----CCCCccccCcCCCCCCCC
Q 044489 124 TCPICLCEYHPKETLRSIPKCNH-YFHAICIDEWL--KI----NATCPLCRNSRENSSVVT 177 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~H-~FH~~CI~~Wl--~~----~~~CP~CR~~~~~~~~~~ 177 (207)
.|+||-.... -+ ....|+| ..+.+|..+.. .. ...||+||..+.......
T Consensus 2 ~c~ic~~s~~---~~-~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s~~~ 58 (669)
T KOG2231|consen 2 SCAICAFSPD---FV-GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKSNGD 58 (669)
T ss_pred CcceeecCcc---cc-ccccccccccchhhhhhhhhhcccccccccCcccccceeeecccc
Confidence 5889876532 22 3446999 89999988775 33 446899999875544443
No 227
>PF14979 TMEM52: Transmembrane 52
Probab=35.42 E-value=94 Score=23.83 Aligned_cols=21 Identities=24% Similarity=0.452 Sum_probs=13.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q 044489 44 GIVIGVGIPGLLCIIGLGCYL 64 (207)
Q Consensus 44 ~iil~i~i~~~i~~i~i~~~~ 64 (207)
.+++.++++++++-+...++-
T Consensus 23 wLill~~~llLLCG~ta~C~r 43 (154)
T PF14979_consen 23 WLILLIGFLLLLCGLTASCVR 43 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 366666666777766666665
No 228
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=35.32 E-value=48 Score=29.13 Aligned_cols=16 Identities=13% Similarity=0.173 Sum_probs=6.5
Q ss_pred hhHHHHHHHHHHHHHH
Q 044489 45 IVIGVGIPGLLCIIGL 60 (207)
Q Consensus 45 iil~i~i~~~i~~i~i 60 (207)
|+.+++.+++|+++.+
T Consensus 312 IiaSiIAIvvIVLIMv 327 (353)
T TIGR01477 312 IIASIIAILIIVLIMV 327 (353)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4444444344444333
No 229
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=35.16 E-value=20 Score=30.04 Aligned_cols=45 Identities=20% Similarity=0.218 Sum_probs=31.8
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--CCCCccccCc
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPLCRNS 169 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~CR~~ 169 (207)
...|+|=...+.++- + ..+|||+|-.+=|...+.. ...||+=-.+
T Consensus 176 s~rdPis~~~I~nPv--i-SkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPV--I-SKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhchh--h-hcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 457888776666553 2 2269999999999999955 4468874333
No 230
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.49 E-value=27 Score=29.63 Aligned_cols=10 Identities=20% Similarity=0.853 Sum_probs=6.6
Q ss_pred CCCCccccCc
Q 044489 160 NATCPLCRNS 169 (207)
Q Consensus 160 ~~~CP~CR~~ 169 (207)
...||.|...
T Consensus 269 p~~C~~Cgt~ 278 (279)
T TIGR00627 269 TPICKTCKTA 278 (279)
T ss_pred CCCCCCCCCC
Confidence 3468888754
No 231
>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=32.97 E-value=59 Score=27.94 Aligned_cols=26 Identities=19% Similarity=0.110 Sum_probs=15.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhhhh
Q 044489 45 IVIGVGIPGLLCIIGLGCYLCGRFRA 70 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~~~~~~r~ 70 (207)
..++..++++++++++..+++..+|+
T Consensus 256 t~I~aSiiaIliIVLIMvIIYLILRY 281 (299)
T PF02009_consen 256 TAIIASIIAILIIVLIMVIIYLILRY 281 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555666666666667766654
No 232
>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=32.55 E-value=21 Score=27.55 Aligned_cols=49 Identities=20% Similarity=0.356 Sum_probs=33.9
Q ss_pred cccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCC
Q 044489 126 PICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVT 177 (207)
Q Consensus 126 ~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~ 177 (207)
.||++--...+..-.-|.=.+.||.+|=.+- -..||-|..++.....+.
T Consensus 8 qiC~NGH~~t~~~~~~p~~~~~fC~kCG~~t---I~~Cp~C~~~IrG~y~v~ 56 (158)
T PF10083_consen 8 QICLNGHVITDSYDKNPELREKFCSKCGAKT---ITSCPNCSTPIRGDYHVE 56 (158)
T ss_pred HHccCccccccccccCchHHHHHHHHhhHHH---HHHCcCCCCCCCCceecC
Confidence 4777765555555555445678999997654 346999999998776553
No 233
>PHA02844 putative transmembrane protein; Provisional
Probab=32.50 E-value=1.1e+02 Score=20.55 Aligned_cols=7 Identities=14% Similarity=0.145 Sum_probs=2.5
Q ss_pred hhhcccc
Q 044489 24 LFYLLNA 30 (207)
Q Consensus 24 l~~~~~~ 30 (207)
....+..
T Consensus 27 VksVLtd 33 (75)
T PHA02844 27 VKSVLSD 33 (75)
T ss_pred HHHHHcC
Confidence 3333333
No 234
>PF12768 Rax2: Cortical protein marker for cell polarity
Probab=32.46 E-value=96 Score=26.34 Aligned_cols=20 Identities=30% Similarity=0.404 Sum_probs=9.9
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q 044489 45 IVIGVGIPGLLCIIGLGCYL 64 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~~ 64 (207)
++++++++++|.+++++...
T Consensus 234 lAiALG~v~ll~l~Gii~~~ 253 (281)
T PF12768_consen 234 LAIALGTVFLLVLIGIILAY 253 (281)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555554443
No 235
>PRK01844 hypothetical protein; Provisional
Probab=32.05 E-value=85 Score=21.03 Aligned_cols=9 Identities=0% Similarity=0.239 Sum_probs=3.9
Q ss_pred CCCHHHHhh
Q 044489 97 GLDKPTIES 105 (207)
Q Consensus 97 ~~~~~~i~~ 105 (207)
+++++.++.
T Consensus 38 pine~mir~ 46 (72)
T PRK01844 38 PINEQMLKM 46 (72)
T ss_pred CCCHHHHHH
Confidence 344444443
No 236
>KOG4080 consensus Mitochondrial ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=31.58 E-value=19 Score=28.13 Aligned_cols=14 Identities=43% Similarity=1.056 Sum_probs=7.8
Q ss_pred CCCCceeecCCCCC
Q 044489 133 HPKETLRSIPKCNH 146 (207)
Q Consensus 133 ~~~~~v~~lp~C~H 146 (207)
.+.+.+...|.|||
T Consensus 88 k~k~nl~~CP~CGh 101 (176)
T KOG4080|consen 88 KPKDNLNTCPACGH 101 (176)
T ss_pred cchhccccCcccCc
Confidence 33444555566776
No 237
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=31.58 E-value=9.7 Score=27.80 Aligned_cols=7 Identities=43% Similarity=1.682 Sum_probs=0.0
Q ss_pred HHHHHHh
Q 044489 60 LGCYLCG 66 (207)
Q Consensus 60 i~~~~~~ 66 (207)
|.+|+|.
T Consensus 42 iGCWYck 48 (118)
T PF14991_consen 42 IGCWYCK 48 (118)
T ss_dssp -------
T ss_pred Hhheeee
Confidence 3344443
No 238
>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=31.51 E-value=32 Score=24.45 Aligned_cols=10 Identities=20% Similarity=0.511 Sum_probs=3.8
Q ss_pred HHHHHHHHHH
Q 044489 52 PGLLCIIGLG 61 (207)
Q Consensus 52 ~~~i~~i~i~ 61 (207)
++++++++++
T Consensus 69 ls~v~IlVil 78 (101)
T PF06024_consen 69 LSFVCILVIL 78 (101)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 239
>PF04834 Adeno_E3_14_5: Early E3 14.5 kDa protein; InterPro: IPR008131 The E3B 14.5 kDa was first identified in human adenovirus type 5. It is an integral membrane protein oriented with its C terminus in the cytoplasm. It functions to down-regulate the epidermal growth factor receptor and prevent tumour necrosis factor cytolysis. It achieves this through the interaction with E3 10.4 kDa protein [, ]. ; GO: 0009966 regulation of signal transduction, 0016021 integral to membrane
Probab=31.42 E-value=50 Score=23.44 Aligned_cols=14 Identities=29% Similarity=0.358 Sum_probs=8.4
Q ss_pred cCCCCcccchhhhH
Q 044489 34 IQGLPRVARYGIVI 47 (207)
Q Consensus 34 ~~~~~~~~~y~iil 47 (207)
..+++..|+|++++
T Consensus 17 ~~d~~~~Wl~~i~~ 30 (97)
T PF04834_consen 17 KSDMPNYWLYAIGI 30 (97)
T ss_pred CCCCCHHHHHHHHH
Confidence 35667778874333
No 240
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=31.24 E-value=22 Score=18.69 Aligned_cols=9 Identities=33% Similarity=1.025 Sum_probs=7.3
Q ss_pred CCccccCcC
Q 044489 162 TCPLCRNSR 170 (207)
Q Consensus 162 ~CP~CR~~~ 170 (207)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 599998876
No 241
>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=30.90 E-value=36 Score=27.86 Aligned_cols=7 Identities=43% Similarity=0.605 Sum_probs=3.0
Q ss_pred hhHHHHH
Q 044489 45 IVIGVGI 51 (207)
Q Consensus 45 iil~i~i 51 (207)
|+|+|++
T Consensus 18 iaI~IV~ 24 (217)
T PF07423_consen 18 IAIGIVS 24 (217)
T ss_pred HHHHHHH
Confidence 4444443
No 242
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=30.27 E-value=26 Score=32.72 Aligned_cols=34 Identities=26% Similarity=0.655 Sum_probs=23.5
Q ss_pred CCCcccccCccCCC-----------CCceeecCCCCCcccHHHHHHH
Q 044489 121 NDSTCPICLCEYHP-----------KETLRSIPKCNHYFHAICIDEW 156 (207)
Q Consensus 121 ~~~~C~ICL~~~~~-----------~~~v~~lp~C~H~FH~~CI~~W 156 (207)
....|+||-|.|+. .+.|... =|-+||..|+.+=
T Consensus 512 ~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le--~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 512 RQASCPICQEKFEVVFDQEEDLWMYKDAVYLE--FGRIFHSKCLSEK 556 (579)
T ss_pred cccCCcccccccceeecchhhheeecceeeec--cCceeeccccchH
Confidence 46789999998732 2223322 5889999998763
No 243
>PF15353 HECA: Headcase protein family homologue
Probab=30.25 E-value=32 Score=24.79 Aligned_cols=13 Identities=31% Similarity=1.114 Sum_probs=12.0
Q ss_pred CCCcccHHHHHHH
Q 044489 144 CNHYFHAICIDEW 156 (207)
Q Consensus 144 C~H~FH~~CI~~W 156 (207)
.++..|.+|++.|
T Consensus 40 ~~~~MH~~CF~~w 52 (107)
T PF15353_consen 40 FGQYMHRECFEKW 52 (107)
T ss_pred CCCchHHHHHHHH
Confidence 5789999999999
No 244
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=30.11 E-value=25 Score=22.86 Aligned_cols=11 Identities=36% Similarity=0.960 Sum_probs=9.2
Q ss_pred CCCccccCcCC
Q 044489 161 ATCPLCRNSRE 171 (207)
Q Consensus 161 ~~CP~CR~~~~ 171 (207)
..||+|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 46999999974
No 245
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=29.83 E-value=43 Score=23.97 Aligned_cols=32 Identities=22% Similarity=0.220 Sum_probs=26.2
Q ss_pred cccccCccCCCCCceeecCCCCCcccHHHHHHHh
Q 044489 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWL 157 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl 157 (207)
.|.||-+++..|+....+.+ -..|.+|+..=.
T Consensus 4 kC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~ 35 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKK--GPVHYECFREKA 35 (101)
T ss_pred EEEecCCeeeecceEEEecC--CcEeHHHHHHHH
Confidence 69999999999998777764 567999987644
No 246
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=29.24 E-value=32 Score=26.42 Aligned_cols=8 Identities=25% Similarity=0.555 Sum_probs=4.9
Q ss_pred CcccccCcc
Q 044489 123 STCPICLCE 131 (207)
Q Consensus 123 ~~C~ICL~~ 131 (207)
.-| +|.++
T Consensus 112 VGC-~c~eD 119 (153)
T KOG3352|consen 112 VGC-GCEED 119 (153)
T ss_pred Eee-cccCC
Confidence 346 77665
No 247
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.01 E-value=1.3e+02 Score=20.10 Aligned_cols=9 Identities=11% Similarity=0.242 Sum_probs=4.3
Q ss_pred CCCHHHHhh
Q 044489 97 GLDKPTIES 105 (207)
Q Consensus 97 ~~~~~~i~~ 105 (207)
+++++.++.
T Consensus 38 pine~~iR~ 46 (71)
T COG3763 38 PINEEMIRM 46 (71)
T ss_pred CCCHHHHHH
Confidence 445555543
No 248
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=28.72 E-value=33 Score=26.82 Aligned_cols=25 Identities=20% Similarity=0.595 Sum_probs=14.5
Q ss_pred eeecCCCCCcccHHHHHHHhhcCCCCccccCc
Q 044489 138 LRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169 (207)
Q Consensus 138 v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 169 (207)
+-+.+.|||.+-. ..-..||+|..+
T Consensus 134 ~~vC~vCGy~~~g-------e~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEG-------EAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccC-------CCCCcCCCCCCh
Confidence 4455567776321 234479999764
No 249
>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=28.65 E-value=1.3e+02 Score=22.53 Aligned_cols=22 Identities=18% Similarity=0.327 Sum_probs=10.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHh
Q 044489 45 IVIGVGIPGLLCIIGLGCYLCG 66 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~~~~ 66 (207)
|++.+++..++.+-+++.++..
T Consensus 47 IL~vmgfFgff~~gImlsyvRS 68 (129)
T PF02060_consen 47 ILVVMGFFGFFTVGIMLSYVRS 68 (129)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5555554444444444444444
No 250
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=28.61 E-value=21 Score=19.63 Aligned_cols=24 Identities=38% Similarity=0.898 Sum_probs=8.5
Q ss_pred cccccCccCCCCC-ceeecCCCCCc
Q 044489 124 TCPICLCEYHPKE-TLRSIPKCNHY 147 (207)
Q Consensus 124 ~C~ICL~~~~~~~-~v~~lp~C~H~ 147 (207)
.|+.|-+++.-.| .+-+-|.|+|-
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----EE-SSSEEETTTTEE
T ss_pred CCCCCCCcceeccCCEEeCCccccc
Confidence 4777777654433 33345556664
No 251
>PHA03265 envelope glycoprotein D; Provisional
Probab=28.00 E-value=35 Score=29.99 Aligned_cols=25 Identities=44% Similarity=0.906 Sum_probs=12.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhh
Q 044489 43 YGIVIGVGIPGLLCIIGLGCYLCGRF 68 (207)
Q Consensus 43 y~iil~i~i~~~i~~i~i~~~~~~~~ 68 (207)
-+++++.++.-+ ++++.++|++.|+
T Consensus 350 ~g~~ig~~i~gl-v~vg~il~~~~rr 374 (402)
T PHA03265 350 VGISVGLGIAGL-VLVGVILYVCLRR 374 (402)
T ss_pred cceEEccchhhh-hhhhHHHHHHhhh
Confidence 346666666444 4444445555543
No 252
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=27.93 E-value=43 Score=22.67 Aligned_cols=33 Identities=24% Similarity=0.469 Sum_probs=21.2
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHH
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDE 155 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~ 155 (207)
...|.+|-......-... .++|.-.||..|-..
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 468999986522221222 335999999999654
No 253
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=27.33 E-value=64 Score=25.13 Aligned_cols=17 Identities=24% Similarity=0.509 Sum_probs=7.3
Q ss_pred hhHHHHHHHHHHHHHHHH
Q 044489 45 IVIGVGIPGLLCIIGLGC 62 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~ 62 (207)
|+++++++ +++++++++
T Consensus 84 vi~~Vi~I-v~~Iv~~~C 100 (179)
T PF13908_consen 84 VICGVIAI-VVLIVCFCC 100 (179)
T ss_pred hhhHHHHH-HHhHhhhee
Confidence 44444443 444444443
No 254
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=27.28 E-value=31 Score=26.44 Aligned_cols=19 Identities=26% Similarity=0.310 Sum_probs=7.7
Q ss_pred hhccccccccCCCCcccch
Q 044489 25 FYLLNAAFCIQGLPRVARY 43 (207)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~y 43 (207)
|+..+|.-.......++.|
T Consensus 2 FYsy~Yl~~q~~~~~~~~~ 20 (149)
T PF11694_consen 2 FYSYDYLQSQQSQNDYLRY 20 (149)
T ss_pred ccchHHHHHhhhHHHHHHH
Confidence 3444553333333333334
No 255
>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=27.19 E-value=8.5 Score=32.63 Aligned_cols=49 Identities=24% Similarity=0.486 Sum_probs=19.6
Q ss_pred CCCCcccccCccCCCCCceeecC--CCCCcccHHHHHHHhhcCCCCccccCc
Q 044489 120 PNDSTCPICLCEYHPKETLRSIP--KCNHYFHAICIDEWLKINATCPLCRNS 169 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp--~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 169 (207)
+....|+||=+.-..+. ++... .=.|.+|.-|=..|--.+..||.|-..
T Consensus 170 w~~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 34579999987521111 10000 013556667778887777889999665
No 256
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=27.05 E-value=26 Score=22.11 Aligned_cols=15 Identities=27% Similarity=0.767 Sum_probs=11.5
Q ss_pred CCccccCcCCCCCCC
Q 044489 162 TCPLCRNSRENSSVV 176 (207)
Q Consensus 162 ~CP~CR~~~~~~~~~ 176 (207)
.|.+||+++.....+
T Consensus 3 ~CvVCKqpi~~a~~v 17 (54)
T PF10886_consen 3 ICVVCKQPIDDALVV 17 (54)
T ss_pred eeeeeCCccCcceEE
Confidence 589999999776444
No 257
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=26.99 E-value=18 Score=20.67 Aligned_cols=26 Identities=31% Similarity=0.654 Sum_probs=14.0
Q ss_pred CCCCcccHHHH-HHHhhcCCCCccccCcC
Q 044489 143 KCNHYFHAICI-DEWLKINATCPLCRNSR 170 (207)
Q Consensus 143 ~C~H~FH~~CI-~~Wl~~~~~CP~CR~~~ 170 (207)
+|||.|-..-- .. .....||.|..++
T Consensus 10 ~Cg~~fe~~~~~~~--~~~~~CP~Cg~~~ 36 (41)
T smart00834 10 DCGHTFEVLQKISD--DPLATCPECGGDV 36 (41)
T ss_pred CCCCEEEEEEecCC--CCCCCCCCCCCcc
Confidence 57776643110 00 2344699998754
No 258
>TIGR03521 GldG gliding-associated putative ABC transporter substrate-binding component GldG. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldG is a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldG abolish the gliding phenotype. GldG, along with GldA and GldF are believed to compose an ABC transporter and are observed as an operon. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.
Probab=26.89 E-value=63 Score=30.11 Aligned_cols=15 Identities=13% Similarity=0.417 Sum_probs=9.5
Q ss_pred hhhhhhhhhcCCCee
Q 044489 2 LVKQLGWQRRADGIF 16 (207)
Q Consensus 2 ~~~~~~~y~~~~~~~ 16 (207)
+|+.+.|-.++.+..
T Consensus 486 ~lN~vd~L~~~~~li 500 (552)
T TIGR03521 486 LLNAVNYLLDDTGLI 500 (552)
T ss_pred HHHHHHHhcCCchhh
Confidence 566777777766443
No 259
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=26.79 E-value=59 Score=24.59 Aligned_cols=15 Identities=33% Similarity=0.722 Sum_probs=11.2
Q ss_pred CCCCccccCcCCCCC
Q 044489 160 NATCPLCRNSRENSS 174 (207)
Q Consensus 160 ~~~CP~CR~~~~~~~ 174 (207)
...||.|...+...+
T Consensus 123 ~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 123 TFTCPRCGEELEEDD 137 (147)
T ss_pred cEECCCCCCEEEEcC
Confidence 367999999985543
No 260
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=26.22 E-value=92 Score=23.80 Aligned_cols=28 Identities=14% Similarity=0.167 Sum_probs=13.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhhhh
Q 044489 43 YGIVIGVGIPGLLCIIGLGCYLCGRFRA 70 (207)
Q Consensus 43 y~iil~i~i~~~i~~i~i~~~~~~~~r~ 70 (207)
|+.++..++.++|+++++..|++.....
T Consensus 8 ~~~~~~~~i~Flil~~ll~~~l~~pi~~ 35 (164)
T PRK14471 8 FGLFFWQTILFLILLLLLAKFAWKPILG 35 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 3344444444555555555555554433
No 261
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=25.94 E-value=1.3e+02 Score=18.70 Aligned_cols=22 Identities=32% Similarity=0.588 Sum_probs=11.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHhh
Q 044489 46 VIGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 46 il~i~i~~~i~~i~i~~~~~~~ 67 (207)
+-+.++..++++++|+.+...+
T Consensus 16 igGLi~A~vlfi~Gi~iils~k 37 (50)
T PF02038_consen 16 IGGLIFAGVLFILGILIILSGK 37 (50)
T ss_dssp HHHHHHHHHHHHHHHHHHCTTH
T ss_pred ccchHHHHHHHHHHHHHHHcCc
Confidence 3445555555555555554443
No 262
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=25.84 E-value=36 Score=28.22 Aligned_cols=52 Identities=27% Similarity=0.428 Sum_probs=35.7
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhc--CCCCcc--ccCcCCCCCCC
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKI--NATCPL--CRNSRENSSVV 176 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~--~~~CP~--CR~~~~~~~~~ 176 (207)
+..|+|-+..+..+- ...+|+|.|-.+=|...|+. ...||. |-+.+..+..+
T Consensus 189 ~nrCpitl~p~~~pi---ls~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~~~~v 244 (275)
T COG5627 189 SNRCPITLNPDFYPI---LSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVVDPYV 244 (275)
T ss_pred cccCCcccCcchhHH---HHhhhcccccHHHHHHHhcCCceeecchhhcchheeccchh
Confidence 568999887655442 22369999999999999974 445774 65555544444
No 263
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.66 E-value=70 Score=22.65 Aligned_cols=35 Identities=14% Similarity=0.237 Sum_probs=27.9
Q ss_pred CCcccccCccCCCCCceeecCCCCCcccHHHHHHHhh
Q 044489 122 DSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLK 158 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~ 158 (207)
...|.||-+....++...-++ .-..|.+|+..=.+
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHh
Confidence 458999999999999877665 45679999987543
No 264
>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=25.57 E-value=87 Score=24.44 Aligned_cols=18 Identities=6% Similarity=-0.031 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 044489 50 GIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 50 ~i~~~i~~i~i~~~~~~~ 67 (207)
.+++.++.+++++|+.+.
T Consensus 99 ~Vl~g~s~l~i~yfvir~ 116 (163)
T PF06679_consen 99 YVLVGLSALAILYFVIRT 116 (163)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333444444444444443
No 265
>PRK11901 hypothetical protein; Reviewed
Probab=24.70 E-value=71 Score=27.75 Aligned_cols=18 Identities=39% Similarity=0.444 Sum_probs=11.0
Q ss_pred hhHHHHHHHHHHHHHHHH
Q 044489 45 IVIGVGIPGLLCIIGLGC 62 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~ 62 (207)
+.|||||++++++|+-+.
T Consensus 38 ~MiGiGilVLlLLIi~Ig 55 (327)
T PRK11901 38 MMIGIGILVLLLLIIAIG 55 (327)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 667777766665554443
No 266
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=24.62 E-value=82 Score=30.75 Aligned_cols=21 Identities=14% Similarity=0.235 Sum_probs=9.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHh
Q 044489 46 VIGVGIPGLLCIIGLGCYLCG 66 (207)
Q Consensus 46 il~i~i~~~i~~i~i~~~~~~ 66 (207)
|++..++++++++++++++|+
T Consensus 278 ILG~~~livl~lL~vLl~yCr 298 (807)
T PF10577_consen 278 ILGGTALIVLILLCVLLCYCR 298 (807)
T ss_pred HHHHHHHHHHHHHHHHHHhhh
Confidence 333334444444444444443
No 267
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=24.59 E-value=36 Score=19.42 Aligned_cols=29 Identities=24% Similarity=0.540 Sum_probs=16.8
Q ss_pred ecCCCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489 140 SIPKCNHYFHAICIDEWLKINATCPLCRNSR 170 (207)
Q Consensus 140 ~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~ 170 (207)
+-++||++||..=--. +....|..|-.++
T Consensus 3 ~C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L 31 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPP--KVEGVCDNCGGEL 31 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEBE
T ss_pred CcCCCCCccccccCCC--CCCCccCCCCCee
Confidence 3457999999421110 3345788886654
No 268
>PF14851 FAM176: FAM176 family
Probab=24.19 E-value=90 Score=24.09 Aligned_cols=15 Identities=27% Similarity=0.171 Sum_probs=9.7
Q ss_pred ccccccCCCCcccch
Q 044489 29 NAAFCIQGLPRVARY 43 (207)
Q Consensus 29 ~~~~~~~~~~~~~~y 43 (207)
.|.|+..+.-+.++|
T Consensus 11 aya~I~~~PE~~aLY 25 (153)
T PF14851_consen 11 AYAHIRDNPERFALY 25 (153)
T ss_pred HHHHHHhChHHHHHH
Confidence 455666666666777
No 269
>PF15065 NCU-G1: Lysosomal transcription factor, NCU-G1
Probab=24.19 E-value=45 Score=29.33 Aligned_cols=19 Identities=37% Similarity=0.641 Sum_probs=8.4
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 044489 45 IVIGVGIPGLLCIIGLGCY 63 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~ 63 (207)
|++++|+.+++++++.++.
T Consensus 323 ~~vgLG~P~l~li~Ggl~v 341 (350)
T PF15065_consen 323 MAVGLGVPLLLLILGGLYV 341 (350)
T ss_pred HHHHhhHHHHHHHHhhheE
Confidence 3344444444444444433
No 270
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=23.92 E-value=68 Score=23.98 Aligned_cols=30 Identities=17% Similarity=0.186 Sum_probs=16.6
Q ss_pred ecCCCCCcccHHHHHHHh-hcCCCCccccCcCCCCCC
Q 044489 140 SIPKCNHYFHAICIDEWL-KINATCPLCRNSRENSSV 175 (207)
Q Consensus 140 ~lp~C~H~FH~~CI~~Wl-~~~~~CP~CR~~~~~~~~ 175 (207)
+.|+||-.|-- | +.-..||.|-..+.....
T Consensus 11 ~Cp~cg~kFYD------Lnk~p~vcP~cg~~~~~~~~ 41 (129)
T TIGR02300 11 ICPNTGSKFYD------LNRRPAVSPYTGEQFPPEEA 41 (129)
T ss_pred cCCCcCccccc------cCCCCccCCCcCCccCcchh
Confidence 34456655432 3 333468888777765533
No 271
>PHA02610 uvsY.-2 hypothetical protein; Provisional
Probab=23.89 E-value=30 Score=21.58 Aligned_cols=16 Identities=31% Similarity=0.700 Sum_probs=11.3
Q ss_pred CCCccccCcCCCCCCC
Q 044489 161 ATCPLCRNSRENSSVV 176 (207)
Q Consensus 161 ~~CP~CR~~~~~~~~~ 176 (207)
..|+.||+|+.....+
T Consensus 2 ~iCvvCK~Pi~~al~v 17 (53)
T PHA02610 2 KICVVCKQPIEKALVV 17 (53)
T ss_pred ceeeeeCCchhhceEE
Confidence 3599999998554433
No 272
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.77 E-value=24 Score=31.84 Aligned_cols=38 Identities=18% Similarity=0.432 Sum_probs=25.9
Q ss_pred CCcccccCccCCCCCce----eecCCCCCcccHHHHHHHhhc
Q 044489 122 DSTCPICLCEYHPKETL----RSIPKCNHYFHAICIDEWLKI 159 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~~v----~~lp~C~H~FH~~CI~~Wl~~ 159 (207)
...|+.|....+..... .....|.|.||.-|+..|-..
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 34599998877666521 112239999999998888644
No 273
>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=23.71 E-value=36 Score=25.40 Aligned_cols=13 Identities=15% Similarity=-0.028 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHH
Q 044489 43 YGIVIGVGIPGLL 55 (207)
Q Consensus 43 y~iil~i~i~~~i 55 (207)
+.|..++..++++
T Consensus 79 ~pi~~sal~v~lV 91 (129)
T PF12191_consen 79 WPILGSALSVVLV 91 (129)
T ss_dssp -------------
T ss_pred hhhhhhHHHHHHH
Confidence 4343344333333
No 274
>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=23.62 E-value=1.2e+02 Score=21.50 Aligned_cols=24 Identities=21% Similarity=0.119 Sum_probs=13.5
Q ss_pred cccc-hhhhHHHHHHHHHHHHHHHH
Q 044489 39 RVAR-YGIVIGVGIPGLLCIIGLGC 62 (207)
Q Consensus 39 ~~~~-y~iil~i~i~~~i~~i~i~~ 62 (207)
..|. ++|++++.++++++.+++.-
T Consensus 47 h~WRN~GIli~f~i~f~~~~~~~~e 71 (103)
T PF06422_consen 47 HRWRNFGILIAFWIFFIVLTLLATE 71 (103)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHH
Confidence 3455 66777766655555544443
No 275
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=23.52 E-value=28 Score=36.17 Aligned_cols=49 Identities=24% Similarity=0.540 Sum_probs=37.7
Q ss_pred CCCcccccCccCCCCCceeecCCCCCcccHHHHHHHhhcC----CCCccccCcC
Q 044489 121 NDSTCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKIN----ATCPLCRNSR 170 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~----~~CP~CR~~~ 170 (207)
....|.+|....+..+.+.-. .|.-.||..|+..=+..- -.||-||+.-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 367899999988776555444 388899999999887543 3799999876
No 276
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=23.44 E-value=23 Score=22.60 Aligned_cols=11 Identities=36% Similarity=0.960 Sum_probs=5.8
Q ss_pred CCccccCcCCC
Q 044489 162 TCPLCRNSREN 172 (207)
Q Consensus 162 ~CP~CR~~~~~ 172 (207)
.||+|++++..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 69999998755
No 277
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=23.37 E-value=49 Score=21.24 Aligned_cols=15 Identities=20% Similarity=0.605 Sum_probs=11.6
Q ss_pred cCCCCccccCcCCCC
Q 044489 159 INATCPLCRNSRENS 173 (207)
Q Consensus 159 ~~~~CP~CR~~~~~~ 173 (207)
.|+-||.|-++++++
T Consensus 2 ~HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPD 16 (59)
T ss_pred CCCcCCcCCCcCCcc
Confidence 467799998888764
No 278
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=23.31 E-value=29 Score=29.61 Aligned_cols=57 Identities=23% Similarity=0.538 Sum_probs=36.3
Q ss_pred CCCCCCCCcccccCc-cCCCCCceeecCCCCCcccHHHHHHHh--h---c--CCCCccccCcCCC
Q 044489 116 RLPKPNDSTCPICLC-EYHPKETLRSIPKCNHYFHAICIDEWL--K---I--NATCPLCRNSREN 172 (207)
Q Consensus 116 ~~~~~~~~~C~ICL~-~~~~~~~v~~lp~C~H~FH~~CI~~Wl--~---~--~~~CP~CR~~~~~ 172 (207)
..++.+..+|.+|-- +|..-+.--..-+||++||..|=..=+ . . ...|+.|-..+..
T Consensus 162 W~PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 162 WLPDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELEK 226 (288)
T ss_pred ccCcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHhc
Confidence 344556789999988 664443211122699999999865411 1 1 1269999888765
No 279
>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=22.89 E-value=99 Score=26.42 Aligned_cols=10 Identities=10% Similarity=-0.077 Sum_probs=3.5
Q ss_pred HHHHHHHHHH
Q 044489 53 GLLCIIGLGC 62 (207)
Q Consensus 53 ~~i~~i~i~~ 62 (207)
+++.+.+++.
T Consensus 267 vllil~vvli 276 (295)
T TIGR01478 267 VLIILTVVLI 276 (295)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 280
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=22.86 E-value=66 Score=31.55 Aligned_cols=35 Identities=20% Similarity=0.492 Sum_probs=24.2
Q ss_pred CcccccCccCCCCCc---eee--cCCCCCcccHHHHHHHh
Q 044489 123 STCPICLCEYHPKET---LRS--IPKCNHYFHAICIDEWL 157 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~---v~~--lp~C~H~FH~~CI~~Wl 157 (207)
..|..|-..|..-.+ .|. ..+||++||..|-+...
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 569999999953211 121 22799999999987654
No 281
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=22.71 E-value=1.1e+02 Score=24.96 Aligned_cols=26 Identities=19% Similarity=0.189 Sum_probs=16.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhh
Q 044489 43 YGIVIGVGIPGLLCIIGLGCYLCGRF 68 (207)
Q Consensus 43 y~iil~i~i~~~i~~i~i~~~~~~~~ 68 (207)
+.+++-+++++++++|+.++|+-...
T Consensus 128 ~amLIClIIIAVLfLICT~LfLSTVV 153 (227)
T PF05399_consen 128 MAMLICLIIIAVLFLICTLLFLSTVV 153 (227)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44666666666666666666666554
No 282
>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=22.56 E-value=1.9e+02 Score=17.59 Aligned_cols=19 Identities=16% Similarity=0.319 Sum_probs=7.2
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 044489 46 VIGVGIPGLLCIIGLGCYL 64 (207)
Q Consensus 46 il~i~i~~~i~~i~i~~~~ 64 (207)
.+++++++-+++.++..++
T Consensus 10 ~~~F~~lIC~Fl~~~~~F~ 28 (54)
T PF06716_consen 10 LLAFGFLICLFLFCLVVFI 28 (54)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344433333333333333
No 283
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=22.55 E-value=59 Score=26.99 Aligned_cols=25 Identities=32% Similarity=0.575 Sum_probs=17.6
Q ss_pred CcccccCccCCCCCceeecCCCCCcc
Q 044489 123 STCPICLCEYHPKETLRSIPKCNHYF 148 (207)
Q Consensus 123 ~~C~ICL~~~~~~~~v~~lp~C~H~F 148 (207)
..|++|-+.+...+.--... .+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 46999999987655544444 57887
No 284
>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein. gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.
Probab=22.42 E-value=29 Score=31.46 Aligned_cols=14 Identities=21% Similarity=0.634 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHh
Q 044489 53 GLLCIIGLGCYLCG 66 (207)
Q Consensus 53 ~~i~~i~i~~~~~~ 66 (207)
+++++++++++++.
T Consensus 363 vlivVv~viv~vc~ 376 (439)
T PF02480_consen 363 VLIVVVGVIVWVCL 376 (439)
T ss_dssp --------------
T ss_pred HHHHHHHHHhheee
Confidence 33333333333333
No 285
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=22.31 E-value=32 Score=20.87 Aligned_cols=21 Identities=43% Similarity=0.803 Sum_probs=13.8
Q ss_pred CCCCcccHHHHHHHhh----cCCCCccccC
Q 044489 143 KCNHYFHAICIDEWLK----INATCPLCRN 168 (207)
Q Consensus 143 ~C~H~FH~~CI~~Wl~----~~~~CP~CR~ 168 (207)
+|||.|-. |.. ....||.|..
T Consensus 10 ~Cg~~fe~-----~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 10 ACGHRFEV-----LQKMSDDPLATCPECGG 34 (52)
T ss_pred CCCCEeEE-----EEecCCCCCCCCCCCCC
Confidence 58888774 321 2336999987
No 286
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=22.28 E-value=92 Score=20.68 Aligned_cols=13 Identities=46% Similarity=0.692 Sum_probs=7.1
Q ss_pred hhhhHHHHHHHHH
Q 044489 43 YGIVIGVGIPGLL 55 (207)
Q Consensus 43 y~iil~i~i~~~i 55 (207)
|++++++++++++
T Consensus 51 YG~v~Glii~~~~ 63 (70)
T PF04210_consen 51 YGLVIGLIIFIIY 63 (70)
T ss_pred HHHHHHHHHHHHH
Confidence 6666666544443
No 287
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=22.15 E-value=93 Score=28.26 Aligned_cols=57 Identities=16% Similarity=0.202 Sum_probs=43.0
Q ss_pred cccccCccCCCCCceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCCCCCCCcccc
Q 044489 124 TCPICLCEYHPKETLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSSVVTPSSSIK 183 (207)
Q Consensus 124 ~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~~~~~~~~~~ 183 (207)
.|+|--+.- .+-.+.|.-||+|-+.=|++.+..+.+||+=.+++....+++......
T Consensus 2 ~CaISgEvP---~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eelV~Ik~~~~ 58 (506)
T KOG0289|consen 2 VCAISGEVP---EEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEELVEIKVPAQ 58 (506)
T ss_pred eecccCCCC---CCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHeeecccccc
Confidence 366655442 222355678999999999999999999999999998888876544444
No 288
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=22.12 E-value=1.4e+02 Score=17.90 Aligned_cols=11 Identities=18% Similarity=0.407 Sum_probs=4.4
Q ss_pred HHHHHHHHHHH
Q 044489 55 LCIIGLGCYLC 65 (207)
Q Consensus 55 i~~i~i~~~~~ 65 (207)
+++++++.+.+
T Consensus 20 ~~F~gi~~w~~ 30 (49)
T PF05545_consen 20 VFFIGIVIWAY 30 (49)
T ss_pred HHHHHHHHHHH
Confidence 33334444443
No 289
>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=22.02 E-value=46 Score=30.58 Aligned_cols=15 Identities=40% Similarity=0.738 Sum_probs=9.9
Q ss_pred CCcccccCccCCCCC
Q 044489 122 DSTCPICLCEYHPKE 136 (207)
Q Consensus 122 ~~~C~ICL~~~~~~~ 136 (207)
..-|+-||+++...+
T Consensus 26 ~~yCp~CL~~~p~~e 40 (483)
T PF05502_consen 26 SYYCPNCLFEVPSSE 40 (483)
T ss_pred eeECccccccCChhh
Confidence 456888887775444
No 290
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=22.00 E-value=1.5e+02 Score=20.12 Aligned_cols=16 Identities=44% Similarity=0.706 Sum_probs=8.4
Q ss_pred hhhhHHHHHHHHHHHH
Q 044489 43 YGIVIGVGIPGLLCII 58 (207)
Q Consensus 43 y~iil~i~i~~~i~~i 58 (207)
||+++++.++++...+
T Consensus 54 YG~viGlli~~i~~~~ 69 (77)
T PRK01026 54 YGLVIGLLIVLVYIIL 69 (77)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 6666666554444333
No 291
>COG5319 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.73 E-value=15 Score=27.45 Aligned_cols=22 Identities=27% Similarity=0.706 Sum_probs=14.2
Q ss_pred CCccccCcCCCCCCCCCCcccc
Q 044489 162 TCPLCRNSRENSSVVTPSSSIK 183 (207)
Q Consensus 162 ~CP~CR~~~~~~~~~~~~~~~~ 183 (207)
+||.|-+.-..+.+-.|..+..
T Consensus 34 ~CPvCgs~~VsK~lmAPavSta 55 (142)
T COG5319 34 TCPVCGSTEVSKLLMAPAVSTA 55 (142)
T ss_pred eCCCCCcHHHHHHhcccccchh
Confidence 7999988755555555544443
No 292
>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=21.71 E-value=98 Score=26.37 Aligned_cols=23 Identities=9% Similarity=0.002 Sum_probs=15.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhh
Q 044489 45 IVIGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~~~~~ 67 (207)
+++-|++.+++..++++.++.+.
T Consensus 271 ~~vPIaVG~~La~lvlivLiaYl 293 (306)
T PF01299_consen 271 DLVPIAVGAALAGLVLIVLIAYL 293 (306)
T ss_pred chHHHHHHHHHHHHHHHHHHhhe
Confidence 67777777777766666655554
No 293
>PF11353 DUF3153: Protein of unknown function (DUF3153); InterPro: IPR021499 This family of proteins with unknown function appear to be restricted to Cyanobacteria. Some members are annotated as membrane proteins however this cannot be confirmed.
Probab=21.40 E-value=1.1e+02 Score=24.46 Aligned_cols=21 Identities=29% Similarity=0.423 Sum_probs=11.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHh
Q 044489 46 VIGVGIPGLLCIIGLGCYLCG 66 (207)
Q Consensus 46 il~i~i~~~i~~i~i~~~~~~ 66 (207)
.+++|.+++++++++.+++.+
T Consensus 184 ~lgiG~v~I~~l~~~~~~l~~ 204 (209)
T PF11353_consen 184 PLGIGTVLIVLLILLGFLLRR 204 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555444
No 294
>PF14914 LRRC37AB_C: LRRC37A/B like protein 1 C-terminal domain
Probab=21.31 E-value=2.1e+02 Score=21.96 Aligned_cols=12 Identities=0% Similarity=0.426 Sum_probs=5.8
Q ss_pred hhHHHHHHHHHH
Q 044489 45 IVIGVGIPGLLC 56 (207)
Q Consensus 45 iil~i~i~~~i~ 56 (207)
+++++.+.+++.
T Consensus 121 lilaisvtvv~~ 132 (154)
T PF14914_consen 121 LILAISVTVVVM 132 (154)
T ss_pred hHHHHHHHHHHH
Confidence 555555444433
No 295
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=21.21 E-value=1.3e+02 Score=23.12 Aligned_cols=12 Identities=17% Similarity=0.307 Sum_probs=7.5
Q ss_pred CCCCcccccCcc
Q 044489 120 PNDSTCPICLCE 131 (207)
Q Consensus 120 ~~~~~C~ICL~~ 131 (207)
.++..-+++|-+
T Consensus 95 Gg~LSFslAlLD 106 (151)
T PF14584_consen 95 GGDLSFSLALLD 106 (151)
T ss_pred cccceeeeEEEe
Confidence 345667777655
No 296
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=21.11 E-value=42 Score=21.65 Aligned_cols=10 Identities=30% Similarity=1.079 Sum_probs=8.4
Q ss_pred CCccccCcCC
Q 044489 162 TCPLCRNSRE 171 (207)
Q Consensus 162 ~CP~CR~~~~ 171 (207)
.||.||.++.
T Consensus 10 aCP~~kg~L~ 19 (60)
T COG2835 10 ACPVCKGPLV 19 (60)
T ss_pred eccCcCCcce
Confidence 5999999963
No 297
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=21.03 E-value=1e+02 Score=20.89 Aligned_cols=24 Identities=25% Similarity=0.578 Sum_probs=19.7
Q ss_pred CCCCCceeecCCCCCcccHHHHHHH
Q 044489 132 YHPKETLRSIPKCNHYFHAICIDEW 156 (207)
Q Consensus 132 ~~~~~~v~~lp~C~H~FH~~CI~~W 156 (207)
...++.+.+.|-|.|.| ..|-.++
T Consensus 41 ~~~G~~v~l~~GCDkt~-~tC~~kF 64 (80)
T PF09356_consen 41 LAVGDTVTLYPGCDKTF-ATCRAKF 64 (80)
T ss_pred CCCCCEEEEEeCCCCCH-HHHHHHh
Confidence 55688899999999987 7887775
No 298
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=21.03 E-value=27 Score=24.48 Aligned_cols=24 Identities=29% Similarity=0.661 Sum_probs=15.0
Q ss_pred CCCCcccHHHHHHHhhcCCCCccccCcC
Q 044489 143 KCNHYFHAICIDEWLKINATCPLCRNSR 170 (207)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CP~CR~~~ 170 (207)
+||-.|-.+= ++.-+.||.|++++
T Consensus 63 kCGfef~~~~----ik~pSRCP~CKSE~ 86 (97)
T COG3357 63 KCGFEFRDDK----IKKPSRCPKCKSEW 86 (97)
T ss_pred ccCccccccc----cCCcccCCcchhhc
Confidence 4666665421 23345799999876
No 299
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.98 E-value=1.1e+02 Score=20.63 Aligned_cols=47 Identities=21% Similarity=0.468 Sum_probs=28.5
Q ss_pred ccccCccCCCCC-ceeecCCCCCcccHHHHHHHhhcCCCCccccCcCCCCC
Q 044489 125 CPICLCEYHPKE-TLRSIPKCNHYFHAICIDEWLKINATCPLCRNSRENSS 174 (207)
Q Consensus 125 C~ICL~~~~~~~-~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~~~~~~ 174 (207)
|--|=.++-.+. ..++.. =.|.||.+|.+.- -+..||.|--++....
T Consensus 8 CECCDrDLpp~s~dA~ICt-fEcTFCadCae~~--l~g~CPnCGGelv~RP 55 (84)
T COG3813 8 CECCDRDLPPDSTDARICT-FECTFCADCAENR--LHGLCPNCGGELVARP 55 (84)
T ss_pred CcccCCCCCCCCCceeEEE-EeeehhHhHHHHh--hcCcCCCCCchhhcCc
Confidence 444544543333 233322 4589999999873 3678999977764433
No 300
>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=20.82 E-value=2.6e+02 Score=18.33 Aligned_cols=6 Identities=67% Similarity=1.437 Sum_probs=2.3
Q ss_pred hHHHHH
Q 044489 46 VIGVGI 51 (207)
Q Consensus 46 il~i~i 51 (207)
++|.++
T Consensus 9 i~Gm~i 14 (79)
T PF04277_consen 9 IIGMGI 14 (79)
T ss_pred HHHHHH
Confidence 333333
No 301
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.72 E-value=87 Score=26.19 Aligned_cols=31 Identities=23% Similarity=0.378 Sum_probs=19.9
Q ss_pred CCCCcccccCccCCCCCceeecCCCCCcccHHHH
Q 044489 120 PNDSTCPICLCEYHPKETLRSIPKCNHYFHAICI 153 (207)
Q Consensus 120 ~~~~~C~ICL~~~~~~~~v~~lp~C~H~FH~~CI 153 (207)
.....|+.|-. .....-..|.|||.+|.|=-
T Consensus 307 ~tS~~C~~cg~---~~~r~~~C~~cg~~~~rD~n 337 (364)
T COG0675 307 YTSKTCPCCGH---LSGRLFKCPRCGFVHDRDVN 337 (364)
T ss_pred CCcccccccCC---ccceeEECCCCCCeehhhHH
Confidence 34568999987 22333345568888887643
No 302
>PF10164 DUF2367: Uncharacterized conserved protein (DUF2367); InterPro: IPR019317 This is a highly conserved set of proteins which contains three pairs of cysteine residues within a length of 42 amino acids and is rich in proline residues towards the N terminus. It includes a membrane protein that has been found to be highly expressed in the mouse brain and consequently, several members have been assigned as brain protein i3 (Bri3). Their function is unknown.
Probab=20.63 E-value=1.2e+02 Score=21.52 Aligned_cols=28 Identities=29% Similarity=0.411 Sum_probs=18.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 044489 45 IVIGVGIPGLLCIIGLGCYLCGRFRACY 72 (207)
Q Consensus 45 iil~i~i~~~i~~i~i~~~~~~~~r~~~ 72 (207)
-.+++...++++-++|++.+..|.++|.
T Consensus 65 t~~Gi~~AI~fFPiGilcc~~~r~~rC~ 92 (98)
T PF10164_consen 65 TCCGILCAIFFFPIGILCCLAMRERRCS 92 (98)
T ss_pred cHHHHHHHHHHHhhHHHHhhhcCccccC
Confidence 4556666666677778777777655544
No 303
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=20.49 E-value=74 Score=20.88 Aligned_cols=21 Identities=19% Similarity=0.311 Sum_probs=12.8
Q ss_pred CcccchhhhHHHHHHHHHHHH
Q 044489 38 PRVARYGIVIGVGIPGLLCII 58 (207)
Q Consensus 38 ~~~~~y~iil~i~i~~~i~~i 58 (207)
+..|.+.+++|.++.+++.++
T Consensus 49 n~kW~~r~iiGaiI~~i~~~i 69 (71)
T PF10779_consen 49 NTKWIWRTIIGAIITAIIYLI 69 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456777777776665544443
No 304
>PF15347 PAG: Phosphoprotein associated with glycosphingolipid-enriched
Probab=20.19 E-value=2e+02 Score=25.62 Aligned_cols=33 Identities=21% Similarity=0.379 Sum_probs=21.2
Q ss_pred CCCCcccchhhhHHHHHHHHHHHHHHHHHHHhh
Q 044489 35 QGLPRVARYGIVIGVGIPGLLCIIGLGCYLCGR 67 (207)
Q Consensus 35 ~~~~~~~~y~iil~i~i~~~i~~i~i~~~~~~~ 67 (207)
.+.....+|+-+.++..+++|.++++++--|.|
T Consensus 10 ~gq~qivlwgsLaav~~f~lis~LifLCsSC~r 42 (428)
T PF15347_consen 10 SGQVQIVLWGSLAAVTTFLLISFLIFLCSSCDR 42 (428)
T ss_pred CCceeEEeehHHHHHHHHHHHHHHHHHhhcccc
Confidence 344555667777777777777766666655543
No 305
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=20.19 E-value=1e+02 Score=23.13 Aligned_cols=8 Identities=13% Similarity=0.177 Sum_probs=4.4
Q ss_pred CCCcccch
Q 044489 36 GLPRVARY 43 (207)
Q Consensus 36 ~~~~~~~y 43 (207)
.-|..+.|
T Consensus 16 wwP~a~GW 23 (146)
T PF14316_consen 16 WWPLAPGW 23 (146)
T ss_pred CCCccHHH
Confidence 34555665
No 306
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=20.12 E-value=60 Score=28.05 Aligned_cols=43 Identities=26% Similarity=0.622 Sum_probs=27.8
Q ss_pred CCCcccccCccCCCC-------CceeecCCCCCcccHHHHHHHhhcCCCCccccCc
Q 044489 121 NDSTCPICLCEYHPK-------ETLRSIPKCNHYFHAICIDEWLKINATCPLCRNS 169 (207)
Q Consensus 121 ~~~~C~ICL~~~~~~-------~~v~~lp~C~H~FH~~CI~~Wl~~~~~CP~CR~~ 169 (207)
....|++|=+.-... +..| |.+|.-|=..|--.+..||.|-..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~R------yL~CslC~teW~~~R~~C~~Cg~~ 235 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLR------YLHCNLCESEWHVVRVKCSNCEQS 235 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCce------EEEcCCCCCcccccCccCCCCCCC
Confidence 457899998763211 2233 444555777787778889999763
Done!