Query 028342
Match_columns 210
No_of_seqs 153 out of 1711
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 10:01:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028342.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028342hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.8 1.4E-20 3E-25 164.8 10.4 78 97-176 205-283 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 4.9E-17 1.1E-21 102.5 2.1 44 123-167 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.5 6E-14 1.3E-18 118.1 4.9 75 97-171 148-227 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.4 1.1E-13 2.5E-18 96.5 3.9 46 122-167 19-73 (73)
5 COG5540 RING-finger-containing 99.4 2.7E-13 5.8E-18 115.9 3.6 51 121-172 322-373 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.3 1.1E-12 2.3E-17 114.9 5.3 54 119-173 284-347 (491)
7 PF12861 zf-Apc11: Anaphase-pr 99.2 7.7E-12 1.7E-16 88.9 3.7 52 122-173 21-84 (85)
8 KOG0317 Predicted E3 ubiquitin 99.1 6.8E-11 1.5E-15 100.7 5.9 50 119-172 236-285 (293)
9 cd00162 RING RING-finger (Real 99.1 5.3E-11 1.1E-15 73.6 3.7 44 124-170 1-45 (45)
10 PF13920 zf-C3HC4_3: Zinc fing 99.1 4.1E-11 8.9E-16 77.4 3.2 46 122-171 2-48 (50)
11 PLN03208 E3 ubiquitin-protein 99.1 1E-10 2.3E-15 95.1 5.7 48 121-172 17-80 (193)
12 COG5194 APC11 Component of SCF 99.1 3.9E-11 8.5E-16 83.5 2.7 52 123-174 21-84 (88)
13 PF13923 zf-C3HC4_2: Zinc fing 99.1 1.2E-10 2.7E-15 71.3 3.1 39 125-166 1-39 (39)
14 KOG0802 E3 ubiquitin ligase [P 99.0 1.9E-10 4.2E-15 107.8 2.5 54 121-175 290-345 (543)
15 KOG0823 Predicted E3 ubiquitin 98.9 8.9E-10 1.9E-14 91.4 4.8 50 120-173 45-97 (230)
16 KOG0320 Predicted E3 ubiquitin 98.9 6.1E-10 1.3E-14 88.9 3.1 60 112-173 121-180 (187)
17 KOG1493 Anaphase-promoting com 98.9 1.5E-10 3.2E-15 80.0 -0.3 51 122-172 20-82 (84)
18 PHA02926 zinc finger-like prot 98.9 9.4E-10 2E-14 90.9 3.5 51 121-171 169-230 (242)
19 PF14634 zf-RING_5: zinc-RING 98.9 1.3E-09 2.8E-14 68.5 3.4 44 124-168 1-44 (44)
20 PF00097 zf-C3HC4: Zinc finger 98.8 1.8E-09 4E-14 66.5 2.5 39 125-166 1-41 (41)
21 smart00184 RING Ring finger. E 98.8 2.9E-09 6.3E-14 63.4 3.2 38 125-166 1-39 (39)
22 KOG2930 SCF ubiquitin ligase, 98.8 2.6E-09 5.7E-14 77.9 2.2 50 123-172 47-109 (114)
23 PF15227 zf-C3HC4_4: zinc fing 98.8 4.9E-09 1.1E-13 65.3 3.2 38 125-166 1-42 (42)
24 smart00504 Ubox Modified RING 98.7 1.5E-08 3.3E-13 67.9 3.8 45 123-171 2-46 (63)
25 KOG0828 Predicted E3 ubiquitin 98.7 2.6E-08 5.6E-13 90.4 6.2 50 122-172 571-635 (636)
26 KOG1734 Predicted RING-contain 98.6 2.6E-08 5.5E-13 84.4 3.6 50 120-170 222-280 (328)
27 TIGR00599 rad18 DNA repair pro 98.6 4.1E-08 8.9E-13 88.4 3.4 48 121-172 25-72 (397)
28 smart00744 RINGv The RING-vari 98.5 1.4E-07 2.9E-12 60.8 3.2 42 124-167 1-49 (49)
29 PF11793 FANCL_C: FANCL C-term 98.4 5.1E-08 1.1E-12 67.4 0.5 52 122-173 2-68 (70)
30 COG5574 PEX10 RING-finger-cont 98.4 1.4E-07 2.9E-12 79.9 2.5 51 120-174 213-265 (271)
31 COG5219 Uncharacterized conser 98.3 2.2E-07 4.7E-12 89.9 0.5 52 120-171 1467-1523(1525)
32 PF13445 zf-RING_UBOX: RING-ty 98.2 9E-07 1.9E-11 55.4 2.9 38 125-164 1-43 (43)
33 KOG0287 Postreplication repair 98.2 5.4E-07 1.2E-11 78.7 1.3 48 123-174 24-71 (442)
34 KOG2164 Predicted E3 ubiquitin 98.2 9.7E-07 2.1E-11 80.7 3.0 48 122-173 186-238 (513)
35 PF04564 U-box: U-box domain; 98.1 3E-06 6.6E-11 58.8 3.3 47 123-173 5-52 (73)
36 KOG0827 Predicted E3 ubiquitin 98.1 1.6E-06 3.5E-11 76.9 2.1 45 123-167 5-52 (465)
37 TIGR00570 cdk7 CDK-activating 98.1 3.3E-06 7.1E-11 73.6 3.9 51 122-173 3-56 (309)
38 KOG0804 Cytoplasmic Zn-finger 98.1 1.6E-06 3.6E-11 78.1 1.8 48 121-171 174-222 (493)
39 KOG1645 RING-finger-containing 98.0 3.9E-06 8.5E-11 74.9 3.2 50 121-170 3-55 (463)
40 COG5432 RAD18 RING-finger-cont 98.0 3.5E-06 7.7E-11 72.3 2.4 48 123-174 26-73 (391)
41 KOG2177 Predicted E3 ubiquitin 98.0 2.8E-06 6.1E-11 71.4 1.7 43 121-167 12-54 (386)
42 KOG4265 Predicted E3 ubiquitin 97.9 7.8E-06 1.7E-10 72.0 3.8 54 120-177 288-342 (349)
43 KOG3970 Predicted E3 ubiquitin 97.8 8.8E-06 1.9E-10 67.6 2.3 62 112-175 40-109 (299)
44 KOG4445 Uncharacterized conser 97.7 8.2E-06 1.8E-10 70.3 0.6 53 122-175 115-190 (368)
45 KOG0825 PHD Zn-finger protein 97.7 5.8E-06 1.3E-10 78.9 -0.6 49 122-171 123-171 (1134)
46 PF14835 zf-RING_6: zf-RING of 97.7 8.2E-06 1.8E-10 55.0 0.1 49 123-176 8-56 (65)
47 KOG0311 Predicted E3 ubiquitin 97.6 6.2E-06 1.3E-10 72.5 -1.9 52 121-175 42-94 (381)
48 KOG1039 Predicted E3 ubiquitin 97.6 3.9E-05 8.4E-10 68.1 2.4 49 121-169 160-219 (344)
49 KOG4172 Predicted E3 ubiquitin 97.5 2.9E-05 6.2E-10 50.6 0.2 48 121-172 6-55 (62)
50 PF05883 Baculo_RING: Baculovi 97.5 5E-05 1.1E-09 58.5 1.5 38 122-160 26-69 (134)
51 KOG0824 Predicted E3 ubiquitin 97.3 0.00011 2.3E-09 63.6 1.8 47 122-172 7-54 (324)
52 KOG1785 Tyrosine kinase negati 97.2 0.00012 2.6E-09 65.5 1.5 52 123-178 370-423 (563)
53 KOG0978 E3 ubiquitin ligase in 97.2 9.6E-05 2.1E-09 70.7 0.6 45 123-171 644-689 (698)
54 KOG1428 Inhibitor of type V ad 97.2 0.00027 5.9E-09 71.6 3.3 66 105-171 3469-3544(3738)
55 KOG1941 Acetylcholine receptor 97.1 0.00018 3.9E-09 64.2 1.6 45 122-167 365-412 (518)
56 KOG0801 Predicted E3 ubiquitin 97.1 0.00014 3E-09 57.7 0.8 30 120-150 175-204 (205)
57 PF11789 zf-Nse: Zinc-finger o 97.1 0.00036 7.7E-09 46.2 2.0 41 122-165 11-53 (57)
58 KOG0826 Predicted E3 ubiquitin 97.0 0.0012 2.7E-08 57.7 5.7 45 120-167 298-342 (357)
59 KOG0297 TNF receptor-associate 96.9 0.0006 1.3E-08 61.8 2.8 53 120-175 19-71 (391)
60 KOG1952 Transcription factor N 96.9 0.00058 1.3E-08 66.1 2.5 52 120-171 189-247 (950)
61 KOG4159 Predicted E3 ubiquitin 96.7 0.00098 2.1E-08 60.4 2.1 48 121-172 83-130 (398)
62 PF12906 RINGv: RING-variant d 96.6 0.0014 3.1E-08 41.6 1.9 41 125-166 1-47 (47)
63 PF10367 Vps39_2: Vacuolar sor 96.5 0.0013 2.8E-08 48.2 1.3 32 121-154 77-108 (109)
64 PHA02825 LAP/PHD finger-like p 96.4 0.0037 8E-08 49.6 3.5 51 120-173 6-61 (162)
65 PHA02862 5L protein; Provision 96.3 0.0039 8.4E-08 48.7 3.0 48 122-172 2-54 (156)
66 KOG3039 Uncharacterized conser 96.1 0.0069 1.5E-07 51.3 4.0 64 122-185 221-284 (303)
67 PF14570 zf-RING_4: RING/Ubox 96.0 0.0058 1.3E-07 39.0 2.4 44 125-169 1-46 (48)
68 KOG1571 Predicted E3 ubiquitin 95.9 0.0033 7.1E-08 55.7 1.4 46 122-174 305-350 (355)
69 KOG1002 Nucleotide excision re 95.9 0.004 8.6E-08 57.9 1.9 48 121-172 535-587 (791)
70 KOG1814 Predicted E3 ubiquitin 95.9 0.0041 9E-08 56.0 1.9 45 123-168 185-237 (445)
71 KOG0827 Predicted E3 ubiquitin 95.9 0.00041 9E-09 61.9 -4.5 49 122-171 196-245 (465)
72 PHA03096 p28-like protein; Pro 95.9 0.0039 8.6E-08 54.2 1.6 46 123-168 179-231 (284)
73 PF14446 Prok-RING_1: Prokaryo 95.8 0.013 2.9E-07 38.2 3.6 35 121-155 4-38 (54)
74 PF08746 zf-RING-like: RING-li 95.8 0.0046 1E-07 38.5 1.2 41 125-166 1-43 (43)
75 KOG2660 Locus-specific chromos 95.8 0.0021 4.6E-08 56.3 -0.5 50 121-173 14-63 (331)
76 COG5236 Uncharacterized conser 95.6 0.017 3.7E-07 51.2 4.6 67 101-171 40-108 (493)
77 KOG3268 Predicted E3 ubiquitin 95.3 0.012 2.6E-07 47.6 2.3 32 143-174 189-231 (234)
78 COG5152 Uncharacterized conser 95.1 0.0079 1.7E-07 49.4 0.8 44 123-170 197-240 (259)
79 KOG2879 Predicted E3 ubiquitin 95.1 0.024 5.3E-07 48.7 3.6 49 120-171 237-287 (298)
80 KOG4739 Uncharacterized protei 94.9 0.0093 2E-07 50.2 0.8 43 124-171 5-48 (233)
81 COG5222 Uncharacterized conser 94.7 0.024 5.1E-07 49.4 2.7 43 123-168 275-318 (427)
82 KOG4692 Predicted E3 ubiquitin 94.4 0.03 6.4E-07 49.8 2.7 49 120-172 420-468 (489)
83 KOG4275 Predicted E3 ubiquitin 94.3 0.0088 1.9E-07 51.8 -0.8 44 122-173 300-344 (350)
84 KOG0309 Conserved WD40 repeat- 94.3 0.024 5.1E-07 54.8 1.9 24 142-165 1046-1069(1081)
85 KOG2034 Vacuolar sorting prote 93.2 0.043 9.4E-07 53.8 1.5 36 120-157 815-850 (911)
86 KOG2114 Vacuolar assembly/sort 93.0 0.043 9.4E-07 53.6 1.3 42 123-170 841-882 (933)
87 KOG1813 Predicted E3 ubiquitin 92.9 0.051 1.1E-06 47.2 1.5 45 123-171 242-286 (313)
88 KOG4185 Predicted E3 ubiquitin 92.8 0.085 1.8E-06 45.7 2.7 47 123-170 4-54 (296)
89 KOG0298 DEAD box-containing he 92.5 0.039 8.4E-07 56.1 0.3 45 122-169 1153-1197(1394)
90 KOG1001 Helicase-like transcri 92.4 0.049 1.1E-06 52.8 0.8 48 123-175 455-504 (674)
91 PF04641 Rtf2: Rtf2 RING-finge 92.4 0.15 3.2E-06 43.7 3.7 50 121-171 112-161 (260)
92 KOG1940 Zn-finger protein [Gen 91.7 0.095 2.1E-06 45.4 1.7 45 123-168 159-204 (276)
93 PF14447 Prok-RING_4: Prokaryo 91.5 0.093 2E-06 34.3 1.1 42 124-171 9-50 (55)
94 COG5175 MOT2 Transcriptional r 91.5 0.15 3.3E-06 45.2 2.7 59 120-179 12-72 (480)
95 PF10272 Tmpp129: Putative tra 91.0 0.18 3.8E-06 45.3 2.6 27 144-170 311-350 (358)
96 PF07800 DUF1644: Protein of u 90.7 0.3 6.5E-06 38.8 3.4 36 122-158 2-47 (162)
97 PF13901 DUF4206: Domain of un 90.6 0.22 4.9E-06 41.1 2.8 41 121-167 151-196 (202)
98 KOG0802 E3 ubiquitin ligase [P 90.1 0.14 3.1E-06 48.4 1.4 49 120-176 477-525 (543)
99 KOG3161 Predicted E3 ubiquitin 89.2 0.11 2.4E-06 49.5 -0.1 42 123-167 12-53 (861)
100 PF02439 Adeno_E3_CR2: Adenovi 88.6 1.2 2.7E-05 26.8 4.2 30 49-79 5-34 (38)
101 KOG1812 Predicted E3 ubiquitin 88.4 0.19 4.1E-06 45.6 0.8 38 122-160 146-184 (384)
102 KOG2932 E3 ubiquitin ligase in 87.6 0.23 5E-06 43.5 0.9 44 123-171 91-134 (389)
103 COG5220 TFB3 Cdk activating ki 87.6 0.23 5E-06 42.1 0.8 48 121-168 9-61 (314)
104 KOG1609 Protein involved in mR 86.9 0.41 8.8E-06 41.4 2.0 51 122-173 78-136 (323)
105 KOG3800 Predicted E3 ubiquitin 86.5 0.62 1.3E-05 40.5 2.9 46 124-170 2-50 (300)
106 smart00249 PHD PHD zinc finger 84.7 0.79 1.7E-05 27.5 2.0 31 124-155 1-31 (47)
107 KOG3053 Uncharacterized conser 84.5 0.48 1E-05 40.5 1.2 52 120-171 18-82 (293)
108 KOG0269 WD40 repeat-containing 84.0 0.96 2.1E-05 44.1 3.1 41 123-165 780-820 (839)
109 PF01102 Glycophorin_A: Glycop 82.9 2.4 5.1E-05 32.4 4.3 17 49-65 66-82 (122)
110 KOG2817 Predicted E3 ubiquitin 82.8 1.1 2.3E-05 40.6 2.8 45 123-168 335-382 (394)
111 PF15050 SCIMP: SCIMP protein 82.8 2.8 6.1E-05 31.8 4.6 32 49-80 7-40 (133)
112 PF00628 PHD: PHD-finger; Int 82.7 0.69 1.5E-05 29.1 1.2 43 124-167 1-49 (51)
113 COG5183 SSM4 Protein involved 82.7 1.1 2.5E-05 44.0 3.1 52 119-171 9-66 (1175)
114 KOG3899 Uncharacterized conser 81.6 0.82 1.8E-05 39.9 1.6 36 144-179 325-373 (381)
115 PF03854 zf-P11: P-11 zinc fin 81.4 1.1 2.3E-05 28.5 1.6 44 124-173 4-48 (50)
116 PF07975 C1_4: TFIIH C1-like d 81.0 1.3 2.8E-05 28.6 1.9 42 125-167 2-50 (51)
117 KOG1829 Uncharacterized conser 80.5 0.58 1.3E-05 44.5 0.3 41 122-166 511-556 (580)
118 KOG3002 Zn finger protein [Gen 80.4 1.4 2.9E-05 38.8 2.5 44 123-172 49-92 (299)
119 PF01102 Glycophorin_A: Glycop 79.4 2.3 5E-05 32.4 3.2 32 49-80 63-94 (122)
120 PF13719 zinc_ribbon_5: zinc-r 79.2 1.2 2.6E-05 26.5 1.3 26 124-149 4-36 (37)
121 PF15176 LRR19-TM: Leucine-ric 78.6 5.1 0.00011 29.5 4.6 28 48-75 15-42 (102)
122 PF10571 UPF0547: Uncharacteri 77.9 1.2 2.7E-05 24.5 1.0 23 124-148 2-24 (26)
123 KOG3005 GIY-YIG type nuclease 77.0 1.4 3.1E-05 37.9 1.6 48 123-170 183-242 (276)
124 KOG4718 Non-SMC (structural ma 76.1 1.6 3.4E-05 36.4 1.6 43 123-168 182-224 (235)
125 PF13908 Shisa: Wnt and FGF in 76.0 1.9 4.2E-05 34.6 2.1 13 50-62 78-90 (179)
126 KOG0825 PHD Zn-finger protein 74.6 2 4.3E-05 42.3 2.0 50 122-171 96-154 (1134)
127 PF05290 Baculo_IE-1: Baculovi 74.5 2.4 5.2E-05 32.8 2.1 50 123-172 81-133 (140)
128 KOG4362 Transcriptional regula 73.4 0.86 1.9E-05 44.1 -0.7 49 123-175 22-73 (684)
129 TIGR00622 ssl1 transcription f 72.7 5.1 0.00011 30.1 3.4 46 122-167 55-110 (112)
130 PF13717 zinc_ribbon_4: zinc-r 72.1 3.4 7.3E-05 24.5 1.9 26 124-149 4-36 (36)
131 PF15102 TMEM154: TMEM154 prot 70.7 2.7 5.9E-05 33.0 1.7 9 150-158 127-135 (146)
132 KOG3799 Rab3 effector RIM1 and 70.4 1.2 2.5E-05 34.7 -0.5 81 120-204 63-150 (169)
133 KOG1100 Predicted E3 ubiquitin 69.6 2.5 5.5E-05 35.1 1.4 41 125-173 161-202 (207)
134 KOG2066 Vacuolar assembly/sort 68.6 2.1 4.4E-05 42.1 0.7 43 122-166 784-830 (846)
135 PF12877 DUF3827: Domain of un 68.5 3.9 8.5E-05 39.4 2.5 32 46-77 265-296 (684)
136 PF06906 DUF1272: Protein of u 68.2 9 0.00019 25.2 3.4 49 123-174 6-55 (57)
137 smart00132 LIM Zinc-binding do 68.0 5.6 0.00012 22.7 2.3 37 124-170 1-37 (39)
138 PF01708 Gemini_mov: Geminivir 66.8 11 0.00024 27.1 4.0 36 39-74 27-62 (91)
139 KOG4367 Predicted Zn-finger pr 63.7 3.4 7.3E-05 38.2 1.0 34 121-158 3-36 (699)
140 KOG2041 WD40 repeat protein [G 63.7 6.5 0.00014 38.7 3.0 48 119-170 1128-1184(1189)
141 PF02009 Rifin_STEVOR: Rifin/s 63.2 9.1 0.0002 33.7 3.6 6 69-74 277-282 (299)
142 PF00412 LIM: LIM domain; Int 63.2 5.3 0.00011 25.3 1.7 39 125-173 1-39 (58)
143 KOG1815 Predicted E3 ubiquitin 63.2 4.8 0.0001 37.2 2.0 36 121-159 69-104 (444)
144 PF11057 Cortexin: Cortexin of 61.0 16 0.00035 25.4 3.8 10 67-76 42-51 (81)
145 PRK05978 hypothetical protein; 60.8 5.7 0.00012 31.3 1.7 32 141-177 36-69 (148)
146 PF05454 DAG1: Dystroglycan (D 60.4 2.9 6.2E-05 36.6 0.0 6 124-129 209-214 (290)
147 PF01363 FYVE: FYVE zinc finge 60.1 3.9 8.4E-05 27.3 0.6 36 122-157 9-44 (69)
148 PF07649 C1_3: C1-like domain; 59.1 8.9 0.00019 21.4 1.9 29 124-153 2-30 (30)
149 PF14914 LRRC37AB_C: LRRC37A/B 59.1 22 0.00047 28.1 4.6 30 45-74 116-145 (154)
150 PF05393 Hum_adeno_E3A: Human 57.7 30 0.00064 24.9 4.7 6 71-76 52-57 (94)
151 KOG1812 Predicted E3 ubiquitin 57.2 5.4 0.00012 36.2 1.2 43 123-166 307-351 (384)
152 PF05510 Sarcoglycan_2: Sarcog 57.2 26 0.00055 32.0 5.5 30 42-71 277-307 (386)
153 KOG3113 Uncharacterized conser 57.0 10 0.00023 32.5 2.8 49 123-173 112-160 (293)
154 PF15330 SIT: SHP2-interacting 56.5 15 0.00033 27.3 3.3 20 52-71 2-21 (107)
155 PF10577 UPF0560: Uncharacteri 55.8 24 0.00052 35.0 5.3 27 50-76 272-299 (807)
156 KOG2068 MOT2 transcription fac 55.8 17 0.00036 32.4 3.9 48 123-171 250-298 (327)
157 cd00065 FYVE FYVE domain; Zinc 55.4 10 0.00023 24.0 2.1 35 123-157 3-37 (57)
158 PF07406 NICE-3: NICE-3 protei 53.7 13 0.00028 30.4 2.8 18 148-165 124-143 (186)
159 PF14979 TMEM52: Transmembrane 53.5 44 0.00095 26.4 5.5 35 45-79 15-51 (154)
160 PF15298 AJAP1_PANP_C: AJAP1/P 53.4 6.9 0.00015 32.3 1.1 37 39-75 89-125 (205)
161 PF02891 zf-MIZ: MIZ/SP-RING z 52.7 19 0.00042 22.8 2.9 40 124-169 4-50 (50)
162 PF02060 ISK_Channel: Slow vol 52.6 46 0.001 25.5 5.4 11 7-17 12-22 (129)
163 KOG1729 FYVE finger containing 52.5 2.6 5.6E-05 36.9 -1.6 38 123-161 215-252 (288)
164 smart00064 FYVE Protein presen 52.4 14 0.00031 24.4 2.4 36 122-157 10-45 (68)
165 PF14311 DUF4379: Domain of un 51.9 12 0.00026 24.0 1.9 25 141-166 31-55 (55)
166 PHA02844 putative transmembran 51.8 58 0.0012 22.6 5.3 15 7-21 15-29 (75)
167 PRK01844 hypothetical protein; 51.3 29 0.00063 24.0 3.8 26 49-74 4-29 (72)
168 PF07191 zinc-ribbons_6: zinc- 50.7 4.5 9.8E-05 27.8 -0.3 40 123-171 2-41 (70)
169 COG5109 Uncharacterized conser 50.5 75 0.0016 28.4 7.0 44 123-167 337-383 (396)
170 PF07204 Orthoreo_P10: Orthore 50.1 14 0.0003 26.9 2.1 30 49-78 40-69 (98)
171 smart00647 IBR In Between Ring 49.9 5.4 0.00012 25.8 -0.0 22 135-156 37-58 (64)
172 PF15065 NCU-G1: Lysosomal tra 48.5 14 0.00031 33.2 2.4 41 39-79 308-348 (350)
173 KOG2807 RNA polymerase II tran 48.4 19 0.00041 32.1 3.1 67 100-167 307-374 (378)
174 KOG1538 Uncharacterized conser 48.4 7.8 0.00017 37.8 0.8 36 136-171 1042-1077(1081)
175 KOG3842 Adaptor protein Pellin 47.9 23 0.00051 31.5 3.6 52 121-173 340-416 (429)
176 PF02009 Rifin_STEVOR: Rifin/s 47.9 24 0.00053 31.0 3.7 30 49-79 254-283 (299)
177 PF12575 DUF3753: Protein of u 47.6 70 0.0015 22.1 5.2 13 7-19 15-27 (72)
178 PF10717 ODV-E18: Occlusion-de 46.5 34 0.00073 24.3 3.6 20 43-62 19-38 (85)
179 PF05568 ASFV_J13L: African sw 46.4 28 0.00061 27.5 3.5 20 164-183 117-136 (189)
180 PF04710 Pellino: Pellino; In 46.3 6.6 0.00014 35.7 0.0 45 120-168 275-336 (416)
181 TIGR01478 STEVOR variant surfa 46.3 27 0.00059 30.5 3.7 6 76-81 285-290 (295)
182 PF04639 Baculo_E56: Baculovir 45.6 22 0.00047 31.1 3.0 17 12-28 244-260 (305)
183 PHA02819 hypothetical protein; 45.6 96 0.0021 21.3 5.5 15 7-21 15-29 (71)
184 PF08374 Protocadherin: Protoc 44.9 26 0.00056 29.4 3.2 9 67-75 56-64 (221)
185 PHA02650 hypothetical protein; 44.4 63 0.0014 22.7 4.6 16 6-21 14-29 (81)
186 PF05568 ASFV_J13L: African sw 44.4 38 0.00083 26.7 3.9 13 68-80 47-59 (189)
187 PHA02849 putative transmembran 44.2 50 0.0011 23.2 4.1 23 41-63 7-29 (82)
188 TIGR03024 arch_pef_cterm PEF-C 44.1 38 0.00081 18.7 2.8 7 44-50 2-8 (26)
189 PF06679 DUF1180: Protein of u 44.0 68 0.0015 25.7 5.4 14 61-74 104-117 (163)
190 PF04689 S1FA: DNA binding pro 43.9 20 0.00043 24.2 2.0 33 43-75 7-39 (69)
191 PHA03054 IMV membrane protein; 43.5 1.1E+02 0.0023 21.1 5.6 15 7-21 15-29 (72)
192 PRK00523 hypothetical protein; 43.4 45 0.00097 23.0 3.7 26 49-74 5-30 (72)
193 PF04971 Lysis_S: Lysis protei 42.8 30 0.00066 23.6 2.8 24 46-69 28-51 (68)
194 PF02480 Herpes_gE: Alphaherpe 42.7 8.1 0.00018 35.8 0.0 25 46-70 347-371 (439)
195 COG1545 Predicted nucleic-acid 42.4 17 0.00036 28.2 1.7 24 139-170 30-53 (140)
196 PF07438 DUF1514: Protein of u 41.9 27 0.00058 23.6 2.4 16 50-65 1-16 (66)
197 PTZ00370 STEVOR; Provisional 41.5 30 0.00066 30.2 3.3 7 75-81 280-286 (296)
198 KOG3039 Uncharacterized conser 41.4 16 0.00036 31.3 1.6 32 122-157 43-74 (303)
199 KOG3637 Vitronectin receptor, 40.9 17 0.00038 37.3 2.0 37 44-80 973-1009(1030)
200 PLN02189 cellulose synthase 40.9 30 0.00064 35.5 3.5 50 122-171 34-87 (1040)
201 PF09723 Zn-ribbon_8: Zinc rib 40.7 7.5 0.00016 23.7 -0.4 25 143-168 10-34 (42)
202 PHA03240 envelope glycoprotein 40.1 33 0.00072 28.8 3.2 15 49-63 213-227 (258)
203 KOG4482 Sarcoglycan complex, a 40.0 56 0.0012 29.8 4.8 37 44-80 291-327 (449)
204 PF03107 C1_2: C1 domain; Int 39.9 19 0.00041 20.1 1.3 29 124-153 2-30 (30)
205 PF06844 DUF1244: Protein of u 39.8 18 0.0004 24.5 1.3 13 147-159 11-23 (68)
206 PF03229 Alpha_GJ: Alphavirus 39.7 76 0.0016 24.0 4.7 33 48-80 84-117 (126)
207 KOG4577 Transcription factor L 39.7 8.1 0.00017 33.8 -0.5 35 121-157 91-125 (383)
208 COG3763 Uncharacterized protei 38.9 68 0.0015 22.0 4.0 10 54-63 8-17 (71)
209 PF07282 OrfB_Zn_ribbon: Putat 38.8 38 0.00082 22.4 2.9 35 122-156 28-64 (69)
210 PRK03564 formate dehydrogenase 38.6 17 0.00037 32.1 1.3 47 121-168 186-234 (309)
211 PF04423 Rad50_zn_hook: Rad50 37.8 12 0.00026 23.9 0.2 12 162-173 22-33 (54)
212 smart00531 TFIIE Transcription 37.8 36 0.00077 26.4 2.9 15 161-175 124-138 (147)
213 PF01299 Lamp: Lysosome-associ 37.2 33 0.00072 29.9 3.0 10 52-61 275-284 (306)
214 PHA03283 envelope glycoprotein 37.1 57 0.0012 30.9 4.6 28 48-76 397-424 (542)
215 PF05191 ADK_lid: Adenylate ki 37.0 15 0.00033 21.7 0.5 32 139-172 2-33 (36)
216 PF04710 Pellino: Pellino; In 37.0 11 0.00025 34.3 0.0 49 122-171 328-401 (416)
217 PF13807 GNVR: G-rich domain o 36.6 1.4E+02 0.0029 20.5 5.5 17 9-25 17-33 (82)
218 PF01299 Lamp: Lysosome-associ 36.4 30 0.00065 30.2 2.6 29 51-79 271-299 (306)
219 KOG2071 mRNA cleavage and poly 36.0 21 0.00046 34.1 1.6 35 120-156 511-556 (579)
220 PF13832 zf-HC5HC2H_2: PHD-zin 35.4 41 0.0009 24.3 2.8 32 122-156 55-88 (110)
221 KOG1815 Predicted E3 ubiquitin 35.3 11 0.00025 34.7 -0.2 37 123-159 227-267 (444)
222 PF11023 DUF2614: Protein of u 35.2 33 0.00072 25.8 2.2 32 140-177 71-102 (114)
223 COG3813 Uncharacterized protei 35.0 41 0.00088 23.4 2.5 30 144-175 27-56 (84)
224 PF04216 FdhE: Protein involve 35.0 4.5 9.7E-05 35.1 -2.9 46 122-168 172-219 (290)
225 PF06937 EURL: EURL protein; 34.8 33 0.00072 29.7 2.5 44 123-166 31-76 (285)
226 PHA02975 hypothetical protein; 34.4 1.4E+02 0.0031 20.4 5.0 15 7-21 15-29 (69)
227 PF13314 DUF4083: Domain of un 34.3 1.2E+02 0.0025 20.1 4.4 8 68-75 24-31 (58)
228 PF10497 zf-4CXXC_R1: Zinc-fin 34.3 51 0.0011 24.3 3.1 47 122-168 7-69 (105)
229 PF05502 Dynactin_p62: Dynacti 34.1 21 0.00045 33.5 1.3 42 122-176 26-68 (483)
230 PF02318 FYVE_2: FYVE-type zin 33.7 26 0.00056 26.2 1.5 46 121-168 53-102 (118)
231 PF08274 PhnA_Zn_Ribbon: PhnA 33.4 18 0.00039 20.6 0.4 26 123-148 3-29 (30)
232 KOG0824 Predicted E3 ubiquitin 33.3 20 0.00044 31.5 1.0 47 120-169 103-149 (324)
233 PTZ00046 rifin; Provisional 33.2 60 0.0013 29.3 3.9 29 51-80 315-343 (358)
234 TIGR02098 MJ0042_CXXC MJ0042 f 33.1 37 0.00081 19.7 1.9 10 124-133 4-13 (38)
235 PF14169 YdjO: Cold-inducible 33.0 22 0.00048 23.6 0.9 14 160-173 39-52 (59)
236 PF11770 GAPT: GRB2-binding ad 32.9 30 0.00065 27.4 1.7 16 66-81 22-37 (158)
237 PF03119 DNA_ligase_ZBD: NAD-d 32.6 20 0.00043 19.9 0.5 14 162-175 1-14 (28)
238 PHA02657 hypothetical protein; 32.1 1.1E+02 0.0023 22.0 4.2 25 45-69 23-47 (95)
239 PF11669 WBP-1: WW domain-bind 32.0 1.1E+02 0.0024 22.3 4.6 7 52-58 21-27 (102)
240 PF02723 NS3_envE: Non-structu 32.0 89 0.0019 22.1 3.9 35 44-78 10-44 (82)
241 PF15353 HECA: Headcase protei 31.8 28 0.00061 25.9 1.4 13 144-156 40-52 (107)
242 PLN02436 cellulose synthase A 31.7 51 0.0011 34.0 3.5 50 122-171 36-89 (1094)
243 PF06667 PspB: Phage shock pro 31.6 1.3E+02 0.0028 20.9 4.6 9 58-66 13-21 (75)
244 PF14569 zf-UDP: Zinc-binding 31.0 64 0.0014 22.7 2.9 50 122-171 9-62 (80)
245 KOG4323 Polycomb-like PHD Zn-f 31.0 29 0.00062 32.4 1.6 49 122-170 168-225 (464)
246 TIGR01477 RIFIN variant surfac 31.0 71 0.0015 28.8 4.0 28 52-80 311-338 (353)
247 PF09943 DUF2175: Uncharacteri 30.8 41 0.0009 24.8 2.1 34 124-159 4-37 (101)
248 PF07213 DAP10: DAP10 membrane 30.1 2E+02 0.0043 20.2 5.5 38 41-78 24-61 (79)
249 TIGR00686 phnA alkylphosphonat 29.9 34 0.00073 25.6 1.5 26 123-149 3-30 (109)
250 PF06040 Adeno_E3: Adenovirus 29.8 59 0.0013 24.6 2.8 22 46-67 84-105 (127)
251 PTZ00208 65 kDa invariant surf 29.7 42 0.00092 30.8 2.4 23 49-71 385-407 (436)
252 PF06750 DiS_P_DiS: Bacterial 29.6 57 0.0012 23.4 2.6 36 123-171 34-69 (92)
253 PHA03164 hypothetical protein; 29.2 1.9E+02 0.0041 20.3 5.0 11 6-16 10-20 (88)
254 PF07406 NICE-3: NICE-3 protei 28.6 88 0.0019 25.6 3.9 13 95-107 54-66 (186)
255 COG4847 Uncharacterized protei 28.6 58 0.0013 23.8 2.5 35 123-159 7-41 (103)
256 PF07172 GRP: Glycine rich pro 28.4 70 0.0015 23.2 2.9 8 51-58 6-13 (95)
257 PF10661 EssA: WXG100 protein 28.3 1.1E+02 0.0024 23.9 4.3 10 48-57 116-125 (145)
258 PRK14762 membrane protein; Pro 28.2 1.1E+02 0.0024 16.7 3.6 17 50-66 5-21 (27)
259 PRK11088 rrmA 23S rRNA methylt 28.0 40 0.00086 28.6 1.9 26 123-149 3-28 (272)
260 PF15145 DUF4577: Domain of un 27.8 78 0.0017 23.9 3.1 15 93-107 98-112 (128)
261 KOG2231 Predicted E3 ubiquitin 27.5 48 0.001 32.4 2.5 46 124-173 2-54 (669)
262 TIGR01562 FdhE formate dehydro 27.0 23 0.0005 31.2 0.3 41 122-168 184-232 (305)
263 KOG1512 PHD Zn-finger protein 27.0 28 0.00062 30.5 0.8 32 123-155 315-346 (381)
264 COG3357 Predicted transcriptio 26.9 47 0.001 24.1 1.7 29 143-175 63-91 (97)
265 KOG0860 Synaptobrevin/VAMP-lik 26.6 95 0.0021 23.5 3.4 6 52-57 96-101 (116)
266 PF14654 Epiglycanin_C: Mucin, 26.5 2.3E+02 0.005 20.8 5.3 16 49-64 17-32 (106)
267 PF02038 ATP1G1_PLM_MAT8: ATP1 26.4 87 0.0019 20.1 2.7 21 50-70 13-33 (50)
268 PRK11827 hypothetical protein; 26.2 25 0.00053 23.4 0.2 20 154-173 2-21 (60)
269 PRK11877 psaI photosystem I re 26.2 1.3E+02 0.0029 18.1 3.4 27 44-70 8-34 (38)
270 PF12191 stn_TNFRSF12A: Tumour 26.2 29 0.00063 26.6 0.6 21 46-66 75-95 (129)
271 PF06305 DUF1049: Protein of u 26.1 1.1E+02 0.0024 19.9 3.5 15 51-65 22-36 (68)
272 PF15183 MRAP: Melanocortin-2 25.9 69 0.0015 22.8 2.4 19 50-68 38-56 (90)
273 PF11446 DUF2897: Protein of u 25.6 1E+02 0.0023 20.0 3.1 15 50-64 5-19 (55)
274 PHA02692 hypothetical protein; 25.5 2.1E+02 0.0046 19.6 4.7 14 7-20 15-28 (70)
275 TIGR01478 STEVOR variant surfa 25.4 1.1E+02 0.0024 26.8 4.1 31 46-76 258-288 (295)
276 TIGR03052 PS_I_psaI photosyste 25.4 1E+02 0.0022 17.7 2.6 24 46-69 3-26 (31)
277 KOG3653 Transforming growth fa 25.3 1.6E+02 0.0035 27.9 5.4 14 148-161 289-303 (534)
278 KOG1245 Chromatin remodeling c 25.3 25 0.00055 37.3 0.2 49 121-170 1107-1159(1404)
279 PRK10220 hypothetical protein; 25.2 56 0.0012 24.5 1.9 26 123-149 4-31 (111)
280 PTZ00370 STEVOR; Provisional 24.0 1.1E+02 0.0024 26.9 3.8 31 46-76 254-284 (296)
281 PF04906 Tweety: Tweety; Inte 23.9 1.3E+02 0.0029 27.5 4.6 14 66-79 38-51 (406)
282 PF01485 IBR: IBR domain; Int 23.9 8 0.00017 24.9 -2.5 33 124-156 20-58 (64)
283 KOG0955 PHD finger protein BR1 23.7 49 0.0011 34.1 1.9 55 119-174 216-271 (1051)
284 PHA02681 ORF089 virion membran 23.2 2.5E+02 0.0055 20.0 4.8 15 94-108 47-61 (92)
285 PF06677 Auto_anti-p27: Sjogre 23.2 62 0.0014 19.7 1.6 19 154-172 11-29 (41)
286 PLN02638 cellulose synthase A 23.2 93 0.002 32.2 3.7 50 122-171 17-70 (1079)
287 PLN02248 cellulose synthase-li 23.1 1.1E+02 0.0023 31.9 4.1 29 143-171 149-177 (1135)
288 PRK09702 PTS system arbutin-sp 22.9 99 0.0022 24.6 3.2 21 61-81 17-37 (161)
289 KOG2979 Protein involved in DN 22.8 49 0.0011 28.5 1.5 42 122-166 176-219 (262)
290 PF08374 Protocadherin: Protoc 22.8 45 0.00097 28.0 1.2 18 61-78 47-64 (221)
291 cd00729 rubredoxin_SM Rubredox 22.7 43 0.00094 19.4 0.8 8 161-168 19-26 (34)
292 KOG2678 Predicted membrane pro 22.3 1.5E+02 0.0033 25.1 4.2 25 50-74 216-240 (244)
293 CHL00186 psaI photosystem I su 22.0 1.9E+02 0.0041 17.2 3.9 27 44-70 4-30 (36)
294 COG0675 Transposase and inacti 22.0 62 0.0014 27.5 2.0 29 122-153 309-337 (364)
295 KOG4185 Predicted E3 ubiquitin 21.7 15 0.00033 31.6 -1.9 48 123-170 208-266 (296)
296 PF09753 Use1: Membrane fusion 21.6 89 0.0019 26.4 2.8 20 49-68 229-248 (251)
297 PHA03291 envelope glycoprotein 21.6 1.3E+02 0.0028 27.3 3.8 24 41-64 278-301 (401)
298 PF05715 zf-piccolo: Piccolo Z 21.4 46 0.001 22.1 0.8 12 160-171 2-13 (61)
299 PF02060 ISK_Channel: Slow vol 21.3 62 0.0013 24.9 1.6 10 12-21 13-22 (129)
300 PRK04023 DNA polymerase II lar 21.2 44 0.00094 34.3 0.9 51 121-177 625-680 (1121)
301 TIGR02605 CxxC_CxxC_SSSS putat 21.1 38 0.00082 21.1 0.4 26 142-168 9-34 (52)
302 smart00109 C1 Protein kinase C 21.1 84 0.0018 18.6 2.0 33 122-155 11-44 (49)
303 PF05454 DAG1: Dystroglycan (D 21.0 32 0.0007 30.1 0.0 6 71-76 166-171 (290)
304 COG3492 Uncharacterized protei 20.8 49 0.0011 24.0 0.9 13 147-159 42-54 (104)
305 PF04478 Mid2: Mid2 like cell 20.8 17 0.00036 28.9 -1.6 30 50-81 52-81 (154)
306 smart00834 CxxC_CXXC_SSSS Puta 20.6 33 0.00071 20.0 -0.0 11 160-170 26-36 (41)
307 PF13771 zf-HC5HC2H: PHD-like 20.6 69 0.0015 22.1 1.7 32 122-155 36-68 (90)
308 PF14584 DUF4446: Protein of u 20.1 1.1E+02 0.0024 24.1 2.9 36 104-141 80-115 (151)
309 PF05283 MGC-24: Multi-glycosy 20.1 2.4E+02 0.0051 23.1 4.9 12 41-52 153-164 (186)
310 PRK14473 F0F1 ATP synthase sub 20.1 1.6E+02 0.0035 22.9 3.9 8 48-55 6-13 (164)
311 PHA02947 S-S bond formation pa 20.0 1.6E+02 0.0034 24.7 3.8 29 45-73 174-202 (215)
312 PRK00420 hypothetical protein; 20.0 83 0.0018 23.6 2.0 11 122-132 23-33 (112)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.83 E-value=1.4e-20 Score=164.83 Aligned_cols=78 Identities=31% Similarity=0.778 Sum_probs=67.2
Q ss_pred CCccHhhhhhcceeeeccccCCCCCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCC-CCcccccccccccc
Q 028342 97 SGIKQKALKTFTVVKYSTELKLPGLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNS-SCPKCRHCLIESCQ 175 (210)
Q Consensus 97 ~gl~~~~i~~lp~~~y~~~~~~~~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-~CPlCR~~l~~~~~ 175 (210)
..+.++.++++|...|......... ..|+||||+|++||++|.|| |+|.||..|||.||..++ .||+|++++....+
T Consensus 205 ~r~~k~~l~~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 205 NRLIKRLLKKLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred hhhHHHHHhhCCcEEeccccccCCC-ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 3567889999999999887655444 69999999999999999999 999999999999997765 59999998886654
Q ss_pred c
Q 028342 176 K 176 (210)
Q Consensus 176 ~ 176 (210)
.
T Consensus 283 ~ 283 (348)
T KOG4628|consen 283 S 283 (348)
T ss_pred C
Confidence 3
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=99.65 E-value=4.9e-17 Score=102.52 Aligned_cols=44 Identities=59% Similarity=1.290 Sum_probs=40.6
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCR 167 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR 167 (210)
++|+||+++|.+++.+..++ |+|.||.+||..|++.+.+||+||
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 47999999999999999998 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.45 E-value=6e-14 Score=118.10 Aligned_cols=75 Identities=35% Similarity=0.631 Sum_probs=56.5
Q ss_pred CCccHhhhhhcceeeecccc-CCCCCCCccccccCcccCCCc----eEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 97 SGIKQKALKTFTVVKYSTEL-KLPGLDTECVICLSEFAPGER----VRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 97 ~gl~~~~i~~lp~~~y~~~~-~~~~~~~~CaICLeef~~~~~----vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
.+..++.++.+|.+...... .....+.+|+||++++.+.+. +.+++.|+|.||.+||..|++.+.+||+||..+.
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 34567788888888755321 122345899999999876542 2345459999999999999999999999999876
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=99.42 E-value=1.1e-13 Score=96.50 Aligned_cols=46 Identities=39% Similarity=0.949 Sum_probs=35.6
Q ss_pred CCccccccCcccCC---------CceEEcCCCCCccchHHHHHHHhcCCCCcccc
Q 028342 122 DTECVICLSEFAPG---------ERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCR 167 (210)
Q Consensus 122 ~~~CaICLeef~~~---------~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR 167 (210)
++.|+||+++|.+. +....+..|||.||.+||.+||+.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 45699999999422 23333434999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=2.7e-13 Score=115.87 Aligned_cols=51 Identities=47% Similarity=1.136 Sum_probs=46.2
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHh-cCCCCccccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLR-SNSSCPKCRHCLIE 172 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~~CPlCR~~l~~ 172 (210)
.+-+|+|||+.|-++|.++++| |+|.||..|+++|+. -+..||+||..+.+
T Consensus 322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3479999999999999999999 999999999999998 45679999998864
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=1.1e-12 Score=114.92 Aligned_cols=54 Identities=37% Similarity=0.938 Sum_probs=45.1
Q ss_pred CCCCCccccccCc-ccCC---------CceEEcCCCCCccchHHHHHHHhcCCCCcccccccccc
Q 028342 119 PGLDTECVICLSE-FAPG---------ERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIES 173 (210)
Q Consensus 119 ~~~~~~CaICLee-f~~~---------~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~ 173 (210)
...|..|+||+|+ |+.+ .+...+| |||+||-+|++.|++++++||+||.++.-.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ifd 347 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFD 347 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccccc
Confidence 3457899999999 5544 2456788 999999999999999999999999996533
No 7
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.23 E-value=7.7e-12 Score=88.87 Aligned_cols=52 Identities=40% Similarity=0.881 Sum_probs=41.2
Q ss_pred CCccccccCccc--------CCC-ceEEcCCCCCccchHHHHHHHhc---CCCCcccccccccc
Q 028342 122 DTECVICLSEFA--------PGE-RVRLLPKCNHGFHVRCIDKWLRS---NSSCPKCRHCLIES 173 (210)
Q Consensus 122 ~~~CaICLeef~--------~~~-~vr~lp~C~H~FH~~CI~~Wl~~---~~~CPlCR~~l~~~ 173 (210)
++.|.||...|+ .|+ ...++..|+|.||.+||.+|+.. +..||+||+.+.-+
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 689999999997 222 23455579999999999999975 46899999987643
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.13 E-value=6.8e-11 Score=100.72 Aligned_cols=50 Identities=30% Similarity=0.739 Sum_probs=43.7
Q ss_pred CCCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccc
Q 028342 119 PGLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIE 172 (210)
Q Consensus 119 ~~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~ 172 (210)
.+....|.+||+..++ ...+| |||+||+.||..|...+..||+||.....
T Consensus 236 ~~a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred CCCCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCC
Confidence 3455899999999876 56788 99999999999999999999999998764
No 9
>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=99.13 E-value=5.3e-11 Score=73.61 Aligned_cols=44 Identities=59% Similarity=1.231 Sum_probs=36.9
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHHHHHHhc-CCCCccccccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCRHCL 170 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR~~l 170 (210)
+|+||++.+ .+.+...+ |+|.||.+|++.|++. +..||+||..+
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 34455565 9999999999999987 77899999764
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=99.13 E-value=4.1e-11 Score=77.36 Aligned_cols=46 Identities=39% Similarity=0.872 Sum_probs=39.7
Q ss_pred CCccccccCcccCCCceEEcCCCCCc-cchHHHHHHHhcCCCCcccccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHG-FHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
+..|.||++...+ +..+| |||. |+..|+..|++.+..||+||+.+.
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4689999998765 77888 9999 999999999999999999999875
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.11 E-value=1e-10 Score=95.14 Aligned_cols=48 Identities=33% Similarity=0.718 Sum_probs=39.1
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhc----------------CCCCccccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS----------------NSSCPKCRHCLIE 172 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~----------------~~~CPlCR~~l~~ 172 (210)
++.+|+||++.+++ ..+++ |||.||..||..|+.. +..||+||..+..
T Consensus 17 ~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 17 GDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 35799999999875 34566 9999999999999852 3479999998864
No 12
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.11 E-value=3.9e-11 Score=83.48 Aligned_cols=52 Identities=31% Similarity=0.659 Sum_probs=41.7
Q ss_pred CccccccCccc------------CCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccccc
Q 028342 123 TECVICLSEFA------------PGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESC 174 (210)
Q Consensus 123 ~~CaICLeef~------------~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~ 174 (210)
+.|+||...|. .++.......|+|.||.+||.+||..+..||++|+..+-..
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 67888877764 23344555679999999999999999999999999887543
No 13
>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=99.06 E-value=1.2e-10 Score=71.29 Aligned_cols=39 Identities=46% Similarity=1.097 Sum_probs=32.8
Q ss_pred cccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccc
Q 028342 125 CVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKC 166 (210)
Q Consensus 125 CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlC 166 (210)
|+||++.+.+ .+..++ |||.|+.+||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999886 445676 99999999999999998899998
No 14
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=1.9e-10 Score=107.83 Aligned_cols=54 Identities=37% Similarity=0.929 Sum_probs=46.7
Q ss_pred CCCccccccCcccCCCc--eEEcCCCCCccchHHHHHHHhcCCCCcccccccccccc
Q 028342 121 LDTECVICLSEFAPGER--VRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESCQ 175 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~--vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~ 175 (210)
.++.|+||+|++..++. ...++ |+|+||..|+..|++++.+||.||..+.....
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDYVL 345 (543)
T ss_pred cCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcccc
Confidence 46899999999998765 67788 99999999999999999999999995554444
No 15
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.94 E-value=8.9e-10 Score=91.41 Aligned_cols=50 Identities=30% Similarity=0.656 Sum_probs=39.1
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCC---CCcccccccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNS---SCPKCRHCLIES 173 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~---~CPlCR~~l~~~ 173 (210)
+...+|.|||+.-++ .| ++. |||.|++-||-+||..+. .||+|+..+..+
T Consensus 45 ~~~FdCNICLd~akd--PV-vTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKD--PV-VTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred CCceeeeeeccccCC--CE-Eee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 345799999998553 44 444 999999999999997654 589999987743
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=6.1e-10 Score=88.93 Aligned_cols=60 Identities=27% Similarity=0.548 Sum_probs=45.9
Q ss_pred eccccCCCCCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccccc
Q 028342 112 YSTELKLPGLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIES 173 (210)
Q Consensus 112 y~~~~~~~~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~ 173 (210)
+..+...++.-..|+|||+.+.+...+. . +|||+|+.+||+.-++....||+||..|..+
T Consensus 121 k~v~~~~~~~~~~CPiCl~~~sek~~vs-T-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 121 KDVDPLRKEGTYKCPICLDSVSEKVPVS-T-KCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred ccccccccccccCCCceecchhhccccc-c-ccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 3333333344478999999998744432 3 5999999999999999999999999877654
No 17
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=1.5e-10 Score=79.96 Aligned_cols=51 Identities=35% Similarity=0.758 Sum_probs=40.4
Q ss_pred CCccccccCccc---------CCCceEEcCCCCCccchHHHHHHHhc---CCCCccccccccc
Q 028342 122 DTECVICLSEFA---------PGERVRLLPKCNHGFHVRCIDKWLRS---NSSCPKCRHCLIE 172 (210)
Q Consensus 122 ~~~CaICLeef~---------~~~~vr~lp~C~H~FH~~CI~~Wl~~---~~~CPlCR~~l~~ 172 (210)
++.|.||.-+|. .+|...++..|.|.||.+||.+|+.. +..||+||+.+.-
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 358999999987 33444556679999999999999965 4579999998763
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=98.90 E-value=9.4e-10 Score=90.89 Aligned_cols=51 Identities=35% Similarity=0.800 Sum_probs=38.6
Q ss_pred CCCccccccCcccCC----C-ceEEcCCCCCccchHHHHHHHhcC------CCCcccccccc
Q 028342 121 LDTECVICLSEFAPG----E-RVRLLPKCNHGFHVRCIDKWLRSN------SSCPKCRHCLI 171 (210)
Q Consensus 121 ~~~~CaICLeef~~~----~-~vr~lp~C~H~FH~~CI~~Wl~~~------~~CPlCR~~l~ 171 (210)
.+.+|+||+|..-+. + .--+|+.|+|.||..||..|.+.+ .+||+||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 458999999986432 1 123566699999999999999753 35999998754
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.90 E-value=1.3e-09 Score=68.51 Aligned_cols=44 Identities=34% Similarity=0.853 Sum_probs=38.6
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRH 168 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~ 168 (210)
+|.||+++|.+....++++ |||+|+..|++.+......||+||+
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 5999999996667788887 9999999999999866678999984
No 20
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.84 E-value=1.8e-09 Score=66.50 Aligned_cols=39 Identities=46% Similarity=1.121 Sum_probs=32.9
Q ss_pred cccccCcccCCCceEEcCCCCCccchHHHHHHHh--cCCCCccc
Q 028342 125 CVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLR--SNSSCPKC 166 (210)
Q Consensus 125 CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~--~~~~CPlC 166 (210)
|+||++.+.+.. +.++ |||.|+.+||..|++ ....||+|
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 899999987633 5777 999999999999998 44579998
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.84 E-value=2.9e-09 Score=63.42 Aligned_cols=38 Identities=50% Similarity=1.228 Sum_probs=32.1
Q ss_pred cccccCcccCCCceEEcCCCCCccchHHHHHHHh-cCCCCccc
Q 028342 125 CVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLR-SNSSCPKC 166 (210)
Q Consensus 125 CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~~CPlC 166 (210)
|+||++.. .....++ |+|.||..|++.|++ .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999883 3467777 999999999999998 56679987
No 22
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=2.6e-09 Score=77.90 Aligned_cols=50 Identities=30% Similarity=0.721 Sum_probs=40.8
Q ss_pred CccccccCccc-------------CCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccc
Q 028342 123 TECVICLSEFA-------------PGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIE 172 (210)
Q Consensus 123 ~~CaICLeef~-------------~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~ 172 (210)
+.|+||...+. .++.......|+|.||.+||.+||+.+..||+|.++++-
T Consensus 47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF 109 (114)
T ss_pred chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence 67999877653 334455566799999999999999999999999888764
No 23
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.79 E-value=4.9e-09 Score=65.34 Aligned_cols=38 Identities=39% Similarity=0.980 Sum_probs=29.6
Q ss_pred cccccCcccCCCceEEcCCCCCccchHHHHHHHhcC----CCCccc
Q 028342 125 CVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSN----SSCPKC 166 (210)
Q Consensus 125 CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----~~CPlC 166 (210)
|+||++.|.+ ...++ |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999997 67787 99999999999999654 369988
No 24
>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=98.70 E-value=1.5e-08 Score=67.86 Aligned_cols=45 Identities=29% Similarity=0.485 Sum_probs=39.1
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
-.|+||++.+.+ ..+++ |||+|..+||..|++.+.+||+|+..+.
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKD---PVILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCC---CEECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 369999999886 34566 9999999999999998889999998774
No 25
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=2.6e-08 Score=90.38 Aligned_cols=50 Identities=36% Similarity=0.873 Sum_probs=39.3
Q ss_pred CCccccccCccc---CCC-------c----eEEcCCCCCccchHHHHHHHh-cCCCCccccccccc
Q 028342 122 DTECVICLSEFA---PGE-------R----VRLLPKCNHGFHVRCIDKWLR-SNSSCPKCRHCLIE 172 (210)
Q Consensus 122 ~~~CaICLeef~---~~~-------~----vr~lp~C~H~FH~~CI~~Wl~-~~~~CPlCR~~l~~ 172 (210)
...|+||+.++. .+. . -+++| |+|+||..|+.+|+. .+..||+||+.|..
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 368999999875 111 1 23467 999999999999998 45599999998864
No 26
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=2.6e-08 Score=84.40 Aligned_cols=50 Identities=30% Similarity=0.697 Sum_probs=40.7
Q ss_pred CCCCccccccCcccCCC-------ceEEcCCCCCccchHHHHHHH--hcCCCCccccccc
Q 028342 120 GLDTECVICLSEFAPGE-------RVRLLPKCNHGFHVRCIDKWL--RSNSSCPKCRHCL 170 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~-------~vr~lp~C~H~FH~~CI~~Wl--~~~~~CPlCR~~l 170 (210)
.++..|+||-..+.... ..-.|. |+|+||+.||.-|- .++++||.|+..+
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHh
Confidence 35689999999887554 456777 99999999999995 5678999997654
No 27
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.56 E-value=4.1e-08 Score=88.42 Aligned_cols=48 Identities=33% Similarity=0.637 Sum_probs=41.1
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIE 172 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~ 172 (210)
....|+||++.|.+ ..+++ |+|.||..||..|+..+..||+||..+..
T Consensus 25 ~~l~C~IC~d~~~~---Pvitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 25 TSLRCHICKDFFDV---PVLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cccCCCcCchhhhC---ccCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 35799999999875 34577 99999999999999988899999997654
No 28
>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=98.47 E-value=1.4e-07 Score=60.76 Aligned_cols=42 Identities=26% Similarity=0.808 Sum_probs=32.5
Q ss_pred ccccccCcccCCCceEEcCCCC-----CccchHHHHHHHhcC--CCCcccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCN-----HGFHVRCIDKWLRSN--SSCPKCR 167 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~-----H~FH~~CI~~Wl~~~--~~CPlCR 167 (210)
.|.||++. .+++...+.| |. |.+|..|++.|+..+ .+||+|+
T Consensus 1 ~CrIC~~~-~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48999993 4444555778 75 899999999999654 4799995
No 29
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.43 E-value=5.1e-08 Score=67.37 Aligned_cols=52 Identities=31% Similarity=0.668 Sum_probs=25.6
Q ss_pred CCccccccCcccCCC-c-eEEcC--CCCCccchHHHHHHHhc----C-------CCCcccccccccc
Q 028342 122 DTECVICLSEFAPGE-R-VRLLP--KCNHGFHVRCIDKWLRS----N-------SSCPKCRHCLIES 173 (210)
Q Consensus 122 ~~~CaICLeef~~~~-~-vr~lp--~C~H~FH~~CI~~Wl~~----~-------~~CPlCR~~l~~~ 173 (210)
+.+|.||.+.+.+++ . ..+.+ .|++.||..|+.+||+. + .+||.|+..|.-+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 368999999876333 2 23333 79999999999999953 1 2599999988644
No 30
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=1.4e-07 Score=79.86 Aligned_cols=51 Identities=29% Similarity=0.658 Sum_probs=41.3
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHH-HHhcCCC-Cccccccccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDK-WLRSNSS-CPKCRHCLIESC 174 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~-Wl~~~~~-CPlCR~~l~~~~ 174 (210)
..+..|+||++.... ...++ |||+|+..||-. |-+.+.- ||+||+....+.
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 346899999998665 55566 999999999999 9777665 999999877543
No 31
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.26 E-value=2.2e-07 Score=89.85 Aligned_cols=52 Identities=35% Similarity=0.784 Sum_probs=39.4
Q ss_pred CCCCccccccCcccCCC---ceEEcCCCCCccchHHHHHHHhcC--CCCcccccccc
Q 028342 120 GLDTECVICLSEFAPGE---RVRLLPKCNHGFHVRCIDKWLRSN--SSCPKCRHCLI 171 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~---~vr~lp~C~H~FH~~CI~~Wl~~~--~~CPlCR~~l~ 171 (210)
+..++||||......-| .-..++.|+|-||..|+-+|+++. .+||+||.+++
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 45689999987765211 113455799999999999999874 47999998764
No 32
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.24 E-value=9e-07 Score=55.36 Aligned_cols=38 Identities=37% Similarity=0.853 Sum_probs=22.4
Q ss_pred cccccCcccCCC-ceEEcCCCCCccchHHHHHHHhcC----CCCc
Q 028342 125 CVICLSEFAPGE-RVRLLPKCNHGFHVRCIDKWLRSN----SSCP 164 (210)
Q Consensus 125 CaICLeef~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~----~~CP 164 (210)
|+||.+ |.+.+ ...+|+ |||+|..+||+.++++. -.||
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 457898 99999999999999753 2576
No 33
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.18 E-value=5.4e-07 Score=78.69 Aligned_cols=48 Identities=35% Similarity=0.742 Sum_probs=42.9
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESC 174 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~ 174 (210)
-.|.||.+-|.. ..++| |+|.||.-||..+|..+..||.|+..+.+..
T Consensus 24 LRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 24 LRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESD 71 (442)
T ss_pred HHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchhh
Confidence 579999999986 56778 9999999999999999999999999877653
No 34
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=9.7e-07 Score=80.74 Aligned_cols=48 Identities=31% Similarity=0.616 Sum_probs=37.3
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcC-----CCCcccccccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSN-----SSCPKCRHCLIES 173 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~-----~~CPlCR~~l~~~ 173 (210)
+..|+|||++... ...+ .|||+||..||-.++... ..||+||..+..+
T Consensus 186 ~~~CPICL~~~~~---p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCc---cccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 5789999998653 2233 399999999999988543 4799999988763
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=98.08 E-value=3e-06 Score=58.85 Aligned_cols=47 Identities=28% Similarity=0.449 Sum_probs=36.5
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhc-CCCCcccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCRHCLIES 173 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR~~l~~~ 173 (210)
-.|+|+.+-|.+ ..+++ +||.|...||..|++. +.+||+|+..+...
T Consensus 5 f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 5 FLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred cCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 579999999987 56677 9999999999999988 78999999887653
No 36
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=1.6e-06 Score=76.85 Aligned_cols=45 Identities=31% Similarity=0.900 Sum_probs=35.3
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhc---CCCCcccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS---NSSCPKCR 167 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~---~~~CPlCR 167 (210)
.+|.||-+-+.....+.-...|||+||..|+.+|+.. ..+||.||
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 5899995444454556556579999999999999965 35799999
No 37
>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=98.07 E-value=3.3e-06 Score=73.63 Aligned_cols=51 Identities=24% Similarity=0.599 Sum_probs=37.3
Q ss_pred CCccccccCc-ccCCC-ceEEcCCCCCccchHHHHHHHh-cCCCCcccccccccc
Q 028342 122 DTECVICLSE-FAPGE-RVRLLPKCNHGFHVRCIDKWLR-SNSSCPKCRHCLIES 173 (210)
Q Consensus 122 ~~~CaICLee-f~~~~-~vr~lp~C~H~FH~~CI~~Wl~-~~~~CPlCR~~l~~~ 173 (210)
+..|++|..+ +-..+ .+.+-+ |||.||..||+..+. ....||.|+..+...
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKN 56 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence 4689999996 33333 233334 999999999999664 455899999887754
No 38
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.05 E-value=1.6e-06 Score=78.06 Aligned_cols=48 Identities=38% Similarity=0.897 Sum_probs=38.9
Q ss_pred CCCccccccCcccCCC-ceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 121 LDTECVICLSEFAPGE-RVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 121 ~~~~CaICLeef~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
+-..|+||||-+.... .++... |.|.||..|+..| ...+||+||-...
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 3479999999988654 344455 9999999999999 5568999998766
No 39
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=3.9e-06 Score=74.90 Aligned_cols=50 Identities=34% Similarity=0.802 Sum_probs=39.1
Q ss_pred CCCccccccCccc-CCCceEEcCCCCCccchHHHHHHHhc--CCCCccccccc
Q 028342 121 LDTECVICLSEFA-PGERVRLLPKCNHGFHVRCIDKWLRS--NSSCPKCRHCL 170 (210)
Q Consensus 121 ~~~~CaICLeef~-~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~~CPlCR~~l 170 (210)
.+..|+|||+++. .++..++.++|||.|-.+||+.||.. +..||.|...-
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 3579999999986 45555566679999999999999952 33699996543
No 40
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.98 E-value=3.5e-06 Score=72.32 Aligned_cols=48 Identities=31% Similarity=0.572 Sum_probs=40.3
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESC 174 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~ 174 (210)
..|-||-+-|.. ...++ |||.|+.-||...|..+..||+||.+.-+..
T Consensus 26 lrC~IC~~~i~i---p~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~esr 73 (391)
T COG5432 26 LRCRICDCRISI---PCETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCESR 73 (391)
T ss_pred HHhhhhhheeec---ceecc-cccchhHHHHHHHhcCCCCCccccccHHhhh
Confidence 689999887764 33455 9999999999999999999999999776543
No 41
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=2.8e-06 Score=71.43 Aligned_cols=43 Identities=40% Similarity=0.861 Sum_probs=38.1
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCR 167 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR 167 (210)
+.-.|+||++.|.+. .+++ |+|.|+..|+..++.....||.||
T Consensus 12 ~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 12 EELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 457999999999986 7788 999999999999988556799999
No 42
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=7.8e-06 Score=71.97 Aligned_cols=54 Identities=33% Similarity=0.617 Sum_probs=43.6
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCc-cchHHHHHHHhcCCCCcccccccccccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHG-FHVRCIDKWLRSNSSCPKCRHCLIESCQKI 177 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CPlCR~~l~~~~~~~ 177 (210)
+.+.+|.|||.+-++ ..+|| |.|. .|..|-+.-.-.+.+||+||+.+.+.-.-+
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i~ 342 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEIY 342 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhheec
Confidence 335799999999776 77899 9995 788898887666778999999988765543
No 43
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=8.8e-06 Score=67.60 Aligned_cols=62 Identities=26% Similarity=0.649 Sum_probs=49.8
Q ss_pred eccccCCCCCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhc--------CCCCcccccccccccc
Q 028342 112 YSTELKLPGLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS--------NSSCPKCRHCLIESCQ 175 (210)
Q Consensus 112 y~~~~~~~~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~--------~~~CPlCR~~l~~~~~ 175 (210)
|-++.+..++..-|..|-..+..||.+|+. |-|+||.+|+++|-.+ ...||.|..+|+..-.
T Consensus 40 YLqWL~DsDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~N 109 (299)
T KOG3970|consen 40 YLQWLQDSDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPIN 109 (299)
T ss_pred HHHHHhhcCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCcc
Confidence 334444455678999999999999999986 9999999999999743 2379999998886544
No 44
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.74 E-value=8.2e-06 Score=70.34 Aligned_cols=53 Identities=30% Similarity=0.758 Sum_probs=45.1
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHHhc-----------------------CCCCcccccccccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS-----------------------NSSCPKCRHCLIESCQ 175 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-----------------------~~~CPlCR~~l~~~~~ 175 (210)
...|.|||--|.+++...+++ |.|.||..|+.++|.. +..||+||..|.....
T Consensus 115 ~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~ 190 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN 190 (368)
T ss_pred CCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence 368999999999999999998 9999999999988722 2369999999886655
No 45
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.72 E-value=5.8e-06 Score=78.88 Aligned_cols=49 Identities=22% Similarity=0.442 Sum_probs=42.2
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
...|++|+..+.++......+ |+|.||.+||+.|-+.-.+||+||...-
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhh
Confidence 468999999988876666665 9999999999999999999999998654
No 46
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.70 E-value=8.2e-06 Score=54.97 Aligned_cols=49 Identities=27% Similarity=0.520 Sum_probs=23.9
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESCQK 176 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~~ 176 (210)
-.|++|.+-+++ ...+..|.|+|+..||..-+.. .||+|+.+...++-+
T Consensus 8 LrCs~C~~~l~~---pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 8 LRCSICFDILKE---PVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQ 56 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS--
T ss_pred cCCcHHHHHhcC---CceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHH
Confidence 479999988775 3233459999999999886553 499999887765543
No 47
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=6.2e-06 Score=72.47 Aligned_cols=52 Identities=37% Similarity=0.685 Sum_probs=43.0
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcC-CCCcccccccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSN-SSCPKCRHCLIESCQ 175 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~-~~CPlCR~~l~~~~~ 175 (210)
.+-.|+|||+-++. -+..+.|.|.|+.+||..-++.. ..||.||..+..+..
T Consensus 42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs 94 (381)
T KOG0311|consen 42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS 94 (381)
T ss_pred hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence 35689999998876 45566799999999999999764 579999999986654
No 48
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.57 E-value=3.9e-05 Score=68.12 Aligned_cols=49 Identities=41% Similarity=0.956 Sum_probs=37.6
Q ss_pred CCCccccccCcccCCC----ceEEcCCCCCccchHHHHHHHh--c-----CCCCcccccc
Q 028342 121 LDTECVICLSEFAPGE----RVRLLPKCNHGFHVRCIDKWLR--S-----NSSCPKCRHC 169 (210)
Q Consensus 121 ~~~~CaICLeef~~~~----~vr~lp~C~H~FH~~CI~~Wl~--~-----~~~CPlCR~~ 169 (210)
.+.+|.||++...+.. ....+|.|.|.|+..||..|-. . .+.||.||..
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~ 219 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVP 219 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCc
Confidence 4679999999866433 1234578999999999999973 2 3579999984
No 49
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.47 E-value=2.9e-05 Score=50.56 Aligned_cols=48 Identities=25% Similarity=0.558 Sum_probs=33.0
Q ss_pred CCCccccccCcccCCCceEEcCCCCCc-cchHH-HHHHHhcCCCCccccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHG-FHVRC-IDKWLRSNSSCPKCRHCLIE 172 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~-FH~~C-I~~Wl~~~~~CPlCR~~l~~ 172 (210)
.+++|.||+|.-.+ . ++-.|||. .+.+| +..|-..+..||+||+++.+
T Consensus 6 ~~dECTICye~pvd--s--VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 6 WSDECTICYEHPVD--S--VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred cccceeeeccCcch--H--HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 34899999987443 2 23349997 45556 44554578899999998764
No 50
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=97.46 E-value=5e-05 Score=58.54 Aligned_cols=38 Identities=24% Similarity=0.572 Sum_probs=31.6
Q ss_pred CCccccccCcccCCCceEEcCCCC------CccchHHHHHHHhcC
Q 028342 122 DTECVICLSEFAPGERVRLLPKCN------HGFHVRCIDKWLRSN 160 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~------H~FH~~CI~~Wl~~~ 160 (210)
.-||+||++.+.+++.++.++ || |.||.+|+++|-+.+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhhc
Confidence 479999999999977777776 76 999999999995433
No 51
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.30 E-value=0.00011 Score=63.59 Aligned_cols=47 Identities=28% Similarity=0.530 Sum_probs=37.4
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHHhc-CCCCccccccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCRHCLIE 172 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR~~l~~ 172 (210)
..+|+||+....- ...++ |+|.|+..||+--.++ +.+|++||.++..
T Consensus 7 ~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 4799999887543 34566 9999999999988766 4579999998763
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.24 E-value=0.00012 Score=65.50 Aligned_cols=52 Identities=29% Similarity=0.692 Sum_probs=40.8
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhc--CCCCccccccccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS--NSSCPKCRHCLIESCQKIV 178 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~--~~~CPlCR~~l~~~~~~~~ 178 (210)
..|-||-|.- ..|++-| |||..+..|+..|-.. ..+||.||..|......++
T Consensus 370 eLCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~vii 423 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVII 423 (563)
T ss_pred HHHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccceee
Confidence 4699997653 4488888 9999999999999744 4689999998876554433
No 53
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.22 E-value=9.6e-05 Score=70.67 Aligned_cols=45 Identities=27% Similarity=0.755 Sum_probs=34.7
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhc-CCCCcccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCRHCLI 171 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR~~l~ 171 (210)
-.|++|-+-..+ .+ +++|+|+||.+||..-+.. +..||.|...+-
T Consensus 644 LkCs~Cn~R~Kd--~v--I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 644 LKCSVCNTRWKD--AV--ITKCGHVFCEECVQTRYETRQRKCPKCNAAFG 689 (698)
T ss_pred eeCCCccCchhh--HH--HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence 579999865554 33 3359999999999999965 568999976553
No 54
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.18 E-value=0.00027 Score=71.57 Aligned_cols=66 Identities=24% Similarity=0.560 Sum_probs=48.5
Q ss_pred hhcceeeeccccCCCCCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcC----------CCCcccccccc
Q 028342 105 KTFTVVKYSTELKLPGLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSN----------SSCPKCRHCLI 171 (210)
Q Consensus 105 ~~lp~~~y~~~~~~~~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~----------~~CPlCR~~l~ 171 (210)
.-+|...-++.....+.++.|-||+.|--.....+.|. |+|+||-+|...-|.++ -+||+|...+-
T Consensus 3469 ~CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3469 HCLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 33455554443334456789999999977777788887 99999999998766553 16999988654
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.15 E-value=0.00018 Score=64.22 Aligned_cols=45 Identities=42% Similarity=1.009 Sum_probs=37.0
Q ss_pred CCccccccCccc-CCCceEEcCCCCCccchHHHHHHHhcCC--CCcccc
Q 028342 122 DTECVICLSEFA-PGERVRLLPKCNHGFHVRCIDKWLRSNS--SCPKCR 167 (210)
Q Consensus 122 ~~~CaICLeef~-~~~~vr~lp~C~H~FH~~CI~~Wl~~~~--~CPlCR 167 (210)
+-.|..|-+.+- .++.+..+| |.|+||..|+.+.|.++. +||.||
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred hhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 467999988764 445677899 999999999999996654 799998
No 56
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.00014 Score=57.70 Aligned_cols=30 Identities=37% Similarity=0.798 Sum_probs=27.3
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccch
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHV 150 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~ 150 (210)
+...||.||||++..++.+..|| |-.+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 34579999999999999999999 9999996
No 57
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.06 E-value=0.00036 Score=46.23 Aligned_cols=41 Identities=29% Similarity=0.636 Sum_probs=28.0
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcC--CCCcc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSN--SSCPK 165 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~~CPl 165 (210)
+..|+|.+..|++ .++... |+|+|-.+.|.+|++++ ..||+
T Consensus 11 ~~~CPiT~~~~~~--PV~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFED--PVKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SS--EEEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhC--CcCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 4789999999884 455554 99999999999999443 36998
No 58
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.0012 Score=57.69 Aligned_cols=45 Identities=18% Similarity=0.349 Sum_probs=36.6
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCR 167 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR 167 (210)
.....|+||+...++.-.+.+ -|-+||..||-..+++++.||+=-
T Consensus 298 ~~~~~CpvClk~r~Nptvl~v---SGyVfCY~Ci~~Yv~~~~~CPVT~ 342 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEV---SGYVFCYPCIFSYVVNYGHCPVTG 342 (357)
T ss_pred CccccChhHHhccCCCceEEe---cceEEeHHHHHHHHHhcCCCCccC
Confidence 345799999998776444433 689999999999999999999853
No 59
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.91 E-value=0.0006 Score=61.83 Aligned_cols=53 Identities=26% Similarity=0.592 Sum_probs=42.4
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESCQ 175 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~ 175 (210)
+.+..|++|...+.+.-.. . .|||.|+..|+..|+..+..||.||..+.....
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred cccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhc
Confidence 4557999999988863222 3 499999999999999999999999887775433
No 60
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.88 E-value=0.00058 Score=66.10 Aligned_cols=52 Identities=35% Similarity=0.762 Sum_probs=41.5
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCC-------CCcccccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNS-------SCPKCRHCLI 171 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-------~CPlCR~~l~ 171 (210)
....+|.||.+.+...+.+-....|.|+||..||..|-++.. .||.|.....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 345799999999998777766667999999999999986521 5999985444
No 61
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.65 E-value=0.00098 Score=60.42 Aligned_cols=48 Identities=35% Similarity=0.901 Sum_probs=40.9
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIE 172 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~ 172 (210)
.+.+|.||..-+.. ...+| |||.|+..||+.-+.....||.||..+.+
T Consensus 83 sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 83 SEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred chhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 45799999888776 66778 99999999999977767789999999885
No 62
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.56 E-value=0.0014 Score=41.56 Aligned_cols=41 Identities=34% Similarity=0.959 Sum_probs=26.2
Q ss_pred cccccCcccCCCceEEcC-CCC---CccchHHHHHHHhc--CCCCccc
Q 028342 125 CVICLSEFAPGERVRLLP-KCN---HGFHVRCIDKWLRS--NSSCPKC 166 (210)
Q Consensus 125 CaICLeef~~~~~vr~lp-~C~---H~FH~~CI~~Wl~~--~~~CPlC 166 (210)
|-||+++-.+++.+ +.| .|. ...|.+|+..|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~~l-i~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPL-ISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-E-E-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCce-ecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 67999987766533 345 243 37899999999964 4569887
No 63
>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=96.45 E-value=0.0013 Score=48.17 Aligned_cols=32 Identities=28% Similarity=0.692 Sum_probs=26.7
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHH
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCID 154 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~ 154 (210)
.+..|++|-..+.. ....+.| |||+||..|++
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 34789999999877 5666778 99999999975
No 64
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.38 E-value=0.0037 Score=49.56 Aligned_cols=51 Identities=24% Similarity=0.600 Sum_probs=35.5
Q ss_pred CCCCccccccCcccCCCceEEcCCCCC---ccchHHHHHHHhcC--CCCcccccccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNH---GFHVRCIDKWLRSN--SSCPKCRHCLIES 173 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H---~FH~~CI~~Wl~~~--~~CPlCR~~l~~~ 173 (210)
..+..|-||.++-. +...-. +|.. .-|.+|+..|+..+ ..|++|+....-.
T Consensus 6 ~~~~~CRIC~~~~~--~~~~PC-~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYD--VVTNYC-NCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCC--CccCCc-ccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 34589999998843 333322 2555 56999999999654 4699998876543
No 65
>PHA02862 5L protein; Provisional
Probab=96.26 E-value=0.0039 Score=48.67 Aligned_cols=48 Identities=23% Similarity=0.589 Sum_probs=34.1
Q ss_pred CCccccccCcccCCCceEEcCCC---CCccchHHHHHHHhc--CCCCccccccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKC---NHGFHVRCIDKWLRS--NSSCPKCRHCLIE 172 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C---~H~FH~~CI~~Wl~~--~~~CPlCR~~l~~ 172 (210)
++.|=||+++-+ +.+.-.. | ...-|.+|+.+|++. +..|++|+.+..-
T Consensus 2 ~diCWIC~~~~~--e~~~PC~-C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 2 SDICWICNDVCD--ERNNFCG-CNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CCEEEEecCcCC--CCccccc-ccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 468999999843 3332222 4 367899999999965 3479999987653
No 66
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.11 E-value=0.0069 Score=51.28 Aligned_cols=64 Identities=13% Similarity=0.138 Sum_probs=51.6
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccccccccccCCCCCCC
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESCQKIVGCSQASS 185 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~~~~~~~~~~~ 185 (210)
...|+||.+.+.+.-.+.+|..|||+|..+|++..++.-..||+|-..+.+.+=.-.-.++|+=
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrGGTGf 284 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRGGTGF 284 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeecccccc
Confidence 3679999999998888877777999999999999999999999998888765443333355543
No 67
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.02 E-value=0.0058 Score=38.96 Aligned_cols=44 Identities=23% Similarity=0.553 Sum_probs=22.0
Q ss_pred cccccCcccCCC-ceEEcCCCCCccchHHHHHHHhc-CCCCcccccc
Q 028342 125 CVICLSEFAPGE-RVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCRHC 169 (210)
Q Consensus 125 CaICLeef~~~~-~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR~~ 169 (210)
|++|.+++...+ ...-.+ |++.++..|...-+++ ...||-||.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 789999984433 334444 8899989998887763 6689999975
No 68
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.95 E-value=0.0033 Score=55.73 Aligned_cols=46 Identities=28% Similarity=0.553 Sum_probs=34.6
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESC 174 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~ 174 (210)
.+.|.||+++..+ ...+| |||+=+ |...-.. -.+||+||+.+.-..
T Consensus 305 p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs~~-l~~CPvCR~rI~~~~ 350 (355)
T KOG1571|consen 305 PDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCSKH-LPQCPVCRQRIRLVR 350 (355)
T ss_pred CCceEEecCCccc---eeeec-CCcEEE--chHHHhh-CCCCchhHHHHHHHH
Confidence 4789999999887 66788 999955 7666432 234999999886543
No 69
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.92 E-value=0.004 Score=57.85 Aligned_cols=48 Identities=29% Similarity=0.594 Sum_probs=36.9
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhc-----CCCCccccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS-----NSSCPKCRHCLIE 172 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-----~~~CPlCR~~l~~ 172 (210)
+.-+|.+|.++-++ .+... |.|.||.-||.+++.. .-+||+|...|.-
T Consensus 535 ~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 535 GEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred CceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 34799999887554 44554 9999999999998743 4589999876653
No 70
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.90 E-value=0.0041 Score=56.01 Aligned_cols=45 Identities=27% Similarity=0.718 Sum_probs=37.5
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcC--------CCCccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSN--------SSCPKCRH 168 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--------~~CPlCR~ 168 (210)
..|.||+++....+....+| |+|+|+..|...++..+ -+||-+..
T Consensus 185 f~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred ccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 68999999988878889999 99999999999998442 25876643
No 71
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.87 E-value=0.00041 Score=61.89 Aligned_cols=49 Identities=24% Similarity=0.598 Sum_probs=43.4
Q ss_pred CCccccccCcccCC-CceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 122 DTECVICLSEFAPG-ERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 122 ~~~CaICLeef~~~-~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
...|+||.+.++.. +.+..+. |||++|.+|+..||..+..||.||+.|.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 36899999999877 6677776 9999999999999999999999999775
No 72
>PHA03096 p28-like protein; Provisional
Probab=95.86 E-value=0.0039 Score=54.18 Aligned_cols=46 Identities=26% Similarity=0.606 Sum_probs=32.9
Q ss_pred CccccccCcccCCC----ceEEcCCCCCccchHHHHHHHhcC---CCCccccc
Q 028342 123 TECVICLSEFAPGE----RVRLLPKCNHGFHVRCIDKWLRSN---SSCPKCRH 168 (210)
Q Consensus 123 ~~CaICLeef~~~~----~vr~lp~C~H~FH~~CI~~Wl~~~---~~CPlCR~ 168 (210)
.+|.||++...... .--.|+.|.|.|+..||..|...+ ..||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 58999999876432 223577899999999999998542 24555443
No 73
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.84 E-value=0.013 Score=38.20 Aligned_cols=35 Identities=26% Similarity=0.745 Sum_probs=31.0
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHH
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDK 155 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~ 155 (210)
....|.+|-+.|.+++.+.+.|.|+-.+|.+|-+.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 34789999999998899999999999999999654
No 74
>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=95.76 E-value=0.0046 Score=38.51 Aligned_cols=41 Identities=34% Similarity=0.831 Sum_probs=23.2
Q ss_pred cccccCcccCCCceEEcCCCCCccchHHHHHHHhcCC--CCccc
Q 028342 125 CVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNS--SCPKC 166 (210)
Q Consensus 125 CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~--~CPlC 166 (210)
|.+|-+-.-.|...... .|+=.+|..|++.+++.+. .||.|
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 66776665555444333 4888999999999998766 69988
No 75
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.75 E-value=0.0021 Score=56.31 Aligned_cols=50 Identities=24% Similarity=0.611 Sum_probs=42.1
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIES 173 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~ 173 (210)
....|.+|-+-|.+...+. .|-|-||..||-..|....+||.|...+-..
T Consensus 14 ~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred cceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 3579999999988755543 4999999999999999999999998877644
No 76
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.64 E-value=0.017 Score=51.21 Aligned_cols=67 Identities=21% Similarity=0.367 Sum_probs=46.6
Q ss_pred HhhhhhcceeeeccccCCCCCCCccccccCcccCCCceEEcCCCCCccchHHHHHH--HhcCCCCcccccccc
Q 028342 101 QKALKTFTVVKYSTELKLPGLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKW--LRSNSSCPKCRHCLI 171 (210)
Q Consensus 101 ~~~i~~lp~~~y~~~~~~~~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~W--l~~~~~CPlCR~~l~ 171 (210)
+..+..-|...-.......++...|.||-+...- ..++| |+|..+.-|--.- |-.++.||+||...-
T Consensus 40 KNnlsaEPnlttsSaddtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 40 KNNLSAEPNLTTSSADDTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccCCccccccccccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 3345555665554444444556789999877554 56788 9999999986543 456789999998654
No 77
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.30 E-value=0.012 Score=47.61 Aligned_cols=32 Identities=31% Similarity=0.880 Sum_probs=26.0
Q ss_pred CCCCccchHHHHHHHhc----C-------CCCccccccccccc
Q 028342 143 KCNHGFHVRCIDKWLRS----N-------SSCPKCRHCLIESC 174 (210)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~----~-------~~CPlCR~~l~~~~ 174 (210)
.||.-||.-|+..||+. + ..||.|-.++.-+.
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 49999999999999964 1 26999988877554
No 78
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.12 E-value=0.0079 Score=49.40 Aligned_cols=44 Identities=20% Similarity=0.525 Sum_probs=36.9
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCL 170 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l 170 (210)
..|.||-.+|+. ..+.. |||.|+..|...-++....|-+|-...
T Consensus 197 F~C~iCKkdy~s---pvvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYES---PVVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccc---hhhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence 479999999986 44454 999999999999888888999996543
No 79
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.07 E-value=0.024 Score=48.67 Aligned_cols=49 Identities=27% Similarity=0.484 Sum_probs=34.1
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcC--CCCcccccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSN--SSCPKCRHCLI 171 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~~CPlCR~~l~ 171 (210)
..+.+|++|-+.-.. ..+..+|+|+||.-||..=+... -+||.|-.+..
T Consensus 237 t~~~~C~~Cg~~Pti---P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTI---PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCC---CeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 456899999665221 22222499999999999876543 48999955544
No 80
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.94 E-value=0.0093 Score=50.23 Aligned_cols=43 Identities=26% Similarity=0.701 Sum_probs=32.4
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCC-CCcccccccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNS-SCPKCRHCLI 171 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~-~CPlCR~~l~ 171 (210)
.|-.|.- +..++...++. |+|+||..|...- .. .||+||.++-
T Consensus 5 hCn~C~~-~~~~~~f~LTa-C~HvfC~~C~k~~---~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFR-FPSQDPFFLTA-CRHVFCEPCLKAS---SPDVCPLCKKSIR 48 (233)
T ss_pred Eeccccc-cCCCCceeeee-chhhhhhhhcccC---Cccccccccceee
Confidence 4666654 34478888886 9999999997763 33 8999999843
No 81
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.72 E-value=0.024 Score=49.38 Aligned_cols=43 Identities=30% Similarity=0.660 Sum_probs=33.2
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHh-cCCCCccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLR-SNSSCPKCRH 168 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~-~~~~CPlCR~ 168 (210)
-.|+.|..-..+ ...++-|+|.|+.+||..-|. .-..||.|.+
T Consensus 275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 689999776654 233466999999999998875 4568999954
No 82
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.44 E-value=0.03 Score=49.83 Aligned_cols=49 Identities=27% Similarity=0.565 Sum_probs=40.3
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIE 172 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~ 172 (210)
.+++.|+||... .......| |+|.=+..||.+-+.+.+.|=.|+..+.+
T Consensus 420 sEd~lCpICyA~---pi~Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecc---cchhhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 467899999754 22244567 99999999999999999999999998774
No 83
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.32 E-value=0.0088 Score=51.79 Aligned_cols=44 Identities=25% Similarity=0.680 Sum_probs=31.3
Q ss_pred CCccccccCcccCCCceEEcCCCCCcc-chHHHHHHHhcCCCCcccccccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGF-HVRCIDKWLRSNSSCPKCRHCLIES 173 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~F-H~~CI~~Wl~~~~~CPlCR~~l~~~ 173 (210)
...|+||++.-.+ +..|+ |||.. +.+|-+. -..||+||+-++..
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~rv 344 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKR----MNECPICRQYIVRV 344 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhccc----cccCchHHHHHHHH
Confidence 5689999988665 77888 99973 3444222 23799999987643
No 84
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=94.27 E-value=0.024 Score=54.81 Aligned_cols=24 Identities=33% Similarity=0.935 Sum_probs=22.0
Q ss_pred CCCCCccchHHHHHHHhcCCCCcc
Q 028342 142 PKCNHGFHVRCIDKWLRSNSSCPK 165 (210)
Q Consensus 142 p~C~H~FH~~CI~~Wl~~~~~CPl 165 (210)
..|+|+.|..|..+|+++...||.
T Consensus 1046 g~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhcCCcCCC
Confidence 359999999999999999999985
No 85
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.16 E-value=0.043 Score=53.82 Aligned_cols=36 Identities=22% Similarity=0.533 Sum_probs=28.6
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHH
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWL 157 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl 157 (210)
+-++.|.+|.-.+... .-.+.| |||.||.+||..-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 3468999998887753 445667 99999999998875
No 86
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.02 E-value=0.043 Score=53.60 Aligned_cols=42 Identities=26% Similarity=0.699 Sum_probs=30.6
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCL 170 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l 170 (210)
..|..|-...+- ..+--.|||.||.+|++ .....||-|+.++
T Consensus 841 skCs~C~~~Ldl---P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDL---PFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCcccc---ceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 589999776553 22222399999999999 4556799998833
No 87
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.94 E-value=0.051 Score=47.18 Aligned_cols=45 Identities=27% Similarity=0.455 Sum_probs=37.3
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
..|-||...|.. ..+. .|+|-|+..|-..=++....|.+|-+...
T Consensus 242 f~c~icr~~f~~---pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYR---PVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred cccccccccccc---chhh-cCCceeehhhhccccccCCcceecccccc
Confidence 469999999986 3344 49999999999988888899999977654
No 88
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.75 E-value=0.085 Score=45.71 Aligned_cols=47 Identities=32% Similarity=0.755 Sum_probs=38.4
Q ss_pred CccccccCcccCCCc---eEEcCCCCCccchHHHHHHHhcCC-CCccccccc
Q 028342 123 TECVICLSEFAPGER---VRLLPKCNHGFHVRCIDKWLRSNS-SCPKCRHCL 170 (210)
Q Consensus 123 ~~CaICLeef~~~~~---vr~lp~C~H~FH~~CI~~Wl~~~~-~CPlCR~~l 170 (210)
.+|-||-++|..++. .|.+. |||.|+..|+..-+.+.. .||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 589999999987643 35665 999999999998876644 699999985
No 89
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.55 E-value=0.039 Score=56.12 Aligned_cols=45 Identities=31% Similarity=0.699 Sum_probs=37.9
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHC 169 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~ 169 (210)
...|.||++.+.....+.. |||.++..|+..|+..+..||.|...
T Consensus 1153 ~~~c~ic~dil~~~~~I~~---cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIAG---CGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred ccchHHHHHHHHhcCCeee---echhHhhhHHHHHHHHhccCcchhhh
Confidence 3589999999886444442 99999999999999999999999743
No 90
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.41 E-value=0.049 Score=52.77 Aligned_cols=48 Identities=31% Similarity=0.692 Sum_probs=36.9
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcC--CCCcccccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSN--SSCPKCRHCLIESCQ 175 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~~CPlCR~~l~~~~~ 175 (210)
..|.||++ .+.....+ |+|.|+.+|+..-+... ..||+||..+.++.-
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 68999999 23445555 99999999999887543 369999998875543
No 91
>PF04641 Rtf2: Rtf2 RING-finger
Probab=92.38 E-value=0.15 Score=43.73 Aligned_cols=50 Identities=18% Similarity=0.398 Sum_probs=38.0
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
....|+|...+|........+-.|||+|-..+|++- +....||+|-.++.
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT 161 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence 347899999999655444444339999999999997 33457999977766
No 92
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=91.75 E-value=0.095 Score=45.35 Aligned_cols=45 Identities=27% Similarity=0.648 Sum_probs=37.0
Q ss_pred CccccccCcccCCC-ceEEcCCCCCccchHHHHHHHhcCCCCccccc
Q 028342 123 TECVICLSEFAPGE-RVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRH 168 (210)
Q Consensus 123 ~~CaICLeef~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~ 168 (210)
..|+||.+.+-... .+..++ |||.-|..|+......+-+||+|..
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 45999999865544 445666 9999999999999887899999977
No 93
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=91.53 E-value=0.093 Score=34.34 Aligned_cols=42 Identities=29% Similarity=0.602 Sum_probs=29.7
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
.|-.|... +..-.++| |+|+....|++-| +-.-||.|-..+.
T Consensus 9 ~~~~~~~~---~~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~ 50 (55)
T PF14447_consen 9 PCVFCGFV---GTKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFE 50 (55)
T ss_pred eEEEcccc---cccccccc-ccceeeccccChh--hccCCCCCCCccc
Confidence 45555433 23345677 9999999998875 5556999977665
No 94
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.49 E-value=0.15 Score=45.19 Aligned_cols=59 Identities=19% Similarity=0.424 Sum_probs=39.4
Q ss_pred CCCCccccccCcccCCCce-EEcCCCCCccchHHHHHHHh-cCCCCcccccccccccccccC
Q 028342 120 GLDTECVICLSEFAPGERV-RLLPKCNHGFHVRCIDKWLR-SNSSCPKCRHCLIESCQKIVG 179 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~v-r~lp~C~H~FH~~CI~~Wl~-~~~~CPlCR~~l~~~~~~~~~ 179 (210)
++++-|+.|++++.-.|+- .-+| ||-..+.-|...--+ -+..||-||+...+..-+++.
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~~ 72 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYVT 72 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccceeEEe
Confidence 4456799999999876654 3456 887766666444322 256899999877655444443
No 95
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=90.95 E-value=0.18 Score=45.33 Aligned_cols=27 Identities=33% Similarity=1.010 Sum_probs=19.7
Q ss_pred CCCccchHHHHHHHhc-------------CCCCccccccc
Q 028342 144 CNHGFHVRCIDKWLRS-------------NSSCPKCRHCL 170 (210)
Q Consensus 144 C~H~FH~~CI~~Wl~~-------------~~~CPlCR~~l 170 (210)
|.-..+.+|+.+|+.. +..||+||+..
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 3345578999999944 33699999864
No 96
>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=90.72 E-value=0.3 Score=38.82 Aligned_cols=36 Identities=25% Similarity=0.616 Sum_probs=22.3
Q ss_pred CCccccccCcccCCCce---------EEcCCCCCc-cchHHHHHHHh
Q 028342 122 DTECVICLSEFAPGERV---------RLLPKCNHG-FHVRCIDKWLR 158 (210)
Q Consensus 122 ~~~CaICLeef~~~~~v---------r~lp~C~H~-FH~~CI~~Wl~ 158 (210)
+..|+||||--.+.-.+ |--- |+-. =|..|++++-+
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHHH
Confidence 46899999876543222 1111 5533 37889999864
No 97
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=90.56 E-value=0.22 Score=41.11 Aligned_cols=41 Identities=39% Similarity=0.815 Sum_probs=31.0
Q ss_pred CCCccccccCc-----ccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccc
Q 028342 121 LDTECVICLSE-----FAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCR 167 (210)
Q Consensus 121 ~~~~CaICLee-----f~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR 167 (210)
.+..|.+|-++ |+. +.+...++|+-+||.+|.. +..||-|-
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 35789999753 333 4667788899999999976 36799993
No 98
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.14 E-value=0.14 Score=48.40 Aligned_cols=49 Identities=33% Similarity=0.798 Sum_probs=40.8
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESCQK 176 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~~ 176 (210)
+..+.|+||++++ ..+..+ |. |.-|+..|+..+..||+|+..+......
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred cccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 4468999999998 456666 88 9999999999999999999988765553
No 99
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.15 E-value=0.11 Score=49.55 Aligned_cols=42 Identities=29% Similarity=0.585 Sum_probs=31.5
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCR 167 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR 167 (210)
-.|.||+..|......-+...|||..+.+|+..- -+.+|| |.
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~ 53 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TK 53 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CC
Confidence 4799999998765544333459999999999874 466788 53
No 100
>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=88.65 E-value=1.2 Score=26.83 Aligned_cols=30 Identities=17% Similarity=0.369 Sum_probs=14.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhccCc
Q 028342 49 NVLMVLSVLLCALICAIGLASLVKCSLRCSR 79 (210)
Q Consensus 49 ~~iiil~il~~~li~~l~l~~i~~~~~r~~~ 79 (210)
.+.++.++++.+.++++.+. .+-|++|+.+
T Consensus 5 ~IaIIv~V~vg~~iiii~~~-~YaCcykk~~ 34 (38)
T PF02439_consen 5 TIAIIVAVVVGMAIIIICMF-YYACCYKKHR 34 (38)
T ss_pred hhhHHHHHHHHHHHHHHHHH-HHHHHHcccc
Confidence 34555555555444444443 4445555443
No 101
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.43 E-value=0.19 Score=45.65 Aligned_cols=38 Identities=26% Similarity=0.624 Sum_probs=28.6
Q ss_pred CCccccccCcccCC-CceEEcCCCCCccchHHHHHHHhcC
Q 028342 122 DTECVICLSEFAPG-ERVRLLPKCNHGFHVRCIDKWLRSN 160 (210)
Q Consensus 122 ~~~CaICLeef~~~-~~vr~lp~C~H~FH~~CI~~Wl~~~ 160 (210)
..+|.||..+...+ +... ..+|+|.|+.+|+.+.+..+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhhh
Confidence 47899999555544 4444 44599999999999998644
No 102
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=87.58 E-value=0.23 Score=43.55 Aligned_cols=44 Identities=30% Similarity=0.620 Sum_probs=28.1
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
..|--|--.+. .--|..| |+|+||.+|-.. ..-+.||.|-..+.
T Consensus 91 HfCd~Cd~PI~--IYGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIA--IYGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCcce--eeecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence 35766633322 2236788 999999999654 23457999965443
No 103
>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=87.57 E-value=0.23 Score=42.08 Aligned_cols=48 Identities=27% Similarity=0.740 Sum_probs=35.6
Q ss_pred CCCccccccCcc-c-CCCceEEcCCCCCccchHHHHHHHhc-CCCCc--cccc
Q 028342 121 LDTECVICLSEF-A-PGERVRLLPKCNHGFHVRCIDKWLRS-NSSCP--KCRH 168 (210)
Q Consensus 121 ~~~~CaICLeef-~-~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CP--lCR~ 168 (210)
.+..|+||-.+. - .+-.+-+-|.|-|..|..|++.-+.. ...|| -|-.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 346899998873 3 33344455789999999999999965 45899 7743
No 104
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=86.87 E-value=0.41 Score=41.41 Aligned_cols=51 Identities=27% Similarity=0.686 Sum_probs=35.9
Q ss_pred CCccccccCcccCCCc-eEEcCCCC-----CccchHHHHHHHhc--CCCCcccccccccc
Q 028342 122 DTECVICLSEFAPGER-VRLLPKCN-----HGFHVRCIDKWLRS--NSSCPKCRHCLIES 173 (210)
Q Consensus 122 ~~~CaICLeef~~~~~-vr~lp~C~-----H~FH~~CI~~Wl~~--~~~CPlCR~~l~~~ 173 (210)
+..|-||.++...... ....| |. +..|..|++.|+.. ...|.+|.......
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 4789999998664332 23444 54 67799999999974 44699997755433
No 105
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=86.52 E-value=0.62 Score=40.47 Aligned_cols=46 Identities=22% Similarity=0.640 Sum_probs=33.1
Q ss_pred ccccccCc-ccCCCce-EEcCCCCCccchHHHHHHHh-cCCCCccccccc
Q 028342 124 ECVICLSE-FAPGERV-RLLPKCNHGFHVRCIDKWLR-SNSSCPKCRHCL 170 (210)
Q Consensus 124 ~CaICLee-f~~~~~v-r~lp~C~H~FH~~CI~~Wl~-~~~~CPlCR~~l 170 (210)
.|++|-.. |-+.+.. .+-+ |+|..+..|++.-+. ....||-|-..|
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 58888766 3333433 3335 999999999999985 456899996544
No 106
>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 KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.50 E-value=0.48 Score=40.54 Aligned_cols=52 Identities=27% Similarity=0.742 Sum_probs=34.7
Q ss_pred CCCCccccccCcccCCCce-EEcC-CCC---CccchHHHHHHHhcC--------CCCcccccccc
Q 028342 120 GLDTECVICLSEFAPGERV-RLLP-KCN---HGFHVRCIDKWLRSN--------SSCPKCRHCLI 171 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~v-r~lp-~C~---H~FH~~CI~~Wl~~~--------~~CPlCR~~l~ 171 (210)
+.+..|=||+..=+++..- -+-| .|. |=-|..|+..|+..+ -.||-|+..-.
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 3457899999875544322 1233 143 889999999999332 15999988654
No 108
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=83.98 E-value=0.96 Score=44.09 Aligned_cols=41 Identities=24% Similarity=0.508 Sum_probs=31.1
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPK 165 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPl 165 (210)
..|.+|-..+.. .....+.|+|.-|.+|+..|+.....||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhcCCCCcc
Confidence 478999665443 22245579999999999999988887766
No 109
>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=82.86 E-value=2.4 Score=32.39 Aligned_cols=17 Identities=6% Similarity=0.124 Sum_probs=7.9
Q ss_pred hHHHHHHHHHHHHHHHH
Q 028342 49 NVLMVLSVLLCALICAI 65 (210)
Q Consensus 49 ~~iiil~il~~~li~~l 65 (210)
..+|++++++.++.++|
T Consensus 66 i~~Ii~gv~aGvIg~Il 82 (122)
T PF01102_consen 66 IIGIIFGVMAGVIGIIL 82 (122)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred eeehhHHHHHHHHHHHH
Confidence 34455555544444333
No 110
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.84 E-value=1.1 Score=40.60 Aligned_cols=45 Identities=18% Similarity=0.409 Sum_probs=37.2
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCC---CCccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNS---SCPKCRH 168 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~---~CPlCR~ 168 (210)
-.|||=-++=.++.....|. |||+...+-+.+--++.. .||.|=.
T Consensus 335 F~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred eecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 57999888877777778887 999999999999877654 6999943
No 111
>PF15050 SCIMP: SCIMP protein
Probab=82.83 E-value=2.8 Score=31.85 Aligned_cols=32 Identities=22% Similarity=0.399 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHH--HHHHHhccCcc
Q 028342 49 NVLMVLSVLLCALICAIGLAS--LVKCSLRCSRL 80 (210)
Q Consensus 49 ~~iiil~il~~~li~~l~l~~--i~~~~~r~~~~ 80 (210)
+.||||++.++++.+.|++++ ++|+.+|..+.
T Consensus 7 nFWiiLAVaII~vS~~lglIlyCvcR~~lRqGkk 40 (133)
T PF15050_consen 7 NFWIILAVAIILVSVVLGLILYCVCRWQLRQGKK 40 (133)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence 456666665444444444333 34444444433
No 112
>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=82.74 E-value=0.69 Score=29.06 Aligned_cols=43 Identities=23% Similarity=0.563 Sum_probs=30.3
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHHHHHHh------cCCCCcccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLR------SNSSCPKCR 167 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~------~~~~CPlCR 167 (210)
.|.||.. ..+++.+.....|+..||..|+..=.. ..-.||.|+
T Consensus 1 ~C~vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCC-cCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 3889988 444556666777999999999876542 123688775
No 113
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=82.73 E-value=1.1 Score=44.03 Aligned_cols=52 Identities=23% Similarity=0.545 Sum_probs=38.5
Q ss_pred CCCCCccccccCcccCCCceEEcC-CCC---CccchHHHHHHHhcC--CCCcccccccc
Q 028342 119 PGLDTECVICLSEFAPGERVRLLP-KCN---HGFHVRCIDKWLRSN--SSCPKCRHCLI 171 (210)
Q Consensus 119 ~~~~~~CaICLeef~~~~~vr~lp-~C~---H~FH~~CI~~Wl~~~--~~CPlCR~~l~ 171 (210)
++++..|-||..+=-.++.+-. | +|. .-.|.+|+-+|+.-. ..|-+|+.+..
T Consensus 9 N~d~~~CRICr~e~~~d~pLfh-PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLFH-PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred CccchhceeecCCCCCCCcCcc-cccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 4456899999998666666533 3 243 568999999999754 46999988765
No 114
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.62 E-value=0.82 Score=39.89 Aligned_cols=36 Identities=19% Similarity=0.490 Sum_probs=25.9
Q ss_pred CCCccchHHHHHHHhc-------------CCCCcccccccccccccccC
Q 028342 144 CNHGFHVRCIDKWLRS-------------NSSCPKCRHCLIESCQKIVG 179 (210)
Q Consensus 144 C~H~FH~~CI~~Wl~~-------------~~~CPlCR~~l~~~~~~~~~ 179 (210)
|.-..+.+|+.+|+.. +.+||+||...--.+-.+++
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v~ 373 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCVD 373 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEEE
Confidence 6677889999999833 44799999977655444433
No 115
>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=81.37 E-value=1.1 Score=28.54 Aligned_cols=44 Identities=23% Similarity=0.521 Sum_probs=25.1
Q ss_pred ccccccCcccCCCceEEcCCCC-CccchHHHHHHHhcCCCCcccccccccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCN-HGFHVRCIDKWLRSNSSCPKCRHCLIES 173 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~-H~FH~~CI~~Wl~~~~~CPlCR~~l~~~ 173 (210)
-|--|+-+.+. ++. |+ |-.+-.|+..-+.....||+|..+|.++
T Consensus 4 nCKsCWf~~k~---Li~---C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFANKG---LIK---CSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S--SS---EEE----SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred cChhhhhcCCC---eee---ecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 35556644332 333 76 9999999999999999999999888754
No 116
>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=81.03 E-value=1.3 Score=28.60 Aligned_cols=42 Identities=31% Similarity=0.812 Sum_probs=22.3
Q ss_pred cccccCcccCCC------ceEEcCCCCCccchHHHHHHHhc-CCCCcccc
Q 028342 125 CVICLSEFAPGE------RVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCR 167 (210)
Q Consensus 125 CaICLeef~~~~------~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR 167 (210)
|--|+..|..+. ..-..|+|++.|+.+| |..+-. =.+||-|-
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 556777777652 4566788999999998 333322 23799883
No 117
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=80.46 E-value=0.58 Score=44.54 Aligned_cols=41 Identities=27% Similarity=0.771 Sum_probs=27.4
Q ss_pred CCccccccC-----cccCCCceEEcCCCCCccchHHHHHHHhcCCCCccc
Q 028342 122 DTECVICLS-----EFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKC 166 (210)
Q Consensus 122 ~~~CaICLe-----ef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlC 166 (210)
...|.+|-. .|+ .+.++.+-.|+++||..|+.. ....||.|
T Consensus 511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 467888822 133 344555556999999999655 34459999
No 118
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=80.39 E-value=1.4 Score=38.79 Aligned_cols=44 Identities=20% Similarity=0.538 Sum_probs=31.7
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIE 172 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~ 172 (210)
-+|+||.+.+... +.+.+ =||.-+..|-. +....||.||.++..
T Consensus 49 leCPvC~~~l~~P--i~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 49 LDCPVCFNPLSPP--IFQCD-NGHLACSSCRT---KVSNKCPTCRLPIGN 92 (299)
T ss_pred ccCchhhccCccc--ceecC-CCcEehhhhhh---hhcccCCcccccccc
Confidence 5899999998752 23322 35888888854 346689999998873
No 119
>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=79.38 E-value=2.3 Score=32.45 Aligned_cols=32 Identities=6% Similarity=-0.080 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhccCcc
Q 028342 49 NVLMVLSVLLCALICAIGLASLVKCSLRCSRL 80 (210)
Q Consensus 49 ~~iiil~il~~~li~~l~l~~i~~~~~r~~~~ 80 (210)
--.++++++++++.+++++.++..|++|++++
T Consensus 63 ~~~i~~Ii~gv~aGvIg~Illi~y~irR~~Kk 94 (122)
T PF01102_consen 63 EPAIIGIIFGVMAGVIGIILLISYCIRRLRKK 94 (122)
T ss_dssp -TCHHHHHHHHHHHHHHHHHHHHHHHHHHS--
T ss_pred ccceeehhHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 35555555555444444444444444444443
No 120
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=79.23 E-value=1.2 Score=26.51 Aligned_cols=26 Identities=31% Similarity=0.636 Sum_probs=17.1
Q ss_pred ccccccCcccCCCc-------eEEcCCCCCccc
Q 028342 124 ECVICLSEFAPGER-------VRLLPKCNHGFH 149 (210)
Q Consensus 124 ~CaICLeef~~~~~-------vr~lp~C~H~FH 149 (210)
.|+-|-..|+-.+. ....++|+|+|+
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 67888877764432 334667888885
No 121
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=78.57 E-value=5.1 Score=29.48 Aligned_cols=28 Identities=21% Similarity=0.421 Sum_probs=16.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028342 48 SNVLMVLSVLLCALICAIGLASLVKCSL 75 (210)
Q Consensus 48 ~~~iiil~il~~~li~~l~l~~i~~~~~ 75 (210)
..|-+++++++.++++.+++++.++|-.
T Consensus 15 ~sW~~LVGVv~~al~~SlLIalaaKC~~ 42 (102)
T PF15176_consen 15 RSWPFLVGVVVTALVTSLLIALAAKCPV 42 (102)
T ss_pred cccHhHHHHHHHHHHHHHHHHHHHHhHH
Confidence 3455666666666666666666666643
No 122
>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=77.87 E-value=1.2 Score=24.54 Aligned_cols=23 Identities=26% Similarity=0.677 Sum_probs=14.5
Q ss_pred ccccccCcccCCCceEEcCCCCCcc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGF 148 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~F 148 (210)
.|+-|-.++.. ..+..|.|||.|
T Consensus 2 ~CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--hcCcCCCCCCCC
Confidence 47777666543 334566788877
No 123
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=77.03 E-value=1.4 Score=37.88 Aligned_cols=48 Identities=31% Similarity=0.704 Sum_probs=36.1
Q ss_pred CccccccCcccCCCceEEc---CCCCCccchHHHHHHHhc---------CCCCccccccc
Q 028342 123 TECVICLSEFAPGERVRLL---PKCNHGFHVRCIDKWLRS---------NSSCPKCRHCL 170 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~l---p~C~H~FH~~CI~~Wl~~---------~~~CPlCR~~l 170 (210)
.+|-+|..++.+.+..+.. +.|+-.+|..|+..-+.. ...||.|+..+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 6999999999555555442 368999999999995422 34799998744
No 124
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=76.11 E-value=1.6 Score=36.40 Aligned_cols=43 Identities=26% Similarity=0.651 Sum_probs=34.1
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRH 168 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~ 168 (210)
..|.+|..-.-. .+.+..||-.+|..|+...+.+...||.|-.
T Consensus 182 k~Cn~Ch~LvIq---g~rCg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 182 KNCNLCHCLVIQ---GIRCGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHhHhHHHhhe---eeccCcccchhhhHHHHHHhcccCcCCchhc
Confidence 589999776433 2344558899999999999999999999943
No 125
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=75.98 E-value=1.9 Score=34.59 Aligned_cols=13 Identities=8% Similarity=0.212 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHHH
Q 028342 50 VLMVLSVLLCALI 62 (210)
Q Consensus 50 ~iiil~il~~~li 62 (210)
.+|+++|++++++
T Consensus 78 ~~iivgvi~~Vi~ 90 (179)
T PF13908_consen 78 TGIIVGVICGVIA 90 (179)
T ss_pred eeeeeehhhHHHH
Confidence 3344444443333
No 126
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=74.58 E-value=2 Score=42.33 Aligned_cols=50 Identities=12% Similarity=0.278 Sum_probs=35.0
Q ss_pred CCccccccCcccCCC---ceEEcCCCCCccchHHHHHHHhc------CCCCcccccccc
Q 028342 122 DTECVICLSEFAPGE---RVRLLPKCNHGFHVRCIDKWLRS------NSSCPKCRHCLI 171 (210)
Q Consensus 122 ~~~CaICLeef~~~~---~vr~lp~C~H~FH~~CI~~Wl~~------~~~CPlCR~~l~ 171 (210)
...|.||.-++.+.+ .+-.+.+|+|.|+..||..|... +-.|+.|...|-
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 467888888887622 22233369999999999999832 335788876553
No 127
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=74.51 E-value=2.4 Score=32.82 Aligned_cols=50 Identities=22% Similarity=0.475 Sum_probs=33.0
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHH-HHH--hcCCCCccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCID-KWL--RSNSSCPKCRHCLIE 172 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~-~Wl--~~~~~CPlCR~~l~~ 172 (210)
.+|-||.|.-.+..-+.--.-||-..+--|.. -|- ..+..||+|+.+...
T Consensus 81 YeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 81 YECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred eeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 69999988755432221111489888877754 553 346789999988764
No 128
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=73.45 E-value=0.86 Score=44.09 Aligned_cols=49 Identities=33% Similarity=0.675 Sum_probs=37.0
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhc---CCCCcccccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS---NSSCPKCRHCLIESCQ 175 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~---~~~CPlCR~~l~~~~~ 175 (210)
.+|+||+..+... ..+ +|.|.|..-|+..=|.. ...||+|+..+.....
T Consensus 22 lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~ 73 (684)
T KOG4362|consen 22 LECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL 73 (684)
T ss_pred ccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence 6999999998864 334 59999999998766544 4479999877765443
No 129
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.72 E-value=5.1 Score=30.13 Aligned_cols=46 Identities=24% Similarity=0.413 Sum_probs=34.0
Q ss_pred CCccccccCcccCC----------CceEEcCCCCCccchHHHHHHHhcCCCCcccc
Q 028342 122 DTECVICLSEFAPG----------ERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCR 167 (210)
Q Consensus 122 ~~~CaICLeef~~~----------~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR 167 (210)
...|--|+..|.+. ...-..++|++.|+.+|=.-+-..=.+||-|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 35799999998753 12345778999999999666555556799995
No 130
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=72.12 E-value=3.4 Score=24.48 Aligned_cols=26 Identities=23% Similarity=0.544 Sum_probs=16.5
Q ss_pred ccccccCcccCCCc-------eEEcCCCCCccc
Q 028342 124 ECVICLSEFAPGER-------VRLLPKCNHGFH 149 (210)
Q Consensus 124 ~CaICLeef~~~~~-------vr~lp~C~H~FH 149 (210)
+|+=|...|.-+|. -...++|+|+|+
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 57778777764443 234556888875
No 131
>PF15102 TMEM154: TMEM154 protein family
Probab=70.74 E-value=2.7 Score=32.99 Aligned_cols=9 Identities=33% Similarity=0.999 Sum_probs=5.7
Q ss_pred hHHHHHHHh
Q 028342 150 VRCIDKWLR 158 (210)
Q Consensus 150 ~~CI~~Wl~ 158 (210)
-+=+|+|+.
T Consensus 127 meeldkwm~ 135 (146)
T PF15102_consen 127 MEELDKWMN 135 (146)
T ss_pred HHHHHhHHH
Confidence 445777774
No 132
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=70.39 E-value=1.2 Score=34.65 Aligned_cols=81 Identities=27% Similarity=0.419 Sum_probs=40.5
Q ss_pred CCCCccccccCc-ccCCCceEEcCCCCCccchHHHHHH-HhcCC---CCccccc--ccccccccccCCCCCCCCCccccc
Q 028342 120 GLDTECVICLSE-FAPGERVRLLPKCNHGFHVRCIDKW-LRSNS---SCPKCRH--CLIESCQKIVGCSQASSSSMAMQE 192 (210)
Q Consensus 120 ~~~~~CaICLee-f~~~~~vr~lp~C~H~FH~~CI~~W-l~~~~---~CPlCR~--~l~~~~~~~~~~~~~~~~~~~~~~ 192 (210)
+.+..|.||+-. |.+|-.-.-.- |.-.|+..|-..- ++++. .|-+||. .|..+.++-.-.+++ .+ |+.+.
T Consensus 63 ~ddatC~IC~KTKFADG~GH~C~Y-Cq~r~CARCGGrv~lrsNKv~wvcnlc~k~q~il~ksg~wf~~sgs-~~-~~~pd 139 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADGCGHNCSY-CQTRFCARCGGRVSLRSNKVMWVCNLCRKQQEILTKSGAWFYNSGS-NT-PQQPD 139 (169)
T ss_pred CcCcchhhhhhcccccccCcccch-hhhhHHHhcCCeeeeccCceEEeccCCcHHHHHHHhcchHHHhcCC-CC-CCCcc
Confidence 456899999854 55532222222 3344555554333 23232 4999965 566666655543222 11 23333
Q ss_pred cccCCCCCCCCc
Q 028342 193 SVSNIVPLEPES 204 (210)
Q Consensus 193 ~~~~~~~~~~~~ 204 (210)
.-+ ++||..|.
T Consensus 140 ~~v-~~~~~~~~ 150 (169)
T KOG3799|consen 140 QKV-LRGLRNEE 150 (169)
T ss_pred ccc-ccchhccc
Confidence 333 55665443
No 133
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.55 E-value=2.5 Score=35.09 Aligned_cols=41 Identities=34% Similarity=0.595 Sum_probs=28.1
Q ss_pred cccccCcccCCCceEEcCCCCCc-cchHHHHHHHhcCCCCcccccccccc
Q 028342 125 CVICLSEFAPGERVRLLPKCNHG-FHVRCIDKWLRSNSSCPKCRHCLIES 173 (210)
Q Consensus 125 CaICLeef~~~~~vr~lp~C~H~-FH~~CI~~Wl~~~~~CPlCR~~l~~~ 173 (210)
|-.|-+ .+..|-++| |.|. ++..|=+. -..||+|+......
T Consensus 161 Cr~C~~---~~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s~ 202 (207)
T KOG1100|consen 161 CRKCGE---REATVLLLP-CRHLCLCGICDES----LRICPICRSPKTSS 202 (207)
T ss_pred ceecCc---CCceEEeec-ccceEeccccccc----CccCCCCcChhhce
Confidence 878854 455688999 9965 55667433 44699998766543
No 134
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.56 E-value=2.1 Score=42.07 Aligned_cols=43 Identities=23% Similarity=0.543 Sum_probs=30.6
Q ss_pred CCccccccCccc-CC---CceEEcCCCCCccchHHHHHHHhcCCCCccc
Q 028342 122 DTECVICLSEFA-PG---ERVRLLPKCNHGFHVRCIDKWLRSNSSCPKC 166 (210)
Q Consensus 122 ~~~CaICLeef~-~~---~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlC 166 (210)
...|.-|++..- .+ +.+.++. |+|+||..|+..-..+++ |-.|
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 357999988865 22 4566675 999999999887765544 5444
No 135
>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=68.46 E-value=3.9 Score=39.37 Aligned_cols=32 Identities=19% Similarity=0.123 Sum_probs=19.9
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 028342 46 FDSNVLMVLSVLLCALICAIGLASLVKCSLRC 77 (210)
Q Consensus 46 ~~~~~iiil~il~~~li~~l~l~~i~~~~~r~ 77 (210)
=+.++|||+++++.++++++++++++.++-|.
T Consensus 265 ~~~NlWII~gVlvPv~vV~~Iiiil~~~LCRk 296 (684)
T PF12877_consen 265 PPNNLWIIAGVLVPVLVVLLIIIILYWKLCRK 296 (684)
T ss_pred CCCCeEEEehHhHHHHHHHHHHHHHHHHHhcc
Confidence 34578888888877666666555554444333
No 136
>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=68.22 E-value=9 Score=25.17 Aligned_cols=49 Identities=22% Similarity=0.569 Sum_probs=34.2
Q ss_pred CccccccCcccCCC-ceEEcCCCCCccchHHHHHHHhcCCCCccccccccccc
Q 028342 123 TECVICLSEFAPGE-RVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESC 174 (210)
Q Consensus 123 ~~CaICLeef~~~~-~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~ 174 (210)
..|-.|-.++..+. ..++.. =..-|+.+|.+.-| +..||.|-..|+..+
T Consensus 6 pnCE~C~~dLp~~s~~A~ICS-fECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICS-FECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CCccccCCCCCCCCCcceEEe-EeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 45777777776655 334322 22569999999966 778999988887654
No 137
>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=67.97 E-value=5.6 Score=22.68 Aligned_cols=37 Identities=30% Similarity=0.574 Sum_probs=24.2
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCccccccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCL 170 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l 170 (210)
.|+.|-+.+.+++..... =+..||.+|+ .|..|+..|
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcC
Confidence 378888888776344332 4678998774 466776655
No 138
>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus [].; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane
Probab=66.82 E-value=11 Score=27.11 Aligned_cols=36 Identities=8% Similarity=0.009 Sum_probs=24.7
Q ss_pred CCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028342 39 NRGGESSFDSNVLMVLSVLLCALICAIGLASLVKCS 74 (210)
Q Consensus 39 ~~~~~~~~~~~~iiil~il~~~li~~l~l~~i~~~~ 74 (210)
+.+++..|.....+++.+++++.++-|++.+++|=+
T Consensus 27 p~ss~~~ws~vv~v~i~~lvaVg~~YL~y~~fLkDl 62 (91)
T PF01708_consen 27 PSSSGLPWSRVVEVAIFTLVAVGCLYLAYTWFLKDL 62 (91)
T ss_pred CCCCCCcceeEeeeeehHHHHHHHHHHHHHHHHHHH
Confidence 445667777777777777777777777776665543
No 139
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=63.73 E-value=3.4 Score=38.16 Aligned_cols=34 Identities=26% Similarity=0.598 Sum_probs=28.2
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHh
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLR 158 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~ 158 (210)
++-.|+||..-|++ .++|| |+|..+..|-..-+.
T Consensus 3 eelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYRE---PIILP-CSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccC---ceEee-cccHHHHHHHHhhcc
Confidence 34689999988886 67888 999999999887663
No 140
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=63.73 E-value=6.5 Score=38.67 Aligned_cols=48 Identities=31% Similarity=0.658 Sum_probs=32.5
Q ss_pred CCCCCccccccCcccC----C-----CceEEcCCCCCccchHHHHHHHhcCCCCccccccc
Q 028342 119 PGLDTECVICLSEFAP----G-----ERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCL 170 (210)
Q Consensus 119 ~~~~~~CaICLeef~~----~-----~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l 170 (210)
...+..|+-|...|-. | ...-.+|.|+|.-|.+=|.. ...||+|...+
T Consensus 1128 ~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1128 DPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred CccCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 3456778888777751 1 12335678999999776543 57899997654
No 141
>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=63.22 E-value=9.1 Score=33.66 Aligned_cols=6 Identities=0% Similarity=0.252 Sum_probs=2.3
Q ss_pred HHHHHH
Q 028342 69 SLVKCS 74 (210)
Q Consensus 69 ~i~~~~ 74 (210)
+++|++
T Consensus 277 LILRYR 282 (299)
T PF02009_consen 277 LILRYR 282 (299)
T ss_pred HHHHHH
Confidence 334433
No 142
>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=63.19 E-value=5.3 Score=25.34 Aligned_cols=39 Identities=26% Similarity=0.462 Sum_probs=26.4
Q ss_pred cccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccccc
Q 028342 125 CVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIES 173 (210)
Q Consensus 125 CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~ 173 (210)
|+.|-..+..++.++.. -+..||.+|+ .|-.|+..|...
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEcccc--------ccCCCCCccCCC
Confidence 67787777766655332 6778887764 577887777644
No 143
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.16 E-value=4.8 Score=37.16 Aligned_cols=36 Identities=28% Similarity=0.618 Sum_probs=29.2
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS 159 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~ 159 (210)
...+|-||.+.+.. .+..+. |+|.|+..|....+.+
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred ccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 34799999999876 444555 9999999999999855
No 144
>PF11057 Cortexin: Cortexin of kidney; InterPro: IPR020066 Cortexin is a neuron-specific, 82-residue membrane protein which is found especially in vertebrate brain cortex tissue. It may mediate extracellular or intracellular signalling of cortical neurons during forebrain development. Cortexin is present at significant levels in the foetal brain, suggesting that it may be important to neurons of both the developing and adult cerebral cortex. Cortexin has a conserved single membrane-spanning region in the middle of each sequence []. In humans, there is selective expression of Cortexin 3 (CTXN3) in the kidney as well as the brain []. This entry contains Cortexins 1, 2 and 3.; GO: 0031224 intrinsic to membrane
Probab=61.05 E-value=16 Score=25.42 Aligned_cols=10 Identities=20% Similarity=0.178 Sum_probs=5.1
Q ss_pred HHHHHHHHhc
Q 028342 67 LASLVKCSLR 76 (210)
Q Consensus 67 l~~i~~~~~r 76 (210)
.++++||++-
T Consensus 42 ~~liVRCfrI 51 (81)
T PF11057_consen 42 GLLIVRCFRI 51 (81)
T ss_pred HHHHHHHHHH
Confidence 3445566543
No 145
>PRK05978 hypothetical protein; Provisional
Probab=60.76 E-value=5.7 Score=31.32 Aligned_cols=32 Identities=19% Similarity=0.468 Sum_probs=23.3
Q ss_pred cCCCC--CccchHHHHHHHhcCCCCcccccccccccccc
Q 028342 141 LPKCN--HGFHVRCIDKWLRSNSSCPKCRHCLIESCQKI 177 (210)
Q Consensus 141 lp~C~--H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~~~ 177 (210)
+|+|| +.|+ .+|+.+..||.|-.++...+.+.
T Consensus 36 CP~CG~G~LF~-----g~Lkv~~~C~~CG~~~~~~~a~D 69 (148)
T PRK05978 36 CPACGEGKLFR-----AFLKPVDHCAACGEDFTHHRADD 69 (148)
T ss_pred CCCCCCCcccc-----cccccCCCccccCCccccCCccc
Confidence 34444 7776 78899999999988877665543
No 146
>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=60.40 E-value=2.9 Score=36.61 Aligned_cols=6 Identities=17% Similarity=0.307 Sum_probs=0.0
Q ss_pred cccccc
Q 028342 124 ECVICL 129 (210)
Q Consensus 124 ~CaICL 129 (210)
..++=|
T Consensus 209 ~~P~Il 214 (290)
T PF05454_consen 209 KSPVIL 214 (290)
T ss_dssp ------
T ss_pred CCCeee
Confidence 444433
No 147
>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=60.06 E-value=3.9 Score=27.32 Aligned_cols=36 Identities=19% Similarity=0.446 Sum_probs=18.9
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHH
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWL 157 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl 157 (210)
...|.+|...|.--..-.....||++|+..|.....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 478999999996544444455799999999876543
No 148
>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=59.14 E-value=8.9 Score=21.42 Aligned_cols=29 Identities=17% Similarity=0.446 Sum_probs=11.2
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHH
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCI 153 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI 153 (210)
.|.+|-++... +..-....|.-.+|.+|+
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 47888777665 455556679999999985
No 149
>PF14914 LRRC37AB_C: LRRC37A/B like protein 1 C-terminal domain
Probab=59.13 E-value=22 Score=28.08 Aligned_cols=30 Identities=20% Similarity=0.476 Sum_probs=13.1
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028342 45 SFDSNVLMVLSVLLCALICAIGLASLVKCS 74 (210)
Q Consensus 45 ~~~~~~iiil~il~~~li~~l~l~~i~~~~ 74 (210)
+|+..+++.+.+.+++.+++++|.++-.|.
T Consensus 116 gY~nklilaisvtvv~~iliii~CLiei~s 145 (154)
T PF14914_consen 116 GYNNKLILAISVTVVVMILIIIFCLIEICS 145 (154)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344344444444444444444444443333
No 150
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=57.68 E-value=30 Score=24.91 Aligned_cols=6 Identities=17% Similarity=0.589 Sum_probs=2.4
Q ss_pred HHHHhc
Q 028342 71 VKCSLR 76 (210)
Q Consensus 71 ~~~~~r 76 (210)
+.|++.
T Consensus 52 fvCC~k 57 (94)
T PF05393_consen 52 FVCCKK 57 (94)
T ss_pred HHHHHH
Confidence 344443
No 151
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.24 E-value=5.4 Score=36.22 Aligned_cols=43 Identities=26% Similarity=0.579 Sum_probs=32.4
Q ss_pred CccccccCcccCCCce--EEcCCCCCccchHHHHHHHhcCCCCccc
Q 028342 123 TECVICLSEFAPGERV--RLLPKCNHGFHVRCIDKWLRSNSSCPKC 166 (210)
Q Consensus 123 ~~CaICLeef~~~~~v--r~lp~C~H~FH~~CI~~Wl~~~~~CPlC 166 (210)
..|+.|.--++..+.. .... |||.|+..|...|...+..|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 6788887776644433 4555 99999999999998777777554
No 152
>PF05510 Sarcoglycan_2: Sarcoglycan alpha/epsilon; InterPro: IPR008908 Sarcoglycans are a subcomplex of transmembrane proteins which are part of the dystrophin-glycoprotein complex. They are expressed in the skeletal, cardiac and smooth muscle. Although numerous studies have been conducted on the sarcoglycan subcomplex in skeletal and cardiac muscle, the manner of the distribution and localisation of these proteins along the nonjunctional sarcolemma is not clear []. This family contains alpha and epsilon members.; GO: 0016012 sarcoglycan complex
Probab=57.17 E-value=26 Score=31.99 Aligned_cols=30 Identities=17% Similarity=0.278 Sum_probs=12.9
Q ss_pred CCCCCChhHHHHHHHHHHH-HHHHHHHHHHH
Q 028342 42 GESSFDSNVLMVLSVLLCA-LICAIGLASLV 71 (210)
Q Consensus 42 ~~~~~~~~~iiil~il~~~-li~~l~l~~i~ 71 (210)
...+|...+++.++|-+++ +++++++.++.
T Consensus 277 p~R~y~~d~~vtl~iPl~i~llL~llLs~Im 307 (386)
T PF05510_consen 277 PGRDYFPDFLVTLAIPLIIALLLLLLLSYIM 307 (386)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344555554444444433 33333333333
No 153
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=56.99 E-value=10 Score=32.53 Aligned_cols=49 Identities=22% Similarity=0.303 Sum_probs=35.3
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIES 173 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~ 173 (210)
..|+|---+|...-.-..+-.|||+|-..-+.+. ...+|++|.+...+.
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 5799988777765443333349999998888774 356899998866543
No 154
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=56.53 E-value=15 Score=27.30 Aligned_cols=20 Identities=20% Similarity=0.398 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 028342 52 MVLSVLLCALICAIGLASLV 71 (210)
Q Consensus 52 iil~il~~~li~~l~l~~i~ 71 (210)
.+++++..++++.+++.++.
T Consensus 2 ~Ll~il~llLll~l~asl~~ 21 (107)
T PF15330_consen 2 LLLGILALLLLLSLAASLLA 21 (107)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555554443
No 155
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=55.83 E-value=24 Score=35.05 Aligned_cols=27 Identities=19% Similarity=0.217 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHhc
Q 028342 50 VLMVLSVLLCALICAIGLA-SLVKCSLR 76 (210)
Q Consensus 50 ~iiil~il~~~li~~l~l~-~i~~~~~r 76 (210)
.+++++||..++++++++. +++.+|+|
T Consensus 272 T~fLl~ILG~~~livl~lL~vLl~yCrr 299 (807)
T PF10577_consen 272 TVFLLAILGGTALIVLILLCVLLCYCRR 299 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 4667777764444444443 33333444
No 156
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=55.83 E-value=17 Score=32.37 Aligned_cols=48 Identities=21% Similarity=0.530 Sum_probs=34.7
Q ss_pred CccccccCcccCCCce-EEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 123 TECVICLSEFAPGERV-RLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 123 ~~CaICLeef~~~~~v-r~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
..|+||-+.....+-. .=.| |++..+..|...-...+.+||.||....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccc
Confidence 7899999887443332 2244 8888888888877778889999994433
No 157
>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=55.43 E-value=10 Score=24.03 Aligned_cols=35 Identities=20% Similarity=0.468 Sum_probs=25.4
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHH
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWL 157 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl 157 (210)
..|.+|-..|.....-.....||++|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 57899988887644334445699999999977654
No 158
>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=53.70 E-value=13 Score=30.40 Aligned_cols=18 Identities=28% Similarity=0.296 Sum_probs=10.1
Q ss_pred cchHHHHHHH--hcCCCCcc
Q 028342 148 FHVRCIDKWL--RSNSSCPK 165 (210)
Q Consensus 148 FH~~CI~~Wl--~~~~~CPl 165 (210)
-..+-+..|| .++..+|.
T Consensus 124 ~~G~~~R~~L~~Lr~~~~p~ 143 (186)
T PF07406_consen 124 LPGENFRSYLLDLRNSSTPL 143 (186)
T ss_pred cccccHHHHHHHHHhccCCc
Confidence 3356678887 33444543
No 159
>PF14979 TMEM52: Transmembrane 52
Probab=53.47 E-value=44 Score=26.36 Aligned_cols=35 Identities=31% Similarity=0.430 Sum_probs=14.0
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHH-HHHH-HHhccCc
Q 028342 45 SFDSNVLMVLSVLLCALICAIGLA-SLVK-CSLRCSR 79 (210)
Q Consensus 45 ~~~~~~iiil~il~~~li~~l~l~-~i~~-~~~r~~~ 79 (210)
.+...|.|.|++++++++++-++. ..+| |++|+.+
T Consensus 15 ~W~~LWyIwLill~~~llLLCG~ta~C~rfCClrk~~ 51 (154)
T PF14979_consen 15 RWSSLWYIWLILLIGFLLLLCGLTASCVRFCCLRKQA 51 (154)
T ss_pred ceehhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 344444444433333333332222 2244 5555553
No 160
>PF15298 AJAP1_PANP_C: AJAP1/PANP C-terminus
Probab=53.42 E-value=6.9 Score=32.26 Aligned_cols=37 Identities=19% Similarity=0.222 Sum_probs=25.5
Q ss_pred CCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028342 39 NRGGESSFDSNVLMVLSVLLCALICAIGLASLVKCSL 75 (210)
Q Consensus 39 ~~~~~~~~~~~~iiil~il~~~li~~l~l~~i~~~~~ 75 (210)
.....++++...+|-+.|-+++++++|+-.++++.|.
T Consensus 89 ~~g~t~Glavh~~iTITvSlImViaAliTtlvlK~C~ 125 (205)
T PF15298_consen 89 IFGDTSGLAVHQIITITVSLIMVIAALITTLVLKNCC 125 (205)
T ss_pred ccCCCCCCCceEEEEEeeehhHHHHHhhhhhhhhhhh
Confidence 3344457888777777777777777777777766554
No 161
>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=52.75 E-value=19 Score=22.77 Aligned_cols=40 Identities=28% Similarity=0.648 Sum_probs=17.2
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHH--HHHHhc---C--CCCcccccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCI--DKWLRS---N--SSCPKCRHC 169 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI--~~Wl~~---~--~~CPlCR~~ 169 (210)
.|+|....+.- .+|-.. |.|. +|+ +.||.. + -.||+|.++
T Consensus 4 ~CPls~~~i~~--P~Rg~~-C~H~---~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRI--PVRGKN-CKHL---QCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SS--EEEETT---SS-----EEHHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEe--CccCCc-Cccc---ceECHHHHHHHhhccCCeECcCCcCc
Confidence 57777666543 455554 8887 454 345532 2 269999753
No 162
>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=52.61 E-value=46 Score=25.54 Aligned_cols=11 Identities=18% Similarity=0.338 Sum_probs=5.1
Q ss_pred ChhHHHHHHhh
Q 028342 7 TTTQLFQDFLG 17 (210)
Q Consensus 7 ~~~~~~~~~~~ 17 (210)
+-.+|+|...+
T Consensus 12 ~L~~l~q~~~~ 22 (129)
T PF02060_consen 12 FLSKLWQETVQ 22 (129)
T ss_dssp THHHHHHHHHH
T ss_pred HHHHHHHHHhc
Confidence 34455554433
No 163
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=52.45 E-value=2.6 Score=36.86 Aligned_cols=38 Identities=29% Similarity=0.599 Sum_probs=30.8
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCC
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNS 161 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~ 161 (210)
.+|.+|++++..+....... |.-+||..|+-.|+....
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhh-cccccccccccccccccc
Confidence 49999999998766666664 666999999999987665
No 164
>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 PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=51.88 E-value=12 Score=23.99 Aligned_cols=25 Identities=36% Similarity=0.902 Sum_probs=14.5
Q ss_pred cCCCCCccchHHHHHHHhcCCCCccc
Q 028342 141 LPKCNHGFHVRCIDKWLRSNSSCPKC 166 (210)
Q Consensus 141 lp~C~H~FH~~CI~~Wl~~~~~CPlC 166 (210)
.+.|||.|...=-+. ......||.|
T Consensus 31 C~~Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 31 CPKCGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred CCCCCCeeEccHhhh-ccCCCCCCCC
Confidence 456777766442222 2456679988
No 166
>PHA02844 putative transmembrane protein; Provisional
Probab=51.76 E-value=58 Score=22.63 Aligned_cols=15 Identities=20% Similarity=0.459 Sum_probs=7.7
Q ss_pred ChhHHHHHHhhcccc
Q 028342 7 TTTQLFQDFLGKFHS 21 (210)
Q Consensus 7 ~~~~~~~~~~~~~~~ 21 (210)
++++=|..|..-..+
T Consensus 15 S~DdDFnnFI~vVks 29 (75)
T PHA02844 15 SENEDFNNFIDVVKS 29 (75)
T ss_pred CchHHHHHHHHHHHH
Confidence 445555555554443
No 167
>PRK01844 hypothetical protein; Provisional
Probab=51.28 E-value=29 Score=23.96 Aligned_cols=26 Identities=15% Similarity=0.066 Sum_probs=11.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028342 49 NVLMVLSVLLCALICAIGLASLVKCS 74 (210)
Q Consensus 49 ~~iiil~il~~~li~~l~l~~i~~~~ 74 (210)
.++++++++..++-+++++++..++.
T Consensus 4 ~~~I~l~I~~li~G~~~Gff~ark~~ 29 (72)
T PRK01844 4 WLGILVGVVALVAGVALGFFIARKYM 29 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555444444444444433333
No 168
>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=50.66 E-value=4.5 Score=27.81 Aligned_cols=40 Identities=23% Similarity=0.480 Sum_probs=19.2
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
..|+.|..++.... +|.++..|-.. ++....||-|..+|.
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHH
Confidence 46899988765433 33333444332 345668999988765
No 169
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=50.50 E-value=75 Score=28.37 Aligned_cols=44 Identities=16% Similarity=0.345 Sum_probs=31.5
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCC---CCcccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNS---SCPKCR 167 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~---~CPlCR 167 (210)
-.|++=-++-.+......+. |||+.-.+-++.--++.. .||.|-
T Consensus 337 FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 337 FICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 46887666555545556665 999999999888655533 699993
No 170
>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=50.09 E-value=14 Score=26.91 Aligned_cols=30 Identities=13% Similarity=0.048 Sum_probs=16.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 028342 49 NVLMVLSVLLCALICAIGLASLVKCSLRCS 78 (210)
Q Consensus 49 ~~iiil~il~~~li~~l~l~~i~~~~~r~~ 78 (210)
.+|-.++....++++++++.+++.|+.|++
T Consensus 40 ayWpyLA~GGG~iLilIii~Lv~CC~~K~K 69 (98)
T PF07204_consen 40 AYWPYLAAGGGLILILIIIALVCCCRAKHK 69 (98)
T ss_pred hhhHHhhccchhhhHHHHHHHHHHhhhhhh
Confidence 355566655555555555555555555554
No 171
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=49.88 E-value=5.4 Score=25.78 Aligned_cols=22 Identities=36% Similarity=0.768 Sum_probs=17.2
Q ss_pred CCceEEcCCCCCccchHHHHHH
Q 028342 135 GERVRLLPKCNHGFHVRCIDKW 156 (210)
Q Consensus 135 ~~~vr~lp~C~H~FH~~CI~~W 156 (210)
++.....+.|+|.|+..|-..|
T Consensus 37 ~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 37 GCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCeeECCCCCCeECCCCCCcC
Confidence 3445667669999999998888
No 172
>PF15065 NCU-G1: Lysosomal transcription factor, NCU-G1
Probab=48.46 E-value=14 Score=33.17 Aligned_cols=41 Identities=24% Similarity=0.292 Sum_probs=28.3
Q ss_pred CCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhccCc
Q 028342 39 NRGGESSFDSNVLMVLSVLLCALICAIGLASLVKCSLRCSR 79 (210)
Q Consensus 39 ~~~~~~~~~~~~iiil~il~~~li~~l~l~~i~~~~~r~~~ 79 (210)
..++...|...+++++++.+.+-++++++..++.|++|+++
T Consensus 308 G~PP~d~~S~lvi~i~~vgLG~P~l~li~Ggl~v~~~r~r~ 348 (350)
T PF15065_consen 308 GSPPVDSFSPLVIMIMAVGLGVPLLLLILGGLYVCLRRRRK 348 (350)
T ss_pred CCCCccchhHHHHHHHHHHhhHHHHHHHHhhheEEEecccc
Confidence 44666778888888888777777776666666666655543
No 173
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=48.45 E-value=19 Score=32.12 Aligned_cols=67 Identities=19% Similarity=0.355 Sum_probs=40.8
Q ss_pred cHhhhhhcceeeeccccCCC-CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccc
Q 028342 100 KQKALKTFTVVKYSTELKLP-GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCR 167 (210)
Q Consensus 100 ~~~~i~~lp~~~y~~~~~~~-~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR 167 (210)
.+.--..+|...|....... .....|-.|.++...+...+ ++.|.|.|+.+|=.---..=..||.|.
T Consensus 307 ARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~-C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 307 ARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYR-CESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred HHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEE-chhccceeeccchHHHHhhhhcCCCcC
Confidence 34444455655555432211 23356999988877665554 445999999999333223334799995
No 174
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=48.42 E-value=7.8 Score=37.81 Aligned_cols=36 Identities=22% Similarity=0.506 Sum_probs=29.7
Q ss_pred CceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 136 ERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 136 ~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
..+..+|.|.-+||.+=++.-...+..||.||.+--
T Consensus 1042 ~~it~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1042 ASITMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred chhhhCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 445567789999999988888888999999998643
No 175
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=47.93 E-value=23 Score=31.47 Aligned_cols=52 Identities=23% Similarity=0.546 Sum_probs=35.1
Q ss_pred CCCccccccCccc---------------CCC-ceEEcCCCCCccchHHHHHHHhc---------CCCCcccccccccc
Q 028342 121 LDTECVICLSEFA---------------PGE-RVRLLPKCNHGFHVRCIDKWLRS---------NSSCPKCRHCLIES 173 (210)
Q Consensus 121 ~~~~CaICLeef~---------------~~~-~vr~lp~C~H~FH~~CI~~Wl~~---------~~~CPlCR~~l~~~ 173 (210)
.+.+|++|+..=. .|. .-..-| |||+--++=..-|-+. +..||.|-..|...
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 4589999987521 000 112345 9999888889999754 44699997776644
No 176
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=47.93 E-value=24 Score=31.01 Aligned_cols=30 Identities=17% Similarity=0.259 Sum_probs=14.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhccCc
Q 028342 49 NVLMVLSVLLCALICAIGLASLVKCSLRCSR 79 (210)
Q Consensus 49 ~~iiil~il~~~li~~l~l~~i~~~~~r~~~ 79 (210)
....+++.++++++++|++++++. .+|.+|
T Consensus 254 ~~t~I~aSiiaIliIVLIMvIIYL-ILRYRR 283 (299)
T PF02009_consen 254 LTTAIIASIIAILIIVLIMVIIYL-ILRYRR 283 (299)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence 444445555555555554444444 444444
No 177
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=47.56 E-value=70 Score=22.10 Aligned_cols=13 Identities=15% Similarity=0.473 Sum_probs=5.8
Q ss_pred ChhHHHHHHhhcc
Q 028342 7 TTTQLFQDFLGKF 19 (210)
Q Consensus 7 ~~~~~~~~~~~~~ 19 (210)
++++=|..|..-.
T Consensus 15 s~ddDf~~Fi~vV 27 (72)
T PF12575_consen 15 SSDDDFNNFINVV 27 (72)
T ss_pred CCHHHHHHHHHHH
Confidence 3444444444443
No 178
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=46.50 E-value=34 Score=24.32 Aligned_cols=20 Identities=25% Similarity=0.514 Sum_probs=9.9
Q ss_pred CCCCChhHHHHHHHHHHHHH
Q 028342 43 ESSFDSNVLMVLSVLLCALI 62 (210)
Q Consensus 43 ~~~~~~~~iiil~il~~~li 62 (210)
-..++++..+.+.+++++++
T Consensus 19 ~~~l~pn~lMtILivLVIIi 38 (85)
T PF10717_consen 19 LNGLNPNTLMTILIVLVIII 38 (85)
T ss_pred ccccChhHHHHHHHHHHHHH
Confidence 34566665554444443333
No 179
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=46.43 E-value=28 Score=27.47 Aligned_cols=20 Identities=15% Similarity=0.160 Sum_probs=8.9
Q ss_pred cccccccccccccccCCCCC
Q 028342 164 PKCRHCLIESCQKIVGCSQA 183 (210)
Q Consensus 164 PlCR~~l~~~~~~~~~~~~~ 183 (210)
|+=..++.+...-..|-+..
T Consensus 117 pvt~npvtdrl~matggpaa 136 (189)
T PF05568_consen 117 PVTNNPVTDRLVMATGGPAA 136 (189)
T ss_pred CccCCccccccccccCCccc
Confidence 44444555444433343333
No 180
>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=46.28 E-value=6.6 Score=35.73 Aligned_cols=45 Identities=22% Similarity=0.545 Sum_probs=0.0
Q ss_pred CCCCccccccCcccC-----------CCceEEcCCCCCccchHHHHHHHhc------CCCCccccc
Q 028342 120 GLDTECVICLSEFAP-----------GERVRLLPKCNHGFHVRCIDKWLRS------NSSCPKCRH 168 (210)
Q Consensus 120 ~~~~~CaICLeef~~-----------~~~vr~lp~C~H~FH~~CI~~Wl~~------~~~CPlCR~ 168 (210)
.....|+|=|..+.- .+.-.-+ +|||++- ...|-.. ..+||+||.
T Consensus 275 a~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl-~CGHVhG---~h~Wg~~~~~~~~~r~CPlCr~ 336 (416)
T PF04710_consen 275 AGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYL-NCGHVHG---YHNWGQDSDRDPRSRTCPLCRQ 336 (416)
T ss_dssp ------------------------------------------------------------------
T ss_pred hcCCCCCcCCCccccccccccccccccCceeec-cccceee---ecccccccccccccccCCCccc
Confidence 344789988776531 1111224 5999876 3467532 447999986
No 181
>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=46.25 E-value=27 Score=30.47 Aligned_cols=6 Identities=17% Similarity=-0.058 Sum_probs=2.3
Q ss_pred ccCccc
Q 028342 76 RCSRLE 81 (210)
Q Consensus 76 r~~~~~ 81 (210)
||++.|
T Consensus 285 rRK~sw 290 (295)
T TIGR01478 285 RRKKSW 290 (295)
T ss_pred hhcccc
Confidence 333333
No 182
>PF04639 Baculo_E56: Baculoviral E56 protein, specific to ODV envelope; InterPro: IPR006733 This family represents the E56 protein, which is localized to the occlusion derived virus (ODV) envelope, but not to the budded virus (BV) envelope []. Signals necessary for transport and/or retention into this structure are believed to be found within the C-terminal portion of ODV-E56.; GO: 0019031 viral envelope
Probab=45.64 E-value=22 Score=31.11 Aligned_cols=17 Identities=35% Similarity=0.518 Sum_probs=10.3
Q ss_pred HHHHhhccccccccccc
Q 028342 12 FQDFLGKFHSRKLLLQN 28 (210)
Q Consensus 12 ~~~~~~~~~~~~ll~~~ 28 (210)
|-||-+++..-.||=-+
T Consensus 244 ~gDLIgDLGLD~LLGe~ 260 (305)
T PF04639_consen 244 FGDLIGDLGLDWLLGEN 260 (305)
T ss_pred HHHHHHhcccccccCcc
Confidence 45666777666666444
No 183
>PHA02819 hypothetical protein; Provisional
Probab=45.57 E-value=96 Score=21.31 Aligned_cols=15 Identities=20% Similarity=0.472 Sum_probs=7.7
Q ss_pred ChhHHHHHHhhcccc
Q 028342 7 TTTQLFQDFLGKFHS 21 (210)
Q Consensus 7 ~~~~~~~~~~~~~~~ 21 (210)
++++=|..|..-..+
T Consensus 15 S~DdDFnnFI~VVks 29 (71)
T PHA02819 15 SSDDDFNNFINVVKS 29 (71)
T ss_pred CchhHHHHHHHHHHH
Confidence 445555555554443
No 184
>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=44.92 E-value=26 Score=29.38 Aligned_cols=9 Identities=22% Similarity=0.349 Sum_probs=4.0
Q ss_pred HHHHHHHHh
Q 028342 67 LASLVKCSL 75 (210)
Q Consensus 67 l~~i~~~~~ 75 (210)
+..++|+|+
T Consensus 56 i~v~vR~CR 64 (221)
T PF08374_consen 56 IVVLVRYCR 64 (221)
T ss_pred HHHHHHHHh
Confidence 334445444
No 185
>PHA02650 hypothetical protein; Provisional
Probab=44.43 E-value=63 Score=22.73 Aligned_cols=16 Identities=31% Similarity=0.503 Sum_probs=8.5
Q ss_pred CChhHHHHHHhhcccc
Q 028342 6 STTTQLFQDFLGKFHS 21 (210)
Q Consensus 6 ~~~~~~~~~~~~~~~~ 21 (210)
+++++=|..|..-..+
T Consensus 14 sS~DdDFnnFI~VVkS 29 (81)
T PHA02650 14 SSTDDDFNNFIDVVKS 29 (81)
T ss_pred CCcHHHHHHHHHHHHH
Confidence 3455556666555444
No 186
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=44.37 E-value=38 Score=26.74 Aligned_cols=13 Identities=23% Similarity=0.327 Sum_probs=6.1
Q ss_pred HHHHHHHhccCcc
Q 028342 68 ASLVKCSLRCSRL 80 (210)
Q Consensus 68 ~~i~~~~~r~~~~ 80 (210)
++++.|..|++++
T Consensus 47 vli~lcssRKkKa 59 (189)
T PF05568_consen 47 VLIYLCSSRKKKA 59 (189)
T ss_pred HHHHHHhhhhHHH
Confidence 3444555554444
No 187
>PHA02849 putative transmembrane protein; Provisional
Probab=44.16 E-value=50 Score=23.16 Aligned_cols=23 Identities=17% Similarity=0.316 Sum_probs=13.4
Q ss_pred CCCCCCChhHHHHHHHHHHHHHH
Q 028342 41 GGESSFDSNVLMVLSVLLCALIC 63 (210)
Q Consensus 41 ~~~~~~~~~~iiil~il~~~li~ 63 (210)
..+.+|....++++.+++.++.+
T Consensus 7 ~~d~~f~~g~v~vi~v~v~vI~i 29 (82)
T PHA02849 7 LNDIEFDAGAVTVILVFVLVISF 29 (82)
T ss_pred ccccccccchHHHHHHHHHHHHH
Confidence 45667777766666655544333
No 188
>TIGR03024 arch_pef_cterm PEF-C-terminal archaeal protein sorting domain. This domain, distantly related to the PEP-Cterm domain described in model TIGR02595, is found in Methanosarcina mazei in four different proteins, as well as in other archaea such as Methanococcoides burtonii. Several proteins with this domain have their genes only a short distance from a distant homology of EpsH, a proposed integral membrane transpeptidase.
Probab=44.11 E-value=38 Score=18.72 Aligned_cols=7 Identities=14% Similarity=0.330 Sum_probs=3.3
Q ss_pred CCCChhH
Q 028342 44 SSFDSNV 50 (210)
Q Consensus 44 ~~~~~~~ 50 (210)
++|+..+
T Consensus 2 PEF~~i~ 8 (26)
T TIGR03024 2 PEFSTIA 8 (26)
T ss_pred CCCcchH
Confidence 3566333
No 189
>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=44.03 E-value=68 Score=25.70 Aligned_cols=14 Identities=14% Similarity=-0.009 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHHHH
Q 028342 61 LICAIGLASLVKCS 74 (210)
Q Consensus 61 li~~l~l~~i~~~~ 74 (210)
+..++++++++|.+
T Consensus 104 ~s~l~i~yfvir~~ 117 (163)
T PF06679_consen 104 LSALAILYFVIRTF 117 (163)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333334444433
No 190
>PF04689 S1FA: DNA binding protein S1FA; InterPro: IPR006779 S1FA is an unusual small plant peptide of only 70 amino acids with a basic domain which contains a nuclear localization signal and a putative DNA binding helix. S1FA is highly conserved between dicotyledonous and monocotyledonous plants and may be a DNA-binding protein that specifically recognises the negative promoter element S1F [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=43.89 E-value=20 Score=24.23 Aligned_cols=33 Identities=15% Similarity=0.208 Sum_probs=21.5
Q ss_pred CCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028342 43 ESSFDSNVLMVLSVLLCALICAIGLASLVKCSL 75 (210)
Q Consensus 43 ~~~~~~~~iiil~il~~~li~~l~l~~i~~~~~ 75 (210)
..+|++-+|++|.+...+++++++-+.++-++.
T Consensus 7 ~KGlnPGlIVLlvV~g~ll~flvGnyvlY~Yaq 39 (69)
T PF04689_consen 7 AKGLNPGLIVLLVVAGLLLVFLVGNYVLYVYAQ 39 (69)
T ss_pred ccCCCCCeEEeehHHHHHHHHHHHHHHHHHHHh
Confidence 356888887777777766666665555554443
No 191
>PHA03054 IMV membrane protein; Provisional
Probab=43.51 E-value=1.1e+02 Score=21.10 Aligned_cols=15 Identities=20% Similarity=0.332 Sum_probs=7.5
Q ss_pred ChhHHHHHHhhcccc
Q 028342 7 TTTQLFQDFLGKFHS 21 (210)
Q Consensus 7 ~~~~~~~~~~~~~~~ 21 (210)
++++=|..|..-..+
T Consensus 15 s~d~Df~~Fi~vV~s 29 (72)
T PHA03054 15 SPEDDLTDFIEIVKS 29 (72)
T ss_pred CchHHHHHHHHHHHH
Confidence 345555555554433
No 192
>PRK00523 hypothetical protein; Provisional
Probab=43.38 E-value=45 Score=23.04 Aligned_cols=26 Identities=19% Similarity=0.065 Sum_probs=11.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028342 49 NVLMVLSVLLCALICAIGLASLVKCS 74 (210)
Q Consensus 49 ~~iiil~il~~~li~~l~l~~i~~~~ 74 (210)
.+++++++++.++-+++++++..++.
T Consensus 5 ~l~I~l~i~~li~G~~~Gffiark~~ 30 (72)
T PRK00523 5 GLALGLGIPLLIVGGIIGYFVSKKMF 30 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555544444444444333333
No 193
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=42.84 E-value=30 Score=23.59 Aligned_cols=24 Identities=8% Similarity=0.141 Sum_probs=15.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHH
Q 028342 46 FDSNVLMVLSVLLCALICAIGLAS 69 (210)
Q Consensus 46 ~~~~~iiil~il~~~li~~l~l~~ 69 (210)
|.+.-|..++++..+++.++.+..
T Consensus 28 ~sp~qW~aIGvi~gi~~~~lt~lt 51 (68)
T PF04971_consen 28 FSPSQWAAIGVIGGIFFGLLTYLT 51 (68)
T ss_pred cCcccchhHHHHHHHHHHHHHHHh
Confidence 555667777777766666555443
No 194
>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=42.73 E-value=8.1 Score=35.76 Aligned_cols=25 Identities=16% Similarity=0.150 Sum_probs=0.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHH
Q 028342 46 FDSNVLMVLSVLLCALICAIGLASL 70 (210)
Q Consensus 46 ~~~~~iiil~il~~~li~~l~l~~i 70 (210)
-.....++++++++++++++++.++
T Consensus 347 ~~~~~~~~l~vVlgvavlivVv~vi 371 (439)
T PF02480_consen 347 RTSRGAALLGVVLGVAVLIVVVGVI 371 (439)
T ss_dssp -------------------------
T ss_pred CCCcccchHHHHHHHHHHHHHHHHH
Confidence 3334445555554444444333333
No 195
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=42.37 E-value=17 Score=28.24 Aligned_cols=24 Identities=25% Similarity=0.560 Sum_probs=17.9
Q ss_pred EEcCCCCCccchHHHHHHHhcCCCCccccccc
Q 028342 139 RLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCL 170 (210)
Q Consensus 139 r~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l 170 (210)
..+++|||+|+ =-+.-||.|....
T Consensus 30 ~kC~~CG~v~~--------PPr~~Cp~C~~~~ 53 (140)
T COG1545 30 TKCKKCGRVYF--------PPRAYCPKCGSET 53 (140)
T ss_pred EEcCCCCeEEc--------CCcccCCCCCCCC
Confidence 34667999998 3456799998773
No 196
>PF07438 DUF1514: Protein of unknown function (DUF1514); InterPro: IPR009999 This entry is represented by Bacteriophage phi PVL, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Staphylococcus aureus and related bacteriophage proteins of around 65 residues in length. The function of this family is unknown.
Probab=41.93 E-value=27 Score=23.57 Aligned_cols=16 Identities=13% Similarity=0.368 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 028342 50 VLMVLSVLLCALICAI 65 (210)
Q Consensus 50 ~iiil~il~~~li~~l 65 (210)
+|+++++++++++++.
T Consensus 1 MWIiiSIvLai~lLI~ 16 (66)
T PF07438_consen 1 MWIIISIVLAIALLIS 16 (66)
T ss_pred ChhhHHHHHHHHHHHH
Confidence 4677777766555443
No 197
>PTZ00370 STEVOR; Provisional
Probab=41.47 E-value=30 Score=30.24 Aligned_cols=7 Identities=14% Similarity=-0.268 Sum_probs=2.7
Q ss_pred hccCccc
Q 028342 75 LRCSRLE 81 (210)
Q Consensus 75 ~r~~~~~ 81 (210)
+||++.|
T Consensus 280 rrRK~sw 286 (296)
T PTZ00370 280 RRRKNSW 286 (296)
T ss_pred Hhhcchh
Confidence 3444333
No 198
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.36 E-value=16 Score=31.29 Aligned_cols=32 Identities=16% Similarity=0.181 Sum_probs=27.1
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHH
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWL 157 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl 157 (210)
-+.|..||..+.+ ..+.| =||+|..+||-+.+
T Consensus 43 FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~i 74 (303)
T KOG3039|consen 43 FDCCSLTLQPCRD---PVITP-DGYLFDREAILEYI 74 (303)
T ss_pred cceeeeecccccC---CccCC-CCeeeeHHHHHHHH
Confidence 3789999999886 55566 79999999999987
No 199
>KOG3637 consensus Vitronectin receptor, alpha subunit [Extracellular structures]
Probab=40.86 E-value=17 Score=37.27 Aligned_cols=37 Identities=24% Similarity=0.160 Sum_probs=27.5
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhccCcc
Q 028342 44 SSFDSNVLMVLSVLLCALICAIGLASLVKCSLRCSRL 80 (210)
Q Consensus 44 ~~~~~~~iiil~il~~~li~~l~l~~i~~~~~r~~~~ 80 (210)
...-++|+|++++++.+++++|++.++.+|=+.++++
T Consensus 973 ~~~vp~wiIi~svl~GLLlL~llv~~LwK~GFFKR~r 1009 (1030)
T KOG3637|consen 973 ERPVPLWIIILSVLGGLLLLALLVLLLWKCGFFKRNR 1009 (1030)
T ss_pred CCccceeeehHHHHHHHHHHHHHHHHHHhcCccccCC
Confidence 3346688899999999888888888888775544443
No 200
>PLN02189 cellulose synthase
Probab=40.86 E-value=30 Score=35.47 Aligned_cols=50 Identities=22% Similarity=0.496 Sum_probs=35.8
Q ss_pred CCccccccCccc---CCCceEEcCCCCCccchHHHHHHHhc-CCCCcccccccc
Q 028342 122 DTECVICLSEFA---PGERVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCRHCLI 171 (210)
Q Consensus 122 ~~~CaICLeef~---~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR~~l~ 171 (210)
...|.||-+++. +|+.-..+..|+--.|..|.+-=-+. ++.||-|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 358999999964 55555566678888899999543333 457999987554
No 201
>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=40.73 E-value=7.5 Score=23.68 Aligned_cols=25 Identities=28% Similarity=0.587 Sum_probs=13.7
Q ss_pred CCCCccchHHHHHHHhcCCCCccccc
Q 028342 143 KCNHGFHVRCIDKWLRSNSSCPKCRH 168 (210)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CPlCR~ 168 (210)
+|||.|...--..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 47777764321110 22446999977
No 202
>PHA03240 envelope glycoprotein M; Provisional
Probab=40.12 E-value=33 Score=28.85 Aligned_cols=15 Identities=7% Similarity=0.326 Sum_probs=6.4
Q ss_pred hHHHHHHHHHHHHHH
Q 028342 49 NVLMVLSVLLCALIC 63 (210)
Q Consensus 49 ~~iiil~il~~~li~ 63 (210)
.+||++.++++++|+
T Consensus 213 ~~WIiilIIiIiIII 227 (258)
T PHA03240 213 IAWIFIAIIIIIVII 227 (258)
T ss_pred HhHHHHHHHHHHHHH
Confidence 344444444433333
No 203
>KOG4482 consensus Sarcoglycan complex, alpha/epsilon subunits [Function unknown]
Probab=40.04 E-value=56 Score=29.79 Aligned_cols=37 Identities=11% Similarity=0.208 Sum_probs=18.0
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhccCcc
Q 028342 44 SSFDSNVLMVLSVLLCALICAIGLASLVKCSLRCSRL 80 (210)
Q Consensus 44 ~~~~~~~iiil~il~~~li~~l~l~~i~~~~~r~~~~ 80 (210)
.+|.....+.++|.+.++++++++...+-|+.|-.+.
T Consensus 291 Rdyy~df~~tfaIpl~Valll~~~La~imc~rrEg~~ 327 (449)
T KOG4482|consen 291 RDYYGDFLHTFAIPLGVALLLVLALAYIMCCRREGQK 327 (449)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccc
Confidence 5555555555555554444444444444444444333
No 204
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=39.93 E-value=19 Score=20.14 Aligned_cols=29 Identities=24% Similarity=0.469 Sum_probs=19.3
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHH
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCI 153 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI 153 (210)
.|.||..+..... .-....|.-.+|..|.
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCccC
Confidence 5888877666543 4444558888887773
No 205
>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=39.80 E-value=18 Score=24.54 Aligned_cols=13 Identities=46% Similarity=1.221 Sum_probs=9.1
Q ss_pred ccchHHHHHHHhc
Q 028342 147 GFHVRCIDKWLRS 159 (210)
Q Consensus 147 ~FH~~CI~~Wl~~ 159 (210)
.||..|+..|++.
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999853
No 206
>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=39.74 E-value=76 Score=24.04 Aligned_cols=33 Identities=24% Similarity=0.416 Sum_probs=17.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH-HHHHhccCcc
Q 028342 48 SNVLMVLSVLLCALICAIGLASL-VKCSLRCSRL 80 (210)
Q Consensus 48 ~~~iiil~il~~~li~~l~l~~i-~~~~~r~~~~ 80 (210)
..+-.+|+-|+.+.+.+++...+ .||++|+.++
T Consensus 84 ~aLp~VIGGLcaL~LaamGA~~LLrR~cRr~arr 117 (126)
T PF03229_consen 84 FALPLVIGGLCALTLAAMGAGALLRRCCRRAARR 117 (126)
T ss_pred cchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455556565555555555444 4555555444
No 207
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=39.67 E-value=8.1 Score=33.82 Aligned_cols=35 Identities=23% Similarity=0.599 Sum_probs=28.6
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHH
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWL 157 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl 157 (210)
.+..|+-|.+-+...+.||.- =.|+||.+|+...+
T Consensus 91 fGTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~C~i 125 (383)
T KOG4577|consen 91 FGTKCSACQEGIPPTQVVRKA--QDFVYHLHCFACFI 125 (383)
T ss_pred hCCcchhhcCCCChHHHHHHh--hcceeehhhhhhHh
Confidence 357899999888887888764 57999999988664
No 208
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.86 E-value=68 Score=22.05 Aligned_cols=10 Identities=30% Similarity=0.378 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q 028342 54 LSVLLCALIC 63 (210)
Q Consensus 54 l~il~~~li~ 63 (210)
|.+++++++.
T Consensus 8 l~ivl~ll~G 17 (71)
T COG3763 8 LLIVLALLAG 17 (71)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 209
>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=38.76 E-value=38 Score=22.38 Aligned_cols=35 Identities=17% Similarity=0.255 Sum_probs=26.9
Q ss_pred CCccccccCcccC--CCceEEcCCCCCccchHHHHHH
Q 028342 122 DTECVICLSEFAP--GERVRLLPKCNHGFHVRCIDKW 156 (210)
Q Consensus 122 ~~~CaICLeef~~--~~~vr~lp~C~H~FH~~CI~~W 156 (210)
...|+.|-..... ......++.||+.+|.+-...+
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA~ 64 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAAR 64 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHHHHH
Confidence 4689999888776 5566777889999998865544
No 210
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=38.58 E-value=17 Score=32.15 Aligned_cols=47 Identities=17% Similarity=0.327 Sum_probs=28.3
Q ss_pred CCCccccccCcccCCCceEE--cCCCCCccchHHHHHHHhcCCCCccccc
Q 028342 121 LDTECVICLSEFAPGERVRL--LPKCNHGFHVRCIDKWLRSNSSCPKCRH 168 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~--lp~C~H~FH~~CI~~Wl~~~~~CPlCR~ 168 (210)
....|+||-..-... .++. -.+=.|.+|.-|-.+|-..+..||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s-~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS-VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh-eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 457999997763211 1111 0112244556677788788889999964
No 211
>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=37.82 E-value=12 Score=23.91 Aligned_cols=12 Identities=42% Similarity=0.808 Sum_probs=6.2
Q ss_pred CCcccccccccc
Q 028342 162 SCPKCRHCLIES 173 (210)
Q Consensus 162 ~CPlCR~~l~~~ 173 (210)
.||+|.+++.+.
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 799998888643
No 212
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=37.77 E-value=36 Score=26.43 Aligned_cols=15 Identities=33% Similarity=0.696 Sum_probs=11.7
Q ss_pred CCCcccccccccccc
Q 028342 161 SSCPKCRHCLIESCQ 175 (210)
Q Consensus 161 ~~CPlCR~~l~~~~~ 175 (210)
..||.|...|...+.
T Consensus 124 f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 124 FTCPRCGEELEEDDN 138 (147)
T ss_pred EECCCCCCEEEEcCc
Confidence 569999998886544
No 213
>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=37.19 E-value=33 Score=29.89 Aligned_cols=10 Identities=20% Similarity=0.424 Sum_probs=3.8
Q ss_pred HHHHHHHHHH
Q 028342 52 MVLSVLLCAL 61 (210)
Q Consensus 52 iil~il~~~l 61 (210)
|++++.++++
T Consensus 275 IaVG~~La~l 284 (306)
T PF01299_consen 275 IAVGAALAGL 284 (306)
T ss_pred HHHHHHHHHH
Confidence 3344444333
No 214
>PHA03283 envelope glycoprotein E; Provisional
Probab=37.06 E-value=57 Score=30.90 Aligned_cols=28 Identities=18% Similarity=0.217 Sum_probs=11.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 028342 48 SNVLMVLSVLLCALICAIGLASLVKCSLR 76 (210)
Q Consensus 48 ~~~iiil~il~~~li~~l~l~~i~~~~~r 76 (210)
..+..++++++++..++ ++.+.+.++.+
T Consensus 397 ~~~l~~~~~~~~~~~~~-~~~l~vw~c~~ 424 (542)
T PHA03283 397 RHYLAFLLAIICTCAAL-LVALVVWGCIL 424 (542)
T ss_pred cccchhHHHHHHHHHHH-HHHHhhhheee
Confidence 34444455554444433 33333444444
No 215
>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=37.00 E-value=15 Score=21.74 Aligned_cols=32 Identities=25% Similarity=0.656 Sum_probs=18.8
Q ss_pred EEcCCCCCccchHHHHHHHhcCCCCccccccccc
Q 028342 139 RLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIE 172 (210)
Q Consensus 139 r~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~ 172 (210)
++.+.||++||..=--. +....|..|-..|+-
T Consensus 2 r~C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNPP--KVEGVCDNCGGELVQ 33 (36)
T ss_dssp EEETTTTEEEETTTB----SSTTBCTTTTEBEBE
T ss_pred cCcCCCCCccccccCCC--CCCCccCCCCCeeEe
Confidence 35567999999321110 223468888776653
No 216
>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=36.97 E-value=11 Score=34.27 Aligned_cols=49 Identities=20% Similarity=0.458 Sum_probs=0.0
Q ss_pred CCccccccCccc-------------CC---CceEEcCCCCCccchHHHHHHHhc---------CCCCcccccccc
Q 028342 122 DTECVICLSEFA-------------PG---ERVRLLPKCNHGFHVRCIDKWLRS---------NSSCPKCRHCLI 171 (210)
Q Consensus 122 ~~~CaICLeef~-------------~~---~~vr~lp~C~H~FH~~CI~~Wl~~---------~~~CPlCR~~l~ 171 (210)
..+|++|+..=. .+ -....-| |||+-=.+...-|-+. +.-||.|-..|.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 579999986521 11 1123456 9999999999999643 346999977775
No 217
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=36.62 E-value=1.4e+02 Score=20.52 Aligned_cols=17 Identities=18% Similarity=0.583 Sum_probs=9.2
Q ss_pred hHHHHHHhhcccccccc
Q 028342 9 TQLFQDFLGKFHSRKLL 25 (210)
Q Consensus 9 ~~~~~~~~~~~~~~~ll 25 (210)
+++|..|++.+---++.
T Consensus 17 ~~~Y~~Ll~r~~e~~~~ 33 (82)
T PF13807_consen 17 RELYETLLQRYEEARLS 33 (82)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45666665555444444
No 218
>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=36.44 E-value=30 Score=30.16 Aligned_cols=29 Identities=14% Similarity=-0.075 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCc
Q 028342 51 LMVLSVLLCALICAIGLASLVKCSLRCSR 79 (210)
Q Consensus 51 iiil~il~~~li~~l~l~~i~~~~~r~~~ 79 (210)
.++-+++++++.++++++++..++.||+.
T Consensus 271 ~~vPIaVG~~La~lvlivLiaYli~Rrr~ 299 (306)
T PF01299_consen 271 DLVPIAVGAALAGLVLIVLIAYLIGRRRS 299 (306)
T ss_pred chHHHHHHHHHHHHHHHHHHhheeEeccc
Confidence 34444455555555555544444444443
No 219
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=35.99 E-value=21 Score=34.08 Aligned_cols=35 Identities=26% Similarity=0.509 Sum_probs=24.9
Q ss_pred CCCCccccccCcccCC-----------CceEEcCCCCCccchHHHHHH
Q 028342 120 GLDTECVICLSEFAPG-----------ERVRLLPKCNHGFHVRCIDKW 156 (210)
Q Consensus 120 ~~~~~CaICLeef~~~-----------~~vr~lp~C~H~FH~~CI~~W 156 (210)
+....|+||.|.|+.- +.|.+. =|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le--~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE--FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec--cCceeeccccchH
Confidence 3457899999999721 233332 5889999998874
No 220
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=35.43 E-value=41 Score=24.34 Aligned_cols=32 Identities=28% Similarity=0.565 Sum_probs=22.3
Q ss_pred CCccccccCcccCCCceEEcC--CCCCccchHHHHHH
Q 028342 122 DTECVICLSEFAPGERVRLLP--KCNHGFHVRCIDKW 156 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp--~C~H~FH~~CI~~W 156 (210)
...|.||... .|. ..... .|...||..|...+
T Consensus 55 ~~~C~iC~~~--~G~-~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKS--GGA-CIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCC--Cce-eEEcCCCCCCcCCCHHHHHHC
Confidence 4799999876 333 33333 49999999997653
No 221
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.31 E-value=11 Score=34.66 Aligned_cols=37 Identities=19% Similarity=0.398 Sum_probs=27.9
Q ss_pred CccccccCcccCCCceEE----cCCCCCccchHHHHHHHhc
Q 028342 123 TECVICLSEFAPGERVRL----LPKCNHGFHVRCIDKWLRS 159 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~----lp~C~H~FH~~CI~~Wl~~ 159 (210)
..|+.|....+.++..-. ...|+|.||..|+..|-..
T Consensus 227 k~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 227 KECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred ccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 569999999887763321 1139999999999999655
No 222
>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=35.18 E-value=33 Score=25.77 Aligned_cols=32 Identities=22% Similarity=0.339 Sum_probs=19.9
Q ss_pred EcCCCCCccchHHHHHHHhcCCCCcccccccccccccc
Q 028342 140 LLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESCQKI 177 (210)
Q Consensus 140 ~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~~~ 177 (210)
.+|.|+|.. .-+.+...|+.|+.+|.-.+...
T Consensus 71 ~CP~C~K~T------KmLGr~D~CM~C~~pLTLd~~le 102 (114)
T PF11023_consen 71 ECPNCGKQT------KMLGRVDACMHCKEPLTLDPSLE 102 (114)
T ss_pred ECCCCCChH------hhhchhhccCcCCCcCccCchhh
Confidence 355566552 22344557999999998665543
No 223
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.01 E-value=41 Score=23.36 Aligned_cols=30 Identities=20% Similarity=0.458 Sum_probs=23.4
Q ss_pred CCCccchHHHHHHHhcCCCCcccccccccccc
Q 028342 144 CNHGFHVRCIDKWLRSNSSCPKCRHCLIESCQ 175 (210)
Q Consensus 144 C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~ 175 (210)
=.|-|+.+|.+.- -+..||.|-..|+..+-
T Consensus 27 fEcTFCadCae~~--l~g~CPnCGGelv~RP~ 56 (84)
T COG3813 27 FECTFCADCAENR--LHGLCPNCGGELVARPI 56 (84)
T ss_pred EeeehhHhHHHHh--hcCcCCCCCchhhcCcC
Confidence 3478999998873 47789999888886654
No 224
>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=34.96 E-value=4.5 Score=35.09 Aligned_cols=46 Identities=20% Similarity=0.260 Sum_probs=19.6
Q ss_pred CCccccccCcccCCCceEEcC--CCCCccchHHHHHHHhcCCCCccccc
Q 028342 122 DTECVICLSEFAPGERVRLLP--KCNHGFHVRCIDKWLRSNSSCPKCRH 168 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp--~C~H~FH~~CI~~Wl~~~~~CPlCR~ 168 (210)
...|+||-..-.-+ .++.-. +=.|.+|.-|=..|--.+..||.|-.
T Consensus 172 ~g~CPvCGs~P~~s-~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLS-VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEE-EEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceE-EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 47999997653210 111110 12455677788889777889999944
No 225
>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=34.85 E-value=33 Score=29.69 Aligned_cols=44 Identities=25% Similarity=0.461 Sum_probs=24.7
Q ss_pred CccccccCcccCCCceEEcCCCC-CccchHHHHHHH-hcCCCCccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCN-HGFHVRCIDKWL-RSNSSCPKC 166 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~-H~FH~~CI~~Wl-~~~~~CPlC 166 (210)
..|.||++-.-+|..-.-|..=+ =.=|.+|+++|- ..+..||--
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~prs 76 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPRS 76 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCcc
Confidence 46777776544332211111011 135899999994 667889943
No 226
>PHA02975 hypothetical protein; Provisional
Probab=34.36 E-value=1.4e+02 Score=20.36 Aligned_cols=15 Identities=20% Similarity=0.470 Sum_probs=7.7
Q ss_pred ChhHHHHHHhhcccc
Q 028342 7 TTTQLFQDFLGKFHS 21 (210)
Q Consensus 7 ~~~~~~~~~~~~~~~ 21 (210)
++++=|..|..-..+
T Consensus 15 S~DdDF~nFI~vVks 29 (69)
T PHA02975 15 SNDSDFEDFIDTIMH 29 (69)
T ss_pred CChHHHHHHHHHHHH
Confidence 445555555554443
No 227
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=34.34 E-value=1.2e+02 Score=20.10 Aligned_cols=8 Identities=13% Similarity=0.264 Sum_probs=3.3
Q ss_pred HHHHHHHh
Q 028342 68 ASLVKCSL 75 (210)
Q Consensus 68 ~~i~~~~~ 75 (210)
..++|...
T Consensus 24 tl~IRri~ 31 (58)
T PF13314_consen 24 TLFIRRIL 31 (58)
T ss_pred HHHHHHHH
Confidence 33444443
No 228
>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=34.26 E-value=51 Score=24.28 Aligned_cols=47 Identities=23% Similarity=0.477 Sum_probs=28.3
Q ss_pred CCccccccCcccCCCceE----EcCCC---CCccchHHHHHHHhc---------CCCCccccc
Q 028342 122 DTECVICLSEFAPGERVR----LLPKC---NHGFHVRCIDKWLRS---------NSSCPKCRH 168 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr----~lp~C---~H~FH~~CI~~Wl~~---------~~~CPlCR~ 168 (210)
+..|-.|...-.+....- ..+.| .=.|+..|+..++.. .-.||.||.
T Consensus 7 g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 7 GKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 456777766433211110 11346 678999999888743 125999986
No 229
>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=34.13 E-value=21 Score=33.50 Aligned_cols=42 Identities=26% Similarity=0.479 Sum_probs=25.9
Q ss_pred CCccccccCcccCCCceEEcCCCC-CccchHHHHHHHhcCCCCccccccccccccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCN-HGFHVRCIDKWLRSNSSCPKCRHCLIESCQK 176 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~-H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~~ 176 (210)
...|+-||+++-..+.-..-..|. +.|- ||.|-..|.....+
T Consensus 26 ~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~-------------CP~C~~~L~~~~~~ 68 (483)
T PF05502_consen 26 SYYCPNCLFEVPSSEARSEKNRCSRNCFD-------------CPICFSPLSVRASD 68 (483)
T ss_pred eeECccccccCChhhheeccceecccccc-------------CCCCCCcceeEecc
Confidence 368999999987655322222365 5554 78887777655443
No 230
>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=33.73 E-value=26 Score=26.18 Aligned_cols=46 Identities=20% Similarity=0.460 Sum_probs=27.4
Q ss_pred CCCccccccCccc--CCCceEEcCCCCCccchHHHHHHHhcCC--CCccccc
Q 028342 121 LDTECVICLSEFA--PGERVRLLPKCNHGFHVRCIDKWLRSNS--SCPKCRH 168 (210)
Q Consensus 121 ~~~~CaICLeef~--~~~~vr~lp~C~H~FH~~CI~~Wl~~~~--~CPlCR~ 168 (210)
.+..|++|...|. .+.. .....|+|.++..|-.. ..+.. .|-+|..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~-~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRG-RVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTC-EEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCC-CcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 4579999998864 2223 45566999999988444 11112 3777743
No 231
>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=33.37 E-value=18 Score=20.64 Aligned_cols=26 Identities=27% Similarity=0.782 Sum_probs=10.7
Q ss_pred CccccccCccc-CCCceEEcCCCCCcc
Q 028342 123 TECVICLSEFA-PGERVRLLPKCNHGF 148 (210)
Q Consensus 123 ~~CaICLeef~-~~~~vr~lp~C~H~F 148 (210)
..|+-|-.++. .+..+.+.|.|+|.+
T Consensus 3 p~Cp~C~se~~y~D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELLVCPECGHEW 29 (30)
T ss_dssp ---TTT-----EE-SSSEEETTTTEEE
T ss_pred CCCCCCCCcceeccCCEEeCCcccccC
Confidence 35777877754 223445677788753
No 232
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.35 E-value=20 Score=31.51 Aligned_cols=47 Identities=26% Similarity=0.570 Sum_probs=35.8
Q ss_pred CCCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccc
Q 028342 120 GLDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHC 169 (210)
Q Consensus 120 ~~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~ 169 (210)
+.++.|-||...+...+. ..+|.|.|...|-..|......||.||..
T Consensus 103 ~~~~~~~~~~g~l~vpt~---~qg~w~qf~~~~p~~~~~~~~~~~d~~~~ 149 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTR---IQGCWHQFCYVCPKSNFAMGNDCPDCRGK 149 (324)
T ss_pred CCccceeeeeeeEEeccc---ccCceeeeeecCCchhhhhhhccchhhcC
Confidence 345678888777654222 23599999999999999999999998763
No 233
>PTZ00046 rifin; Provisional
Probab=33.21 E-value=60 Score=29.33 Aligned_cols=29 Identities=10% Similarity=0.238 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCcc
Q 028342 51 LMVLSVLLCALICAIGLASLVKCSLRCSRL 80 (210)
Q Consensus 51 iiil~il~~~li~~l~l~~i~~~~~r~~~~ 80 (210)
-.+++.++++++++|++++++ ..+|.+|.
T Consensus 315 taIiaSiiAIvVIVLIMvIIY-LILRYRRK 343 (358)
T PTZ00046 315 TAIIASIVAIVVIVLIMVIIY-LILRYRRK 343 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHhhhc
Confidence 344444445455555444444 44454443
No 234
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=33.11 E-value=37 Score=19.70 Aligned_cols=10 Identities=30% Similarity=0.869 Sum_probs=5.7
Q ss_pred ccccccCccc
Q 028342 124 ECVICLSEFA 133 (210)
Q Consensus 124 ~CaICLeef~ 133 (210)
+|+-|-..|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 4666665554
No 235
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=32.99 E-value=22 Score=23.59 Aligned_cols=14 Identities=21% Similarity=0.826 Sum_probs=10.4
Q ss_pred CCCCcccccccccc
Q 028342 160 NSSCPKCRHCLIES 173 (210)
Q Consensus 160 ~~~CPlCR~~l~~~ 173 (210)
...||+|..+....
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 45799998877644
No 236
>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=32.92 E-value=30 Score=27.38 Aligned_cols=16 Identities=13% Similarity=0.142 Sum_probs=8.3
Q ss_pred HHHHHHHHHhccCccc
Q 028342 66 GLASLVKCSLRCSRLE 81 (210)
Q Consensus 66 ~l~~i~~~~~r~~~~~ 81 (210)
+++.-+.|...|+++.
T Consensus 22 Ll~cgiGcvwhwkhr~ 37 (158)
T PF11770_consen 22 LLLCGIGCVWHWKHRD 37 (158)
T ss_pred HHHHhcceEEEeeccC
Confidence 3344456666655543
No 237
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=32.60 E-value=20 Score=19.94 Aligned_cols=14 Identities=29% Similarity=0.717 Sum_probs=7.2
Q ss_pred CCcccccccccccc
Q 028342 162 SCPKCRHCLIESCQ 175 (210)
Q Consensus 162 ~CPlCR~~l~~~~~ 175 (210)
+||.|-..|+...+
T Consensus 1 ~CP~C~s~l~~~~~ 14 (28)
T PF03119_consen 1 TCPVCGSKLVREEG 14 (28)
T ss_dssp B-TTT--BEEE-CC
T ss_pred CcCCCCCEeEcCCC
Confidence 48999888885444
No 238
>PHA02657 hypothetical protein; Provisional
Probab=32.06 E-value=1.1e+02 Score=22.00 Aligned_cols=25 Identities=8% Similarity=0.292 Sum_probs=13.4
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHH
Q 028342 45 SFDSNVLMVLSVLLCALICAIGLAS 69 (210)
Q Consensus 45 ~~~~~~iiil~il~~~li~~l~l~~ 69 (210)
+|.+.+++.+.++++.+++++++.+
T Consensus 23 ~~~~imVitvfv~vI~il~flLLYL 47 (95)
T PHA02657 23 NFESILVFTIFIFVVCILIYLLIYL 47 (95)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHH
Confidence 4555666666555555555444433
No 239
>PF11669 WBP-1: WW domain-binding protein 1; InterPro: IPR021684 This family of proteins represents WBP-1, a ligand of the WW domain of Yes-associated protein. This protein has a proline-rich domain. WBP-1 does not bind to the SH3 domain [].
Probab=32.04 E-value=1.1e+02 Score=22.33 Aligned_cols=7 Identities=14% Similarity=0.031 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 028342 52 MVLSVLL 58 (210)
Q Consensus 52 iil~il~ 58 (210)
+...+++
T Consensus 21 ~w~FWlv 27 (102)
T PF11669_consen 21 LWYFWLV 27 (102)
T ss_pred HHHHHHH
Confidence 3333333
No 240
>PF02723 NS3_envE: Non-structural protein NS3/Small envelope protein E; InterPro: IPR003873 This is a family of small nonstructural proteins, well conserved among Coronavirus strains. This protein is also found in Murine hepatitis virus as small envelope protein E.; GO: 0016020 membrane
Probab=32.03 E-value=89 Score=22.14 Aligned_cols=35 Identities=29% Similarity=0.519 Sum_probs=17.9
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 028342 44 SSFDSNVLMVLSVLLCALICAIGLASLVKCSLRCS 78 (210)
Q Consensus 44 ~~~~~~~iiil~il~~~li~~l~l~~i~~~~~r~~ 78 (210)
+++=.+.++++.+.+.++++.+++...++.+..+.
T Consensus 10 ~~lVvNiil~llvc~~~liv~~AlL~~IqLC~~cc 44 (82)
T PF02723_consen 10 HGLVVNIILWLLVCLVVLIVCIALLQLIQLCFQCC 44 (82)
T ss_pred ceeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444555555555555555555555555554443
No 241
>PF15353 HECA: Headcase protein family homologue
Probab=31.83 E-value=28 Score=25.85 Aligned_cols=13 Identities=31% Similarity=0.907 Sum_probs=12.0
Q ss_pred CCCccchHHHHHH
Q 028342 144 CNHGFHVRCIDKW 156 (210)
Q Consensus 144 C~H~FH~~CI~~W 156 (210)
.++..|.+|++.|
T Consensus 40 ~~~~MH~~CF~~w 52 (107)
T PF15353_consen 40 FGQYMHRECFEKW 52 (107)
T ss_pred CCCchHHHHHHHH
Confidence 5799999999999
No 242
>PLN02436 cellulose synthase A
Probab=31.65 E-value=51 Score=33.98 Aligned_cols=50 Identities=26% Similarity=0.541 Sum_probs=35.4
Q ss_pred CCccccccCcc---cCCCceEEcCCCCCccchHHHHHHHhc-CCCCcccccccc
Q 028342 122 DTECVICLSEF---APGERVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCRHCLI 171 (210)
Q Consensus 122 ~~~CaICLeef---~~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR~~l~ 171 (210)
...|.||-+++ .+|+.-..+..|+--.|..|.+-=-+. ++.||-|+....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 35899999996 355655556667777999999543333 457999987554
No 243
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=31.57 E-value=1.3e+02 Score=20.91 Aligned_cols=9 Identities=11% Similarity=0.231 Sum_probs=3.4
Q ss_pred HHHHHHHHH
Q 028342 58 LCALICAIG 66 (210)
Q Consensus 58 ~~~li~~l~ 66 (210)
+.+|+..+.
T Consensus 13 f~ifVap~W 21 (75)
T PF06667_consen 13 FMIFVAPIW 21 (75)
T ss_pred HHHHHHHHH
Confidence 333333333
No 244
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=31.04 E-value=64 Score=22.68 Aligned_cols=50 Identities=22% Similarity=0.478 Sum_probs=21.1
Q ss_pred CCccccccCccc---CCCceEEcCCCCCccchHHHHHHHhc-CCCCcccccccc
Q 028342 122 DTECVICLSEFA---PGERVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCRHCLI 171 (210)
Q Consensus 122 ~~~CaICLeef~---~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR~~l~ 171 (210)
...|.||-+++- +|+.-.....|+--.+..|++-=.+. ++.||-|+....
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 468999988864 44444444457777788898766554 557999985543
No 245
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=31.03 E-value=29 Score=32.40 Aligned_cols=49 Identities=20% Similarity=0.534 Sum_probs=32.8
Q ss_pred CCcccccc-CcccCCCceEEcCCCCCccchHHHHHHHhc-----C---CCCccccccc
Q 028342 122 DTECVICL-SEFAPGERVRLLPKCNHGFHVRCIDKWLRS-----N---SSCPKCRHCL 170 (210)
Q Consensus 122 ~~~CaICL-eef~~~~~vr~lp~C~H~FH~~CI~~Wl~~-----~---~~CPlCR~~l 170 (210)
+..|.+|. ...-....+..+.+|+--||..|-..-.+. . -.|=+|+.-.
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 45699998 344444556666689999999997665422 1 1599996543
No 246
>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=30.95 E-value=71 Score=28.81 Aligned_cols=28 Identities=18% Similarity=0.282 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCcc
Q 028342 52 MVLSVLLCALICAIGLASLVKCSLRCSRL 80 (210)
Q Consensus 52 iil~il~~~li~~l~l~~i~~~~~r~~~~ 80 (210)
.+++.++++++++|++++ +...+|.+|.
T Consensus 311 ~IiaSiIAIvvIVLIMvI-IYLILRYRRK 338 (353)
T TIGR01477 311 PIIASIIAILIIVLIMVI-IYLILRYRRK 338 (353)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHhhhc
Confidence 344444444455454443 4445555543
No 247
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=30.78 E-value=41 Score=24.77 Aligned_cols=34 Identities=21% Similarity=0.402 Sum_probs=27.9
Q ss_pred ccccccCcccCCCceEEcCCCCCccchHHHHHHHhc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS 159 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~ 159 (210)
.|.||-+++-.|+.-..+.+ -.-|.+|+..=...
T Consensus 4 kC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~~ 37 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKK--GPVHYECFREKASK 37 (101)
T ss_pred EEEecCCeeeecceEEEecC--CcEeHHHHHHHHhh
Confidence 69999999999888877764 67899999876543
No 248
>PF07213 DAP10: DAP10 membrane protein; InterPro: IPR009861 This family consists of several mammalian DAP10 membrane proteins. In activated mouse natural killer (NK) cells, the NKG2D receptor associates with two intracellular adaptors, DAP10 and DAP12, which trigger phosphatidyl inositol 3 kinase (PI3K) and Syk family protein tyrosine kinases, respectively. It has been suggested that the DAP10-PI3K pathway is sufficient to initiate NKG2D-mediated killing of target cells [].
Probab=30.13 E-value=2e+02 Score=20.24 Aligned_cols=38 Identities=5% Similarity=0.063 Sum_probs=21.1
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q 028342 41 GGESSFDSNVLMVLSVLLCALICAIGLASLVKCSLRCS 78 (210)
Q Consensus 41 ~~~~~~~~~~iiil~il~~~li~~l~l~~i~~~~~r~~ 78 (210)
+..+=+.....++.++++.=+++.+++.....++-|.+
T Consensus 24 scs~C~~ls~g~LaGiV~~D~vlTLLIv~~vy~car~r 61 (79)
T PF07213_consen 24 SCSGCYPLSPGLLAGIVAADAVLTLLIVLVVYYCARPR 61 (79)
T ss_pred CCCCccccCHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 33344555666677777666666655555544444433
No 249
>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=29.94 E-value=34 Score=25.56 Aligned_cols=26 Identities=27% Similarity=0.623 Sum_probs=17.8
Q ss_pred CccccccCccc--CCCceEEcCCCCCccc
Q 028342 123 TECVICLSEFA--PGERVRLLPKCNHGFH 149 (210)
Q Consensus 123 ~~CaICLeef~--~~~~vr~lp~C~H~FH 149 (210)
..|+-|-.+|. +++ .-++|.|+|.+-
T Consensus 3 p~CP~C~seytY~dg~-~~iCpeC~~EW~ 30 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGT-QLICPSCLYEWN 30 (109)
T ss_pred CcCCcCCCcceEecCC-eeECcccccccc
Confidence 46999988865 433 456777888654
No 250
>PF06040 Adeno_E3: Adenovirus E3 protein; InterPro: IPR009266 This family consists of several Adenovirus E3 proteins. The E3 protein does not seem to be essential for virus replication in cultured cells suggesting that the protein may function in virus-host interactions [].
Probab=29.79 E-value=59 Score=24.56 Aligned_cols=22 Identities=18% Similarity=0.335 Sum_probs=13.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHH
Q 028342 46 FDSNVLMVLSVLLCALICAIGL 67 (210)
Q Consensus 46 ~~~~~iiil~il~~~li~~l~l 67 (210)
+-..=.++|++++..++++|..
T Consensus 84 ~evvG~l~LGvV~GG~i~vLcy 105 (127)
T PF06040_consen 84 WEVVGYLILGVVAGGLIAVLCY 105 (127)
T ss_pred eeeeehhhHHHHhccHHHHHHH
Confidence 3334456677777666666644
No 251
>PTZ00208 65 kDa invariant surface glycoprotein; Provisional
Probab=29.73 E-value=42 Score=30.77 Aligned_cols=23 Identities=30% Similarity=0.463 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 028342 49 NVLMVLSVLLCALICAIGLASLV 71 (210)
Q Consensus 49 ~~iiil~il~~~li~~l~l~~i~ 71 (210)
..+||+++|+.++|++++-..++
T Consensus 385 ~~~i~~avl~p~~il~~~~~~~~ 407 (436)
T PTZ00208 385 TAMIILAVLVPAIILAIIAVAFF 407 (436)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Confidence 45778888887777765444333
No 252
>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=29.56 E-value=57 Score=23.39 Aligned_cols=36 Identities=22% Similarity=0.406 Sum_probs=28.6
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
..|.-|.....-- -..| |-.|+..+..|..|++.+.
T Consensus 34 S~C~~C~~~L~~~---~lIP----------i~S~l~lrGrCr~C~~~I~ 69 (92)
T PF06750_consen 34 SHCPHCGHPLSWW---DLIP----------ILSYLLLRGRCRYCGAPIP 69 (92)
T ss_pred CcCcCCCCcCccc---ccch----------HHHHHHhCCCCcccCCCCC
Confidence 6899998776652 3455 7789999999999998775
No 253
>PHA03164 hypothetical protein; Provisional
Probab=29.20 E-value=1.9e+02 Score=20.27 Aligned_cols=11 Identities=27% Similarity=0.377 Sum_probs=4.8
Q ss_pred CChhHHHHHHh
Q 028342 6 STTTQLFQDFL 16 (210)
Q Consensus 6 ~~~~~~~~~~~ 16 (210)
|-.+-|.+++-
T Consensus 10 SYseVlmmdvm 20 (88)
T PHA03164 10 SYSEVLMMDVM 20 (88)
T ss_pred CHHHHHHHHHH
Confidence 33444444443
No 254
>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=28.57 E-value=88 Score=25.56 Aligned_cols=13 Identities=8% Similarity=0.289 Sum_probs=6.4
Q ss_pred CCCCccHhhhhhc
Q 028342 95 CSSGIKQKALKTF 107 (210)
Q Consensus 95 ~~~gl~~~~i~~l 107 (210)
..+.++++....+
T Consensus 54 a~K~lk~eIe~rL 66 (186)
T PF07406_consen 54 APKSLKEEIERRL 66 (186)
T ss_pred CcHhHHHHHHHHH
Confidence 4455555544443
No 255
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=28.56 E-value=58 Score=23.76 Aligned_cols=35 Identities=17% Similarity=0.469 Sum_probs=28.5
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHHHHhc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRS 159 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~ 159 (210)
-.|.||-+++..|+.-...+ .-..|.+|+..=.+.
T Consensus 7 wkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~~ 41 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKRK 41 (103)
T ss_pred eeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHhc
Confidence 58999999999999887775 556799999876544
No 256
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=28.39 E-value=70 Score=23.18 Aligned_cols=8 Identities=38% Similarity=0.866 Sum_probs=3.2
Q ss_pred HHHHHHHH
Q 028342 51 LMVLSVLL 58 (210)
Q Consensus 51 iiil~il~ 58 (210)
+++|++++
T Consensus 6 ~llL~l~L 13 (95)
T PF07172_consen 6 FLLLGLLL 13 (95)
T ss_pred HHHHHHHH
Confidence 34444433
No 257
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=28.27 E-value=1.1e+02 Score=23.87 Aligned_cols=10 Identities=10% Similarity=0.019 Sum_probs=3.8
Q ss_pred hhHHHHHHHH
Q 028342 48 SNVLMVLSVL 57 (210)
Q Consensus 48 ~~~iiil~il 57 (210)
+.+.++++++
T Consensus 116 ~~~~~i~~~i 125 (145)
T PF10661_consen 116 PISPTILLSI 125 (145)
T ss_pred chhHHHHHHH
Confidence 3333433333
No 258
>PRK14762 membrane protein; Provisional
Probab=28.23 E-value=1.1e+02 Score=16.71 Aligned_cols=17 Identities=29% Similarity=0.538 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 028342 50 VLMVLSVLLCALICAIG 66 (210)
Q Consensus 50 ~iiil~il~~~li~~l~ 66 (210)
.|++++++++.++.+.+
T Consensus 5 lw~i~iifligllvvtg 21 (27)
T PRK14762 5 LWAVLIIFLIGLLVVTG 21 (27)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444433
No 259
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=28.01 E-value=40 Score=28.61 Aligned_cols=26 Identities=27% Similarity=0.579 Sum_probs=19.2
Q ss_pred CccccccCcccCCCceEEcCCCCCccc
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFH 149 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH 149 (210)
-.|++|.+.+..++.--.++ .+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCc
Confidence 36999999997655555565 688884
No 260
>PF15145 DUF4577: Domain of unknown function (DUF4577)
Probab=27.83 E-value=78 Score=23.85 Aligned_cols=15 Identities=20% Similarity=0.215 Sum_probs=7.3
Q ss_pred CCCCCCccHhhhhhc
Q 028342 93 GSCSSGIKQKALKTF 107 (210)
Q Consensus 93 ~~~~~gl~~~~i~~l 107 (210)
+..+.|.+.+.++++
T Consensus 98 RL~aEgKdIdeLKKi 112 (128)
T PF15145_consen 98 RLTAEGKDIDELKKI 112 (128)
T ss_pred HHHhccCCHHHHHHH
Confidence 334455555555543
No 261
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.46 E-value=48 Score=32.42 Aligned_cols=46 Identities=24% Similarity=0.507 Sum_probs=32.2
Q ss_pred ccccccCcccCCCceEEcCCCCC-ccchHHHHHHH--hc----CCCCcccccccccc
Q 028342 124 ECVICLSEFAPGERVRLLPKCNH-GFHVRCIDKWL--RS----NSSCPKCRHCLIES 173 (210)
Q Consensus 124 ~CaICLeef~~~~~vr~lp~C~H-~FH~~CI~~Wl--~~----~~~CPlCR~~l~~~ 173 (210)
.|+||-.... .+ ....|+| ..+..|...-. .+ ...||+||..+..+
T Consensus 2 ~c~ic~~s~~---~~-~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~ 54 (669)
T KOG2231|consen 2 SCAICAFSPD---FV-GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETK 54 (669)
T ss_pred CcceeecCcc---cc-ccccccccccchhhhhhhhhhcccccccccCcccccceeee
Confidence 5999976544 23 3446999 89999988765 23 33579999977644
No 262
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=27.00 E-value=23 Score=31.21 Aligned_cols=41 Identities=22% Similarity=0.404 Sum_probs=27.4
Q ss_pred CCccccccCccc-----C---CCceEEcCCCCCccchHHHHHHHhcCCCCccccc
Q 028342 122 DTECVICLSEFA-----P---GERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRH 168 (210)
Q Consensus 122 ~~~CaICLeef~-----~---~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~ 168 (210)
...|+||-..-. . .+..| +.+|.-|-.+|-..+..||.|-.
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~R------yL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLR------YLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCce------EEEcCCCCCcccccCccCCCCCC
Confidence 469999977632 1 12333 44555667788778889999965
No 263
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=26.97 E-value=28 Score=30.50 Aligned_cols=32 Identities=28% Similarity=0.654 Sum_probs=24.7
Q ss_pred CccccccCcccCCCceEEcCCCCCccchHHHHH
Q 028342 123 TECVICLSEFAPGERVRLLPKCNHGFHVRCIDK 155 (210)
Q Consensus 123 ~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~ 155 (210)
..|.||+....+.+.+ .+.-|.-.||.-|+..
T Consensus 315 ~lC~IC~~P~~E~E~~-FCD~CDRG~HT~CVGL 346 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHL-FCDVCDRGPHTLCVGL 346 (381)
T ss_pred HhhhccCCcccchhee-ccccccCCCCcccccc
Confidence 4699999987775555 4445999999999864
No 264
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=26.92 E-value=47 Score=24.09 Aligned_cols=29 Identities=34% Similarity=0.705 Sum_probs=19.1
Q ss_pred CCCCccchHHHHHHHhcCCCCcccccccccccc
Q 028342 143 KCNHGFHVRCIDKWLRSNSSCPKCRHCLIESCQ 175 (210)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~ 175 (210)
+||-.|-.+= ++.-..||-|+..+.+.+.
T Consensus 63 kCGfef~~~~----ik~pSRCP~CKSE~Ie~pr 91 (97)
T COG3357 63 KCGFEFRDDK----IKKPSRCPKCKSEWIEEPR 91 (97)
T ss_pred ccCccccccc----cCCcccCCcchhhcccCCc
Confidence 5777776521 2334579999998886654
No 265
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.62 E-value=95 Score=23.47 Aligned_cols=6 Identities=17% Similarity=0.755 Sum_probs=2.2
Q ss_pred HHHHHH
Q 028342 52 MVLSVL 57 (210)
Q Consensus 52 iil~il 57 (210)
++++++
T Consensus 96 ~il~~v 101 (116)
T KOG0860|consen 96 IILGLV 101 (116)
T ss_pred HHHHHH
Confidence 333333
No 266
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=26.47 E-value=2.3e+02 Score=20.82 Aligned_cols=16 Identities=13% Similarity=0.148 Sum_probs=7.0
Q ss_pred hHHHHHHHHHHHHHHH
Q 028342 49 NVLMVLSVLLCALICA 64 (210)
Q Consensus 49 ~~iiil~il~~~li~~ 64 (210)
.+.|+|+.|+.+++.+
T Consensus 17 PWeIfLItLasVvvav 32 (106)
T PF14654_consen 17 PWEIFLITLASVVVAV 32 (106)
T ss_pred chHHHHHHHHHHHHHH
Confidence 3444444444444433
No 267
>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=26.40 E-value=87 Score=20.06 Aligned_cols=21 Identities=10% Similarity=0.382 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 028342 50 VLMVLSVLLCALICAIGLASL 70 (210)
Q Consensus 50 ~iiil~il~~~li~~l~l~~i 70 (210)
..-+-+.++++++++++++++
T Consensus 13 tLrigGLi~A~vlfi~Gi~ii 33 (50)
T PF02038_consen 13 TLRIGGLIFAGVLFILGILII 33 (50)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhccchHHHHHHHHHHHHHH
Confidence 334444444445554444444
No 268
>PRK11827 hypothetical protein; Provisional
Probab=26.21 E-value=25 Score=23.44 Aligned_cols=20 Identities=30% Similarity=0.461 Sum_probs=14.3
Q ss_pred HHHHhcCCCCcccccccccc
Q 028342 154 DKWLRSNSSCPKCRHCLIES 173 (210)
Q Consensus 154 ~~Wl~~~~~CPlCR~~l~~~ 173 (210)
+.||..---||+|+..|...
T Consensus 2 d~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred ChHHHhheECCCCCCcCeEc
Confidence 45666666788888887743
No 269
>PRK11877 psaI photosystem I reaction center subunit VIII; Reviewed
Probab=26.18 E-value=1.3e+02 Score=18.07 Aligned_cols=27 Identities=7% Similarity=-0.067 Sum_probs=17.6
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHH
Q 028342 44 SSFDSNVLMVLSVLLCALICAIGLASL 70 (210)
Q Consensus 44 ~~~~~~~iiil~il~~~li~~l~l~~i 70 (210)
+.+.+..+-++++++.++.+++.+..+
T Consensus 8 s~LPsI~VPlVGlvfPai~Mallf~yI 34 (38)
T PRK11877 8 SWLPWIFVPLVGWVFPAVFMVLLGRYI 34 (38)
T ss_pred HhCchHHHHHHHHHHHHHHHHHHHHHh
Confidence 445666777777777777766655543
No 270
>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=26.15 E-value=29 Score=26.63 Aligned_cols=21 Identities=24% Similarity=0.112 Sum_probs=2.9
Q ss_pred CChhHHHHHHHHHHHHHHHHH
Q 028342 46 FDSNVLMVLSVLLCALICAIG 66 (210)
Q Consensus 46 ~~~~~iiil~il~~~li~~l~ 66 (210)
|...+.|..+++..++++.++
T Consensus 75 ~~l~~pi~~sal~v~lVl~ll 95 (129)
T PF12191_consen 75 FPLLWPILGSALSVVLVLALL 95 (129)
T ss_dssp SSSS-----------------
T ss_pred cceehhhhhhHHHHHHHHHHH
Confidence 776677766666655554443
No 271
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=26.15 E-value=1.1e+02 Score=19.91 Aligned_cols=15 Identities=20% Similarity=0.357 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHHH
Q 028342 51 LMVLSVLLCALICAI 65 (210)
Q Consensus 51 iiil~il~~~li~~l 65 (210)
+++++.+++++++..
T Consensus 22 l~il~~f~~G~llg~ 36 (68)
T PF06305_consen 22 LLILIAFLLGALLGW 36 (68)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 272
>PF15183 MRAP: Melanocortin-2 receptor accessory protein family
Probab=25.87 E-value=69 Score=22.84 Aligned_cols=19 Identities=21% Similarity=0.317 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 028342 50 VLMVLSVLLCALICAIGLA 68 (210)
Q Consensus 50 ~iiil~il~~~li~~l~l~ 68 (210)
++|.+.+.+++|+++++++
T Consensus 38 IVI~FWv~LA~FV~~lF~i 56 (90)
T PF15183_consen 38 IVIAFWVSLAAFVVFLFLI 56 (90)
T ss_pred eehhHHHHHHHHHHHHHHH
Confidence 3344444444444444433
No 273
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=25.62 E-value=1e+02 Score=20.01 Aligned_cols=15 Identities=13% Similarity=0.372 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHH
Q 028342 50 VLMVLSVLLCALICA 64 (210)
Q Consensus 50 ~iiil~il~~~li~~ 64 (210)
+|+|+++++++++.-
T Consensus 5 ~wlIIviVlgvIigN 19 (55)
T PF11446_consen 5 PWLIIVIVLGVIIGN 19 (55)
T ss_pred hhHHHHHHHHHHHhH
Confidence 444444444434333
No 274
>PHA02692 hypothetical protein; Provisional
Probab=25.52 E-value=2.1e+02 Score=19.59 Aligned_cols=14 Identities=21% Similarity=0.503 Sum_probs=6.4
Q ss_pred ChhHHHHHHhhccc
Q 028342 7 TTTQLFQDFLGKFH 20 (210)
Q Consensus 7 ~~~~~~~~~~~~~~ 20 (210)
++++=|..|..-..
T Consensus 15 s~DdDF~~Fi~vVk 28 (70)
T PHA02692 15 NSDEDFEEFLNIVR 28 (70)
T ss_pred CCHHHHHHHHHHHH
Confidence 34444555544443
No 275
>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=25.44 E-value=1.1e+02 Score=26.79 Aligned_cols=31 Identities=13% Similarity=0.134 Sum_probs=12.9
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 028342 46 FDSNVLMVLSVLLCALICAIGLASLVKCSLR 76 (210)
Q Consensus 46 ~~~~~iiil~il~~~li~~l~l~~i~~~~~r 76 (210)
|.+.=+..|+.++.+++++++++.++|.+.+
T Consensus 258 F~Pcgiaalvllil~vvliiLYiWlyrrRK~ 288 (295)
T TIGR01478 258 FLPYGIAALVLIILTVVLIILYIWLYRRRKK 288 (295)
T ss_pred hcccHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4444333333333334444444444444443
No 276
>TIGR03052 PS_I_psaI photosystem I reaction center subunit VIII. Members of this protein family are PsaI, subunit VIII of the photosystem I reaction center. This protein is found in both the Cyanobacteria and the chloroplasts of plants, but is absent from non-oxygenic photosynthetic bacteria such as Rhodobacter sphaeroides. Species that contain photosystem I also contain photosystem II, which splits water and releases molecular oxygen.
Probab=25.37 E-value=1e+02 Score=17.72 Aligned_cols=24 Identities=13% Similarity=0.159 Sum_probs=15.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHH
Q 028342 46 FDSNVLMVLSVLLCALICAIGLAS 69 (210)
Q Consensus 46 ~~~~~iiil~il~~~li~~l~l~~ 69 (210)
+.+..+-++++++.++.+++.+..
T Consensus 3 LPsI~VPlVglvfPai~Ma~lf~y 26 (31)
T TIGR03052 3 LPSIFVPLVGLVFPAVFMALLFRY 26 (31)
T ss_pred CceeehhHHHHHHHHHHHHHHHHh
Confidence 445566677777776666665543
No 277
>KOG3653 consensus Transforming growth factor beta/activin receptor subfamily of serine/threonine kinases [Signal transduction mechanisms]
Probab=25.30 E-value=1.6e+02 Score=27.86 Aligned_cols=14 Identities=29% Similarity=0.745 Sum_probs=10.2
Q ss_pred cchH-HHHHHHhcCC
Q 028342 148 FHVR-CIDKWLRSNS 161 (210)
Q Consensus 148 FH~~-CI~~Wl~~~~ 161 (210)
||.. ++..||+.+-
T Consensus 289 fh~kGsL~dyL~~nt 303 (534)
T KOG3653|consen 289 FHPKGSLCDYLKANT 303 (534)
T ss_pred eccCCcHHHHHHhcc
Confidence 6655 8888887754
No 278
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=25.28 E-value=25 Score=37.30 Aligned_cols=49 Identities=27% Similarity=0.579 Sum_probs=38.5
Q ss_pred CCCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcCC----CCccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSNS----SCPKCRHCL 170 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~~----~CPlCR~~l 170 (210)
....|-||....++.+.+.-. .|.-.||..|+..-+..-. .||-||..-
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 347899999988875555444 5999999999999886644 699998766
No 279
>PRK10220 hypothetical protein; Provisional
Probab=25.23 E-value=56 Score=24.46 Aligned_cols=26 Identities=27% Similarity=0.745 Sum_probs=17.4
Q ss_pred CccccccCccc--CCCceEEcCCCCCccc
Q 028342 123 TECVICLSEFA--PGERVRLLPKCNHGFH 149 (210)
Q Consensus 123 ~~CaICLeef~--~~~~vr~lp~C~H~FH 149 (210)
..|+-|-.+|. +++ .-++|.|+|-+-
T Consensus 4 P~CP~C~seytY~d~~-~~vCpeC~hEW~ 31 (111)
T PRK10220 4 PHCPKCNSEYTYEDNG-MYICPECAHEWN 31 (111)
T ss_pred CcCCCCCCcceEcCCC-eEECCcccCcCC
Confidence 56899988865 333 456777777654
No 280
>PTZ00370 STEVOR; Provisional
Probab=24.03 E-value=1.1e+02 Score=26.86 Aligned_cols=31 Identities=19% Similarity=0.153 Sum_probs=13.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 028342 46 FDSNVLMVLSVLLCALICAIGLASLVKCSLR 76 (210)
Q Consensus 46 ~~~~~iiil~il~~~li~~l~l~~i~~~~~r 76 (210)
|.+.=+..|+.++.+++++++++.++|.+.+
T Consensus 254 F~Pygiaalvllil~vvliilYiwlyrrRK~ 284 (296)
T PTZ00370 254 FYPYGIAALVLLILAVVLIILYIWLYRRRKN 284 (296)
T ss_pred hcccHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4444333333333334444444444554443
No 281
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=23.89 E-value=1.3e+02 Score=27.46 Aligned_cols=14 Identities=21% Similarity=0.413 Sum_probs=7.2
Q ss_pred HHHHHHHHHhccCc
Q 028342 66 GLASLVKCSLRCSR 79 (210)
Q Consensus 66 ~l~~i~~~~~r~~~ 79 (210)
.+.++.+|+.|+.+
T Consensus 38 l~yl~~~CC~r~~~ 51 (406)
T PF04906_consen 38 LIYLICRCCCRRPR 51 (406)
T ss_pred HHHHHHHhhCCCCC
Confidence 33444566665543
No 282
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=23.86 E-value=8 Score=24.86 Aligned_cols=33 Identities=21% Similarity=0.581 Sum_probs=17.1
Q ss_pred cccc--ccCcccCCCc----eEEcCCCCCccchHHHHHH
Q 028342 124 ECVI--CLSEFAPGER----VRLLPKCNHGFHVRCIDKW 156 (210)
Q Consensus 124 ~CaI--CLeef~~~~~----vr~lp~C~H~FH~~CI~~W 156 (210)
.|+- |-.-+..++. ....+.|++.|+..|-..|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 5655 6555443222 1456678888888887776
No 283
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=23.71 E-value=49 Score=34.07 Aligned_cols=55 Identities=24% Similarity=0.366 Sum_probs=35.9
Q ss_pred CCCCCccccccCcccC-CCceEEcCCCCCccchHHHHHHHhcCCCCccccccccccc
Q 028342 119 PGLDTECVICLSEFAP-GERVRLLPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESC 174 (210)
Q Consensus 119 ~~~~~~CaICLeef~~-~~~vr~lp~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~~~~ 174 (210)
.+.+..|.||++-=.. .+.+..+..|+=..|.+|...= -...-+=+||..+....
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~-~ipeg~WlCr~Cl~s~~ 271 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIP-FIPEGQWLCRRCLQSPQ 271 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccCCC-CCCCCcEeehhhccCcC
Confidence 3567899999987443 3455567789999999999810 11223556666665443
No 284
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=23.20 E-value=2.5e+02 Score=19.97 Aligned_cols=15 Identities=13% Similarity=0.370 Sum_probs=7.7
Q ss_pred CCCCCccHhhhhhcc
Q 028342 94 SCSSGIKQKALKTFT 108 (210)
Q Consensus 94 ~~~~gl~~~~i~~lp 108 (210)
..+..+..++++.+-
T Consensus 47 ~F~D~lTpDQVrAlH 61 (92)
T PHA02681 47 SFEDKMTDDQVRAFH 61 (92)
T ss_pred hhhccCCHHHHHHHH
Confidence 344455555555543
No 285
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=23.18 E-value=62 Score=19.72 Aligned_cols=19 Identities=26% Similarity=0.784 Sum_probs=14.5
Q ss_pred HHHHhcCCCCccccccccc
Q 028342 154 DKWLRSNSSCPKCRHCLIE 172 (210)
Q Consensus 154 ~~Wl~~~~~CPlCR~~l~~ 172 (210)
.-|-.-..+||.|..+++.
T Consensus 11 ~G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 11 QGWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HhHhHhcCccCCCCCeeEE
Confidence 3455667789999888887
No 286
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=23.16 E-value=93 Score=32.18 Aligned_cols=50 Identities=24% Similarity=0.482 Sum_probs=34.3
Q ss_pred CCccccccCccc---CCCceEEcCCCCCccchHHHHHHHhc-CCCCcccccccc
Q 028342 122 DTECVICLSEFA---PGERVRLLPKCNHGFHVRCIDKWLRS-NSSCPKCRHCLI 171 (210)
Q Consensus 122 ~~~CaICLeef~---~~~~vr~lp~C~H~FH~~CI~~Wl~~-~~~CPlCR~~l~ 171 (210)
...|.||-+++. +|+.-..+..|+--.|..|.+-=-+. ++.||-|++...
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 358999999864 55544555557766899998532222 457999987554
No 287
>PLN02248 cellulose synthase-like protein
Probab=23.12 E-value=1.1e+02 Score=31.88 Aligned_cols=29 Identities=21% Similarity=0.533 Sum_probs=25.6
Q ss_pred CCCCccchHHHHHHHhcCCCCcccccccc
Q 028342 143 KCNHGFHVRCIDKWLRSNSSCPKCRHCLI 171 (210)
Q Consensus 143 ~C~H~FH~~CI~~Wl~~~~~CPlCR~~l~ 171 (210)
.|++..|.+|...-++....||-|+.+..
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYK 177 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCccccc
Confidence 38899999999999999999999988774
No 288
>PRK09702 PTS system arbutin-specific transporter subunit IIB; Provisional
Probab=22.90 E-value=99 Score=24.62 Aligned_cols=21 Identities=5% Similarity=-0.072 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHhccCccc
Q 028342 61 LICAIGLASLVKCSLRCSRLE 81 (210)
Q Consensus 61 li~~l~l~~i~~~~~r~~~~~ 81 (210)
+++++++.++++++.++++..
T Consensus 17 l~~f~iYyfvF~flI~kfnlk 37 (161)
T PRK09702 17 LCFTLLYFVVFRTLILQFNMC 37 (161)
T ss_pred HHHHHHHHHHHHHHHHHcCCC
Confidence 333344444555555555443
No 289
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=22.85 E-value=49 Score=28.46 Aligned_cols=42 Identities=19% Similarity=0.267 Sum_probs=29.4
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHHHHHHhcC--CCCccc
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCIDKWLRSN--SSCPKC 166 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI~~Wl~~~--~~CPlC 166 (210)
+..|+|=...+.+ ..+-.+|||+|-.+=|...+... -.||+=
T Consensus 176 s~rdPis~~~I~n---PviSkkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 176 SNRDPISKKPIVN---PVISKKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred cccCchhhhhhhc---hhhhcCcCcchhhhhHHHHhccCceeecccc
Confidence 3578887666654 22223699999999999998653 358863
No 290
>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=22.82 E-value=45 Score=28.00 Aligned_cols=18 Identities=17% Similarity=0.224 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHhccC
Q 028342 61 LICAIGLASLVKCSLRCS 78 (210)
Q Consensus 61 li~~l~l~~i~~~~~r~~ 78 (210)
++.+++++++...+++|+
T Consensus 47 ~~tVILVI~i~v~vR~CR 64 (221)
T PF08374_consen 47 IMTVILVIFIVVLVRYCR 64 (221)
T ss_pred hhhhHHHHHHHHHHHHHh
Confidence 333444455555554455
No 291
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, 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), 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=22.70 E-value=43 Score=19.38 Aligned_cols=8 Identities=38% Similarity=1.124 Sum_probs=5.0
Q ss_pred CCCccccc
Q 028342 161 SSCPKCRH 168 (210)
Q Consensus 161 ~~CPlCR~ 168 (210)
..||+|..
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 36777754
No 292
>KOG2678 consensus Predicted membrane protein [Function unknown]
Probab=22.29 E-value=1.5e+02 Score=25.08 Aligned_cols=25 Identities=0% Similarity=0.266 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 028342 50 VLMVLSVLLCALICAIGLASLVKCS 74 (210)
Q Consensus 50 ~iiil~il~~~li~~l~l~~i~~~~ 74 (210)
.|+.+++++++++.++.++++++..
T Consensus 216 ~wf~~~miI~v~~sFVsMiliiqif 240 (244)
T KOG2678|consen 216 YWFYITMIIFVILSFVSMILIIQIF 240 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444444444444444445555443
No 293
>CHL00186 psaI photosystem I subunit VIII; Validated
Probab=21.99 E-value=1.9e+02 Score=17.23 Aligned_cols=27 Identities=15% Similarity=0.161 Sum_probs=17.7
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHH
Q 028342 44 SSFDSNVLMVLSVLLCALICAIGLASL 70 (210)
Q Consensus 44 ~~~~~~~iiil~il~~~li~~l~l~~i 70 (210)
+.+.+..+-++++++.++.+++.+..+
T Consensus 4 s~LPsI~VPlVGlvfPai~Ma~lf~yI 30 (36)
T CHL00186 4 SNLPSILVPLVGLVFPAIAMASLFLYI 30 (36)
T ss_pred ccCchhHHhHHHHHHHHHHHHHHHHHh
Confidence 345666777777777777776665543
No 294
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.98 E-value=62 Score=27.52 Aligned_cols=29 Identities=17% Similarity=0.361 Sum_probs=20.8
Q ss_pred CCccccccCcccCCCceEEcCCCCCccchHHH
Q 028342 122 DTECVICLSEFAPGERVRLLPKCNHGFHVRCI 153 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr~lp~C~H~FH~~CI 153 (210)
...|+.|-. + ....-.+|.||+.+|.+=.
T Consensus 309 S~~C~~cg~-~--~~r~~~C~~cg~~~~rD~n 337 (364)
T COG0675 309 SKTCPCCGH-L--SGRLFKCPRCGFVHDRDVN 337 (364)
T ss_pred cccccccCC-c--cceeEECCCCCCeehhhHH
Confidence 468999987 2 2344567789999998843
No 295
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.69 E-value=15 Score=31.57 Aligned_cols=48 Identities=25% Similarity=0.474 Sum_probs=36.6
Q ss_pred CccccccCcccCCC--c-eEEcCC-------CCCccchHHHHHHHhcC-CCCccccccc
Q 028342 123 TECVICLSEFAPGE--R-VRLLPK-------CNHGFHVRCIDKWLRSN-SSCPKCRHCL 170 (210)
Q Consensus 123 ~~CaICLeef~~~~--~-vr~lp~-------C~H~FH~~CI~~Wl~~~-~~CPlCR~~l 170 (210)
..|.||...|..++ . .+++.. |+|-.+..|++.-+... ..||.||...
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~~ 266 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCccccee
Confidence 67999999998432 2 234433 99999999999998554 5899998764
No 296
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=21.55 E-value=89 Score=26.37 Aligned_cols=20 Identities=10% Similarity=0.192 Sum_probs=9.3
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 028342 49 NVLMVLSVLLCALICAIGLA 68 (210)
Q Consensus 49 ~~iiil~il~~~li~~l~l~ 68 (210)
..|+++++++++||+.++|+
T Consensus 229 ~~~~~i~~v~~~Fi~mvl~i 248 (251)
T PF09753_consen 229 WTWLMIFVVIIVFIMMVLFI 248 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 34444444444445444444
No 297
>PHA03291 envelope glycoprotein I; Provisional
Probab=21.55 E-value=1.3e+02 Score=27.26 Aligned_cols=24 Identities=4% Similarity=0.277 Sum_probs=11.8
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHH
Q 028342 41 GGESSFDSNVLMVLSVLLCALICA 64 (210)
Q Consensus 41 ~~~~~~~~~~iiil~il~~~li~~ 64 (210)
++..++....++=|+|=..+++++
T Consensus 278 ~sr~~Lt~~qiiQiAIPasii~cV 301 (401)
T PHA03291 278 ASRYELTVTQIIQIAIPASIIACV 301 (401)
T ss_pred hhhhhhhhhhhheeccchHHHHHh
Confidence 444455555555555544444443
No 298
>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=21.42 E-value=46 Score=22.14 Aligned_cols=12 Identities=42% Similarity=0.902 Sum_probs=9.5
Q ss_pred CCCCcccccccc
Q 028342 160 NSSCPKCRHCLI 171 (210)
Q Consensus 160 ~~~CPlCR~~l~ 171 (210)
+..||+|+..+-
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 567999988774
No 299
>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=21.30 E-value=62 Score=24.87 Aligned_cols=10 Identities=0% Similarity=0.009 Sum_probs=4.1
Q ss_pred HHHHhhcccc
Q 028342 12 FQDFLGKFHS 21 (210)
Q Consensus 12 ~~~~~~~~~~ 21 (210)
+-.|++.+..
T Consensus 13 L~~l~q~~~~ 22 (129)
T PF02060_consen 13 LSKLWQETVQ 22 (129)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHhc
Confidence 3344444433
No 300
>PRK04023 DNA polymerase II large subunit; Validated
Probab=21.15 E-value=44 Score=34.28 Aligned_cols=51 Identities=22% Similarity=0.293 Sum_probs=31.4
Q ss_pred CCCccccccCcccCCCceEEcCCCCC-----ccchHHHHHHHhcCCCCcccccccccccccc
Q 028342 121 LDTECVICLSEFAPGERVRLLPKCNH-----GFHVRCIDKWLRSNSSCPKCRHCLIESCQKI 177 (210)
Q Consensus 121 ~~~~CaICLeef~~~~~vr~lp~C~H-----~FH~~CI~~Wl~~~~~CPlCR~~l~~~~~~~ 177 (210)
....|+=|-... ....+|.||. .||.+| .+......||.|-..+.....+.
T Consensus 625 g~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~~s~~~ 680 (1121)
T PRK04023 625 GRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTPYSKRK 680 (1121)
T ss_pred cCccCCCCCCcC----CcccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCccceEE
Confidence 346788886663 2356777873 577777 33333456888877666544433
No 301
>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=21.13 E-value=38 Score=21.11 Aligned_cols=26 Identities=27% Similarity=0.551 Sum_probs=13.5
Q ss_pred CCCCCccchHHHHHHHhcCCCCccccc
Q 028342 142 PKCNHGFHVRCIDKWLRSNSSCPKCRH 168 (210)
Q Consensus 142 p~C~H~FH~~CI~~Wl~~~~~CPlCR~ 168 (210)
++|||.|-..--.. -.....||.|..
T Consensus 9 ~~Cg~~fe~~~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 9 TACGHRFEVLQKMS-DDPLATCPECGG 34 (52)
T ss_pred CCCCCEeEEEEecC-CCCCCCCCCCCC
Confidence 35888766321000 012336999976
No 302
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=21.12 E-value=84 Score=18.57 Aligned_cols=33 Identities=24% Similarity=0.530 Sum_probs=23.5
Q ss_pred CCccccccCcccCCC-ceEEcCCCCCccchHHHHH
Q 028342 122 DTECVICLSEFAPGE-RVRLLPKCNHGFHVRCIDK 155 (210)
Q Consensus 122 ~~~CaICLeef~~~~-~vr~lp~C~H~FH~~CI~~ 155 (210)
...|.+|.+.+.... .++ ...|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~-C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLR-CSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcC-CCCCCchHHHHHHhh
Confidence 357999988877532 333 345889999999875
No 303
>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=21.03 E-value=32 Score=30.13 Aligned_cols=6 Identities=17% Similarity=0.058 Sum_probs=0.0
Q ss_pred HHHHhc
Q 028342 71 VKCSLR 76 (210)
Q Consensus 71 ~~~~~r 76 (210)
+.|++|
T Consensus 166 a~icyr 171 (290)
T PF05454_consen 166 ACICYR 171 (290)
T ss_dssp ------
T ss_pred HHHhhh
Confidence 333333
No 304
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.82 E-value=49 Score=23.98 Aligned_cols=13 Identities=38% Similarity=1.160 Sum_probs=11.3
Q ss_pred ccchHHHHHHHhc
Q 028342 147 GFHVRCIDKWLRS 159 (210)
Q Consensus 147 ~FH~~CI~~Wl~~ 159 (210)
.||..|+..|.+.
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999965
No 305
>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=20.79 E-value=17 Score=28.86 Aligned_cols=30 Identities=20% Similarity=0.083 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCccc
Q 028342 50 VLMVLSVLLCALICAIGLASLVKCSLRCSRLE 81 (210)
Q Consensus 50 ~iiil~il~~~li~~l~l~~i~~~~~r~~~~~ 81 (210)
+.+++++.+.+++ +++.+++.++.|+++..
T Consensus 52 IGvVVGVGg~ill--~il~lvf~~c~r~kktd 81 (154)
T PF04478_consen 52 IGVVVGVGGPILL--GILALVFIFCIRRKKTD 81 (154)
T ss_pred EEEEecccHHHHH--HHHHhheeEEEecccCc
Confidence 4444444443333 33333444454544443
No 306
>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=20.61 E-value=33 Score=20.05 Aligned_cols=11 Identities=27% Similarity=0.836 Sum_probs=7.3
Q ss_pred CCCCccccccc
Q 028342 160 NSSCPKCRHCL 170 (210)
Q Consensus 160 ~~~CPlCR~~l 170 (210)
...||.|...+
T Consensus 26 ~~~CP~Cg~~~ 36 (41)
T smart00834 26 LATCPECGGDV 36 (41)
T ss_pred CCCCCCCCCcc
Confidence 34699997643
No 307
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=20.59 E-value=69 Score=22.12 Aligned_cols=32 Identities=34% Similarity=0.786 Sum_probs=21.6
Q ss_pred CCccccccCcccCCCceE-EcCCCCCccchHHHHH
Q 028342 122 DTECVICLSEFAPGERVR-LLPKCNHGFHVRCIDK 155 (210)
Q Consensus 122 ~~~CaICLeef~~~~~vr-~lp~C~H~FH~~CI~~ 155 (210)
...|.+|-.. .|..+. ..++|.-.||..|-..
T Consensus 36 ~~~C~~C~~~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKK--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCC--CCeEEEEeCCCCCcEEChHHHcc
Confidence 3689999755 233332 2346999999999654
No 308
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=20.15 E-value=1.1e+02 Score=24.10 Aligned_cols=36 Identities=19% Similarity=0.185 Sum_probs=21.1
Q ss_pred hhhcceeeeccccCCCCCCCccccccCcccCCCceEEc
Q 028342 104 LKTFTVVKYSTELKLPGLDTECVICLSEFAPGERVRLL 141 (210)
Q Consensus 104 i~~lp~~~y~~~~~~~~~~~~CaICLeef~~~~~vr~l 141 (210)
+.+.-.++|+.-.+.+ .+-..+++|-+-++ +.+...
T Consensus 80 ~~kvgvvRYnAF~dmG-g~LSFslAlLD~~~-nGvVlt 115 (151)
T PF14584_consen 80 VQKVGVVRYNAFEDMG-GDLSFSLALLDDNN-NGVVLT 115 (151)
T ss_pred cceEEEEEccCccccc-ccceeeeEEEeCCC-CEEEEE
Confidence 3445677787755443 34677888776443 444443
No 309
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=20.14 E-value=2.4e+02 Score=23.12 Aligned_cols=12 Identities=25% Similarity=0.506 Sum_probs=6.3
Q ss_pred CCCCCCChhHHH
Q 028342 41 GGESSFDSNVLM 52 (210)
Q Consensus 41 ~~~~~~~~~~ii 52 (210)
...+.||..-+|
T Consensus 153 ~~~s~FD~~SFi 164 (186)
T PF05283_consen 153 PKKSTFDAASFI 164 (186)
T ss_pred CCCCCCchhhhh
Confidence 345667754433
No 310
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=20.06 E-value=1.6e+02 Score=22.90 Aligned_cols=8 Identities=13% Similarity=0.331 Sum_probs=3.1
Q ss_pred hhHHHHHH
Q 028342 48 SNVLMVLS 55 (210)
Q Consensus 48 ~~~iiil~ 55 (210)
.+++.+++
T Consensus 6 ~~~~~~~~ 13 (164)
T PRK14473 6 INLGLLIA 13 (164)
T ss_pred CcHHHHHH
Confidence 33443333
No 311
>PHA02947 S-S bond formation pathway protein; Provisional
Probab=20.05 E-value=1.6e+02 Score=24.71 Aligned_cols=29 Identities=14% Similarity=0.402 Sum_probs=17.1
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 028342 45 SFDSNVLMVLSVLLCALICAIGLASLVKC 73 (210)
Q Consensus 45 ~~~~~~iiil~il~~~li~~l~l~~i~~~ 73 (210)
.|....|.+++++++++++++++..+.|-
T Consensus 174 ~~~~~~W~i~~~~~i~~i~~i~i~~irR~ 202 (215)
T PHA02947 174 PYSNKPWFIVGVVIILIIFVIAICSIKRK 202 (215)
T ss_pred CcCCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 35443566667776666666666655443
No 312
>PRK00420 hypothetical protein; Validated
Probab=20.02 E-value=83 Score=23.61 Aligned_cols=11 Identities=18% Similarity=0.615 Sum_probs=7.9
Q ss_pred CCccccccCcc
Q 028342 122 DTECVICLSEF 132 (210)
Q Consensus 122 ~~~CaICLeef 132 (210)
+..|++|-.++
T Consensus 23 ~~~CP~Cg~pL 33 (112)
T PRK00420 23 SKHCPVCGLPL 33 (112)
T ss_pred cCCCCCCCCcc
Confidence 36899987664
Done!